A computational approach identifies two regions of Hepatitis C Virus E1 protein as interacting domains involved in viral fusion process
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A. Giuliani | R. Bruni | A. Costantino | E. Tritarelli | C. Marcantonio | M. Ciccozzi | M. Rapicetta | G. El Sawaf | A. Ciccaglione
[1] D. Koshland. Application of a Theory of Enzyme Specificity to Protein Synthesis. , 1958, Proceedings of the National Academy of Sciences of the United States of America.
[2] F. Thomé‐Beau,et al. [ATP:thiamine pyrophosphotransferase. Purification and a study of the reaction mechanism]. , 1969, Biochimica et biophysica acta.
[3] F. B. Fuller. The writhing number of a space curve. , 1971, Proceedings of the National Academy of Sciences of the United States of America.
[4] J. Norby. Studies on a coupled enzyme assay for rate measurements of ATPase reactions. , 1971, Acta chemica Scandinavica.
[5] J. Eccleston,et al. Elementary processes of the magnesium ion-dependent adenosine triphosphatase activity of heavy meromyosin. A transient kinetic approach to the study of kinases and adenosine triphosphatases and a colorimetric inorganic phosphate assay in situ. , 1972, The Biochemical journal.
[6] V. Veljković,et al. Simple General-Model Pseudopotential , 1972 .
[7] V. Veljković,et al. The dependence of the fermi energy on the atomic number , 1973 .
[8] J. Lanyi,et al. Salt-dependent properties of proteins from extremely halophilic bacteria. , 1974, Bacteriological reviews.
[9] D. Lancet,et al. Kinetic evidence for hapten-induced conformational transition in immunoglobin MOPC 460. , 1976, Proceedings of the National Academy of Sciences of the United States of America.
[10] V. Veljković,et al. Theoretical prediction of mutagenicity and carcinogenicity of chemical substances. , 1976, Cancer biochemistry biophysics.
[11] W. Kabsch. A solution for the best rotation to relate two sets of vectors , 1976 .
[12] J. de Jersey,et al. Iron-containing acid phosphatases: comparison of the enzymes from beef spleen and pig allantoic fluid. , 1978, Biochemical and biophysical research communications.
[13] C. Stammer,et al. The enzyme stability of dehydropeptides. , 1978, Biochemical and biophysical research communications.
[14] Gaetano Granozzi,et al. On the conformational flexibility of model compounds of β-substituted α, β-unsaturated peptides , 1982 .
[15] M. Karplus,et al. Harmonic dynamics of proteins: normal modes and fluctuations in bovine pancreatic trypsin inhibitor. , 1983, Proceedings of the National Academy of Sciences of the United States of America.
[16] W. Kabsch,et al. Dictionary of protein secondary structure: Pattern recognition of hydrogen‐bonded and geometrical features , 1983, Biopolymers.
[17] M. Ishioroshi,et al. Scanning Calorimetric Studies on Thermal Denaturation of Myosin and Its Subfragments , 1983 .
[18] G. Richarme. Associative properties of the Escherichia coli galactose-binding protein and maltose-binding protein. , 1982, Biochimica et biophysica acta.
[19] P. Aisen,et al. Physical characterization of two-iron uteroferrin. Evidence for a spin-coupled binuclear iron cluster. , 1983, The Journal of biological chemistry.
[20] B. Qiang,et al. A type II restriction endonuclease with an eight nucleotide specificity from Streptomyces fimbriatus. , 1984, Nucleic acids research.
[21] A. Muhlrad,et al. Effect of mild heat treatment on the ATPase activity and proteolytic sensitivity of myosin subfragment-1. , 1984, Archives of biochemistry and biophysics.
[22] I. Cosic,et al. Is it Possible to Analyze DNA and Protein Sequences by the Methods of Digital Signal Processing? , 1985, IEEE Transactions on Biomedical Engineering.
[23] R. Roberts,et al. The type 5, acid phosphatase from spleen of humans with hairy cell leukemia. Purification, properties, immunological characterization, and comparison with porcine uteroferrin. , 1985, The Journal of biological chemistry.
[24] L. Gierasch,et al. Dehydrophenylalanine can occur in various reverse-turn sites: conformational analysis of delta Phe-containing model peptides. , 1986, Biopolymers.
[25] P. Privalov,et al. Scanning microcalorimetry in studying temperature-induced changes in proteins. , 1986, Methods in enzymology.
[26] A. Summors,et al. Properties of a purple phosphatase from red kidney bean: a zinc-iron metalloenzyme , 1986 .
[27] I. Cosic,et al. A novel method of protein analysis for prediction of biological function: application to tumor toxins. , 1987, Cancer biochemistry biophysics.
[28] James C. Davis,et al. Spectroscopic and magnetic studies of the purple acid phosphatase from bovine spleen , 1987 .
[29] H. Baker,et al. Structure of human lactoferrin at 3.2-A resolution. , 1987, Proceedings of the National Academy of Sciences of the United States of America.
[30] J. Sturtevant. Biochemical Applications of Differential Scanning Calorimetry , 1987 .
[31] J. Schellman. The thermodynamic stability of proteins. , 1987, Annual review of biophysics and biophysical chemistry.
[32] M. Hendrich,et al. Properties of the Fe(II)-Fe(III) derivative of red kidney bean purple phosphatase. Evidence for a binuclear zinc-iron center in the native enzyme , 1988 .
[33] J. L. López-Lacomba,et al. Differential scanning calorimetry of the irreversible thermal denaturation of thermolysin. , 1988, Biochemistry.
[34] Wolfgang Kabsch,et al. Evaluation of Single-Crystal X-ray Diffraction Data from a Position-Sensitive Detector , 1988 .
[35] M. Carlier,et al. Binding of phosphate to F-ADP-actin and role of F-ADP-Pi-actin in ATP-actin polymerization. , 1988, The Journal of biological chemistry.
[36] M. Carlier,et al. Probing the mechanism of ATP hydrolysis on F-actin using vanadate and the structural analogs of phosphate BeF-3 and A1F-4. , 1988, The Journal of biological chemistry.
[37] T. Hozumi. Structural aspects of skeletal muscle F-actin as studied by tryptic digestion: evidence for a second nucleotide interacting site. , 1988, Journal of biochemistry.
[38] F. Quiocho. Protein-carbohydrate interactions: basic molecular features , 1989 .
[39] S. Halford,et al. Discrimination between DNA sequences by the EcoRV restriction endonuclease. , 1989, Biochemistry.
[40] N. Sharon,et al. Lectins as cell recognition molecules. , 1989, Science.
[41] G. N. Rogers,et al. Receptor binding properties of human and animal H1 influenza virus isolates. , 1989, Virology.
[42] J F Brandts,et al. A simple model for proteins with interacting domains. Applications to scanning calorimetry data. , 1989, Biochemistry.
[43] Stefan Fischer,et al. Stabilization of Actin Filaments by ATP and Inorganic Phosphate , 1989, Zeitschrift fur Naturforschung. C, Journal of biosciences.
[44] P. V. von Hippel,et al. Calculation of protein extinction coefficients from amino acid sequence data. , 1989, Analytical biochemistry.
[45] R. Butterworth,et al. Effect of Pyrithiamine Treatment and Subsequent Thiamine Rehabilitation on Regional Cerebral Amino Acids and Thiamine‐Dependent Enzymes , 1989, Journal of neurochemistry.
[46] E. Myers,et al. Basic local alignment search tool. , 1990, Journal of molecular biology.
[47] P. D. de Jong,et al. Ligation-independent cloning of PCR products (LIC-PCR). , 1990, Nucleic acids research.
[48] T. Tsong,et al. Effects of ions and pH on the thermal stability of thin and thick filaments of skeletal muscle: high-sensitivity differential scanning calorimetric study. , 1990, Biochemistry.
[49] Virander S. Chauhan,et al. Solution conformation and synthesis of a linear heptapeptide containing two dehydrophenylalanine residues separated by three L-amino acids , 1990 .
[50] N Go,et al. A theorem on amplitudes of thermal atomic fluctuations in large molecules assuming specific conformations calculated by normal mode analysis. , 1990, Biophysical chemistry.
[51] V. Shnyrov,et al. Domain structure of myosin subfragment-1. Selective denaturation of the 50 kDa segment. , 1990, FEBS letters.
[52] M. Inouye,et al. Enhancement of the thermostability of subtilisin E by introduction of a disulfide bond engineered on the basis of structural comparison with a thermophilic serine protease. , 1990, The Journal of biological chemistry.
[53] P. Laggner,et al. Conformational changes in bovine heart myosin as studied by EPR and DSC techniques. , 1990, General physiology and biophysics.
[54] N. Vyas. Atomic features of protein-carbohydrate interactions , 1991 .
[55] S. David,et al. Electrochemical properties of the diiron core of uteroferrin and its anion complexes. , 1991, Biochemistry.
[56] J. Zou,et al. Improved methods for building protein models in electron density maps and the location of errors in these models. , 1991, Acta crystallographica. Section A, Foundations of crystallography.
[57] G. Andersson,et al. Cloning, sequence, and developmental expression of a type 5, tartrate-resistant, acid phosphatase of rat bone. , 1991, The Journal of biological chemistry.
[58] M. Geeves. The dynamics of actin and myosin association and the crossbridge model of muscle contraction. , 1991, The Biochemical journal.
[59] H. Erickson,et al. Kinetics of protein-protein association explained by Brownian dynamics computer simulation. , 1992, Proceedings of the National Academy of Sciences of the United States of America.
[60] I. Wilson,et al. Structural evidence for induced fit as a mechanism for antibody-antigen recognition. , 1994, Science.
[61] H. Nikaido,et al. Mechanism of maltose transport in Escherichia coli: transmembrane signaling by periplasmic binding proteins. , 1992, Proceedings of the National Academy of Sciences of the United States of America.
[62] D. Eisenberg,et al. Assessment of protein models with three-dimensional profiles , 1992, Nature.
[63] E. Egelman,et al. Structural basis for the destabilization of F-actin by phosphate release following ATP hydrolysis. , 1992, Journal of molecular biology.
[64] L. Lasky,et al. Selectins: interpreters of cell-specific carbohydrate information during inflammation. , 1992, Science.
[65] A. Muhlrad,et al. Characterization of stable beryllium fluoride, aluminum fluoride, and vanadate containing myosin subfragment 1-nucleotide complexes. , 1992, Biochemistry.
[66] P. Kraulis,et al. Investigation of the function of mutated cellulose‐binding domains of Trichoderma reesei cellobiohydrolase I , 1992, Proteins.
[67] F. Quiocho,et al. Crystallographic evidence of a large ligand-induced hinge-twist motion between the two domains of the maltodextrin binding protein involved in active transport and chemotaxis. , 1992, Biochemistry.
[68] G. Piazzesi,et al. Rapid regeneration of the actin-myosin power stroke in contracting muscle , 1992, Nature.
[69] C. Chothia. One thousand families for the molecular biologist , 1992, Nature.
[70] R. Hodges,et al. Effect of trifluoroethanol on protein secondary structure: an NMR and CD study using a synthetic actin peptide. , 1992, Biochemistry.
[71] F A Quiocho,et al. Atomic interactions in protein-carbohydrate complexes. Tryptophan residues in the periplasmic maltodextrin receptor for active transport and chemotaxis. , 1992, Journal of molecular biology.
[72] John Kuriyan,et al. Three-dimensional structure of the β subunit of E. coli DNA polymerase III holoenzyme: A sliding DNA clamp , 1992, Cell.
[73] I. Karle,et al. Folding, aggregation and molecular recognition in peptides. , 1992, Acta crystallographica. Section B, Structural science.
[74] A. Bairoch,et al. The SWISS-PROT protein sequence data bank. , 1991, Nucleic acids research.
[75] J. Shaw,et al. The mechanism of ligand binding to the periplasmic C4-dicarboxylate binding protein (DctP) from Rhodobacter capsulatus. , 1992, The Journal of biological chemistry.
[76] T. Blundell,et al. Comparative protein modelling by satisfaction of spatial restraints. , 1993, Journal of molecular biology.
[77] J. Knowles,et al. Purple acid phosphatase: a diiron enzyme that catalyzes a direct phospho group transfer to water , 1993 .
[78] H. Gilbert,et al. The role of conserved tryptophan residues in the interaction of a bacterial cellulose binding domain with its ligand. , 1993, FEMS microbiology letters.
[79] D. S. Moss,et al. TLSANL: TLS parameter-analysis program for segmented anisotropic refinement of macromolecular structures , 1993 .
[80] R. Ezekowitz,et al. Collectins: pattern recognition molecules involved in first line host defense. , 1993, Current opinion in immunology.
[81] J. Thornton,et al. PROCHECK: a program to check the stereochemical quality of protein structures , 1993 .
[82] Wolfgang Kabsch,et al. Automatic processing of rotation diffraction data from crystals of initially unknown symmetry and cell constants , 1993 .
[83] B. Matthews,et al. Energetic cost and structural consequences of burying a hydroxyl group within the core of a protein determined from Ala-->Ser and Val-->Thr substitutions in T4 lysozyme. , 1993, Biochemistry.
[84] R A Milligan,et al. Structure of the actin-myosin complex and its implications for muscle contraction. , 1993, Science.
[85] R. Hodges,et al. Packing and hydrophobicity effects on protein folding and stability: Effects of β‐branched amino acids, valine and isoleucine, on the formation and stability of two‐stranded α‐helical coiled coils/leucine zippers , 1993, Protein science : a publication of the Protein Society.
[86] T. Blundell,et al. Catching a common fold , 1993, Protein science : a publication of the Protein Society.
[87] E. Egelman,et al. A conformational change in the actin subunit can change the flexibility of the actin filament. , 1993, Journal of molecular biology.
[88] J. Molkentin,et al. The bovine mannose 6-phosphate/insulin-like growth factor II receptor. The role of arginine residues in mannose 6-phosphate binding. , 1993, The Journal of biological chemistry.
[89] C. Sander,et al. Protein structure comparison by alignment of distance matrices. , 1993, Journal of molecular biology.
[90] T. Matthews,et al. A synthetic peptide from HIV-1 gp41 is a potent inhibitor of virus-mediated cell-cell fusion. , 1993, AIDS research and human retroviruses.
[91] C. Pratesi,et al. Solution structure of peptides containing two dehydro‐phenylalanine residues: A CD investigation , 1993, Biopolymers.
[92] H. Berendsen,et al. Essential dynamics of proteins , 1993, Proteins.
[93] J. Paulson,et al. Influenza virus strains selectively recognize sialyloligosaccharides on human respiratory epithelium; the role of the host cell in selection of hemagglutinin receptor specificity. , 1993, Virus research.
[94] K S Wilson,et al. The crystal structure of EcoRV endonuclease and of its complexes with cognate and non‐cognate DNA fragments. , 1993, The EMBO journal.
[95] A. Bobkov,et al. Calorimetric characterization of the stable complex of myosin subfragment 1 with ADP and beryllium fluoride , 1993, FEBS letters.
[96] R H Purcell,et al. At least 12 genotypes of hepatitis C virus predicted by sequence analysis of the putative E1 gene of isolates collected worldwide. , 1993, Proceedings of the National Academy of Sciences of the United States of America.
[97] C. Sander,et al. The FSSP database of structurally aligned protein fold families. , 1994, Nucleic acids research.
[98] D. Kilburn,et al. The cellulose‐binding domain of endoglucanase A (CenA) from Cellulomonas fimi: evidence for the involvement of tryptophan residues in binding , 1994, Molecular microbiology.
[99] A. Sykes,et al. Redox reactivity of the binuclear iron active site of porcine purple acid phosphatase (uteroferrin) , 1994 .
[100] Collaborative Computational,et al. The CCP4 suite: programs for protein crystallography. , 1994, Acta crystallographica. Section D, Biological crystallography.
[101] G. Pielak,et al. Stability of yeast iso‐1‐ferricytochrome c as a function of pH and temperature , 1994, Protein science : a publication of the Protein Society.
[102] R. Purcell,et al. Sequence analysis of the core gene of 14 hepatitis C virus genotypes. , 1994, Proceedings of the National Academy of Sciences of the United States of America.
[103] G J Kleywegt,et al. Detection, delineation, measurement and display of cavities in macromolecular structures. , 1994, Acta crystallographica. Section D, Biological crystallography.
[104] S. Barondes,et al. Galectins. Structure and function of a large family of animal lectins. , 1994, The Journal of biological chemistry.
[105] A Kitao,et al. Harmonic and anharmonic aspects in the dynamics of BPTI: A normal mode analysis and principal component analysis , 1994, Protein science : a publication of the Protein Society.
[106] I. Dedova,et al. Interaction of F‐actin with phosphate analogues studied by differential scanning calorimetry , 1994, FEBS letters.
[107] S. Müller,et al. Deceptive imprinting in the immune response against HIV-1. , 1994, Immunology today.
[108] G. Böhm,et al. Relevance of sequence statistics for the properties of extremophilic proteins. , 2009, International journal of peptide and protein research.
[109] David T. Jones,et al. Protein superfamilles and domain superfolds , 1994, Nature.
[110] K Watanabe,et al. Multiple proline substitutions cumulatively thermostabilize Bacillus cereus ATCC7064 oligo-1,6-glucosidase. Irrefragable proof supporting the proline rule. , 1994, European journal of biochemistry.
[111] John Kuriyan,et al. Crystal structure of the eukaryotic DNA polymerase processivity factor PCNA , 1994, Cell.
[112] E. Reisler,et al. Dynamic properties of actin. Structural changes induced by beryllium fluoride. , 1994, The Journal of biological chemistry.
[113] J. Thompson,et al. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. , 1994, Nucleic acids research.
[114] A. Plückthun,et al. Protein folding in the periplasm of Escherichia coli , 1994, Molecular microbiology.
[115] R. Webster,et al. Receptor specificity in human, avian, and equine H2 and H3 influenza virus isolates. , 1994, Virology.
[116] J. Navaza,et al. AMoRe: an automated package for molecular replacement , 1994 .
[117] N N Alexandrov,et al. Biological meaning, statistical significance, and classification of local spatial similarities in nonhomologous proteins , 1994, Protein science : a publication of the Protein Society.
[118] J. Thornton,et al. Satisfying hydrogen bonding potential in proteins. , 1994, Journal of molecular biology.
[119] E. Toone. Structure and energetics of protein-carbohydrate complexes , 1994 .
[120] C. Bertozzi,et al. The selectins and their ligands. , 1994, Current opinion in cell biology.
[121] Hansjörg Hoppe,et al. Collectins — soluble proteins containing collagenous regions and lectin domains — and their roles in innate immunity , 1994, Protein science : a publication of the Protein Society.
[122] M. A. Aquino,et al. Mechanism of the reaction of different phosphates with the iron(II)iron(III) form of purple acid phosphatase from porcine uteri (uteroferrin) , 1994 .
[123] J. Belágyi,et al. ADP-induced changes in ordering of spin-labelled myosin heads in muscle fibres. , 1994, European journal of biochemistry.
[124] M. Hennig,et al. 2.0 A structure of indole-3-glycerol phosphate synthase from the hyperthermophile Sulfolobus solfataricus: possible determinants of protein stability. , 1995, Structure.
[125] J. Rini,et al. Lectin structure. , 1995, Annual review of biophysics and biomolecular structure.
[126] S. Hamilton,et al. Studies on the catalytic mechanism of pig purple acid phosphatase. , 1995, Archives of biochemistry and biophysics.
[127] I. Kobayashi,et al. Restriction-modification systems as genomic parasites in competition for specific sequences. , 1995, Proceedings of the National Academy of Sciences of the United States of America.
[128] A G Murzin,et al. SCOP: a structural classification of proteins database for the investigation of sequences and structures. , 1995, Journal of molecular biology.
[129] P. Tucker,et al. Crystal structure of a purple acid phosphatase containing a dinuclear Fe(III)-Zn(II) active site. , 1995, Science.
[130] Z. Kelman,et al. Structural and functional similarities of prokaryotic and eukaryotic DNA polymerase sliding clamps. , 1995, Nucleic acids research.
[131] N. Sharon,et al. Lectins--proteins with a sweet tooth: functions in cell recognition. , 1995, Essays in biochemistry.
[132] A. Fisher,et al. Structural studies of myosin:nucleotide complexes: a revised model for the molecular basis of muscle contraction. , 1995, Biophysical journal.
[133] K. S. Yip,et al. Insights into thermal stability from a comparison of the glutamate dehydrogenases from Pyrococcus furiosus and Thermococcus litoralis. , 1995, European journal of biochemistry.
[134] H. Fankhauser,et al. Schizosaccharomyces pombe Thiamine Pyrophosphokinase Is Encoded by Gene tnr3 and Is a Regulator of Thiamine Metabolism, Phosphate Metabolism, Mating, and Growth (*) , 1995, The Journal of Biological Chemistry.
[135] Virander S. Chauhan,et al. First observation of an α-helix in α, β-dehydrooligopeptides: crystal structure of Boc-Val-ΔPhe-Ala-Leu-Gly-OMe , 1995 .
[136] R. Blumenthal,et al. Structure-guided analysis reveals nine sequence motifs conserved among DNA amino-methyltransferases, and suggests a catalytic mechanism for these enzymes. , 1995, Journal of molecular biology.
[137] K. Hideg,et al. A novel electron paramagnetic resonance spin label and its application to study the cross-bridge cycle. , 1995, Biophysical journal.
[138] S. Halford,et al. The SfiI restriction endonuclease makes a four-strand DNA break at two copies of its recognition sequence. , 1995, Journal of molecular biology.
[139] D. W. Hayden,et al. The mechanism of force generation in myosin: a disorder-to-order transition, coupled to internal structural changes. , 1995, Biophysical journal.
[140] Z. X. Wang,et al. How many fold types of protein are there in nature? , 1996, Proteins.
[141] D. Wilcox. Binuclear Metallohydrolases. , 1996, Chemical reviews.
[142] F. Quiocho,et al. Atomic structure and specificity of bacterial periplasmic receptors for active transport and chemotaxis: variation of common themes , 1996, Molecular microbiology.
[143] W. Lipscomb,et al. Two‐Metal Ion Catalysis in Enzymatic Acyl‐ and Phosphoryl‐Transfer Reactions , 1996 .
[144] J. Lazovic,et al. Selection of amino acid parameters for Fourier transform-based analysis of proteins , 1996, Comput. Appl. Biosci..
[145] M Nayal,et al. Valence screening of water in protein crystals reveals potential Na+ binding sites. , 1996, Journal of molecular biology.
[146] W. Haase,et al. Magnetic susceptibility studies on the diiron forms of the metalloprotein purple acid phosphate from bovine spleen and kidney bean , 1996 .
[147] C Sander,et al. Mapping the Protein Universe , 1996, Science.
[148] J. Schwender,et al. Biosynthesis of isoprenoids (carotenoids, sterols, prenyl side-chains of chlorophylls and plastoquinone) via a novel pyruvate/glyceraldehyde 3-phosphate non-mevalonate pathway in the green alga Scenedesmus obliquus. , 1996, The Biochemical journal.
[149] J. Sussman,et al. Insights into protein adaptation to a saturated salt environment from the crystal structure of a halophilic 2Fe-2S ferredoxin , 1996, Nature Structural Biology.
[150] M. Zółkiewski,et al. Thermal unfolding of Acanthamoeba myosin II and skeletal muscle myosin. , 1996, Biophysical chemistry.
[151] K. Nikaido,et al. Liganded and Unliganded Receptors Interact with Equal Affinity with the Membrane Complex of Periplasmic Permeases, a Subfamily of Traffic ATPases* , 1996, The Journal of Biological Chemistry.
[152] R. Fröhlich,et al. Mechanism of Fe(III)-Zn(II) purple acid phosphatase based on crystal structures. , 1996, Journal of molecular biology.
[153] W R Taylor,et al. SSAP: sequential structure alignment program for protein structure comparison. , 1996, Methods in enzymology.
[154] Tirion,et al. Large Amplitude Elastic Motions in Proteins from a Single-Parameter, Atomic Analysis. , 1996, Physical review letters.
[155] Michael Gribskov,et al. Use of Receiver Operating Characteristic (ROC) Analysis to Evaluate Sequence Matching , 1996, Comput. Chem..
[156] E. Querol,et al. Analysis of protein conformational characteristics related to thermostability. , 1996, Protein engineering.
[157] W. Weis,et al. Structural basis of lectin-carbohydrate recognition. , 1996, Annual review of biochemistry.
[158] H. Schindelin,et al. A left‐hand beta‐helix revealed by the crystal structure of a carbonic anhydrase from the archaeon Methanosarcina thermophila. , 1996, The EMBO journal.
[159] A. Driessen,et al. Glutamate transport in Rhodobacter sphaeroides is mediated by a novel binding protein-dependent secondary transport system. , 1996, Proceedings of the National Academy of Sciences of the United States of America.
[160] G. Kleywegt. Use of non-crystallographic symmetry in protein structure refinement. , 1996, Acta crystallographica. Section D, Biological crystallography.
[161] John Kuriyan,et al. Structure of the C-Terminal Region of p21WAF1/CIP1 Complexed with Human PCNA , 1996, Cell.
[162] Virander S. Chauhan,et al. Conformational characteristics of peptides containing alpha, beta-dehydroamino acid residues. , 1996, Biopolymers.
[163] A. Shevchenko,et al. Mass spectrometric sequencing of proteins silver-stained polyacrylamide gels. , 1996, Analytical chemistry.
[164] G. Desiraju. The C-H×××O Hydrogen Bond: Structural Implications and Supramolecular Design , 1996 .
[165] L. McIntosh,et al. Probing the role of tryptophan residues in a cellulose‐binding domain by chemical modification , 1996, Protein science : a publication of the Protein Society.
[166] G. Charles Dismukes,et al. Manganese Enzymes with Binuclear Active Sites. , 1996, Chemical reviews.
[167] R. Huber,et al. Crystal structure of Citrobacter freundii restriction endonuclease Cfr10I at 2.15 A resolution. , 1996, Journal of molecular biology.
[168] H. Berendsen,et al. Model‐free methods of analyzing domain motions in proteins from simulation: A comparison of normal mode analysis and molecular dynamics simulation of lysozyme , 1997, Proteins.
[169] R. Huber,et al. Thermodynamic stability of annexin V E17G: equilibrium parameters from an irreversible unfolding reaction. , 1997, Biochemistry.
[170] F. Giffhorn,et al. Cloning, nucleotide sequence, and overexpression of smoS, a component of a novel operon encoding an ABC transporter and polyol dehydrogenases of Rhodobacter sphaeroides Si4 , 1997, Journal of bacteriology.
[171] C Kooperberg,et al. Assembly of protein tertiary structures from fragments with similar local sequences using simulated annealing and Bayesian scoring functions. , 1997, Journal of molecular biology.
[172] David C. Jones,et al. CATH--a hierarchic classification of protein domain structures. , 1997, Structure.
[173] R. Cooke,et al. Opening of the myosin nucleotide triphosphate binding domain during the ATPase cycle. , 1997, Biochemistry.
[174] R. Abagyan,et al. Do aligned sequences share the same fold? , 1997, Journal of molecular biology.
[175] B. Shaanan,et al. Lectin-carbohydrate interactions: different folds, common recognition principles. , 1997, Trends in biochemical sciences.
[176] R Abagyan,et al. A new method for modeling large‐scale rearrangements of protein domains , 1997, Proteins.
[177] J M Claverie,et al. SAmBA: An interactive software for optimizing the design of biological macromolecules crystallization experiments , 1997, Proteins.
[178] Y. Hata,et al. The crystal structure of zinc-containing ferredoxin from the thermoacidophilic archaeon Sulfolobus sp. strain 7. , 1997, Biochemistry.
[179] G. Murshudov,et al. Refinement of macromolecular structures by the maximum-likelihood method. , 1997, Acta crystallographica. Section D, Biological crystallography.
[180] G. Kleywegt,et al. Detecting folding motifs and similarities in protein structures. , 1997, Methods in enzymology.
[181] Z. Otwinowski,et al. Processing of X-ray diffraction data collected in oscillation mode. , 1997, Methods in enzymology.
[182] Gapped BLAST and PSI-BLAST: A new , 1997 .
[183] G. Schulz,et al. Energy profile of maltooligosaccharide permeation through maltoporin as derived from the structure and from a statistical analysis of saccharide‐protein interactions , 1997, Protein science : a publication of the Protein Society.
[184] A. Vagin,et al. MOLREP: an Automated Program for Molecular Replacement , 1997 .
[185] D. Kelly,et al. TRAP transporters: a new family of periplasmic solute transport systems encoded by the dctPQM genes of Rhodobacter capsulatus and by homologs in diverse gram-negative bacteria , 1997, Journal of bacteriology.
[186] C. Zhang,et al. Relations of the numbers of protein sequences, families and folds. , 1997, Protein engineering.
[187] S. Jones,et al. Prediction of protein-protein interaction sites using patch analysis. , 1997, Journal of molecular biology.
[188] Jörg Schwender,et al. Biosynthesis of isoprenoids in higher plant chloroplasts proceeds via a mevalonate‐independent pathway , 1997, FEBS letters.
[189] E. Solomon,et al. Circular Dichroism and Magnetic Circular Dichroism Studies of the Mixed-Valence Binuclear Non-Heme Iron Active Site in Uteroferrin and Its Anion Complexes , 1997 .
[190] D. Lipman,et al. A genomic perspective on protein families. , 1997, Science.
[191] C. Chothia,et al. Population statistics of protein structures: lessons from structural classifications. , 1997, Current opinion in structural biology.
[192] A. Atilgan,et al. Direct evaluation of thermal fluctuations in proteins using a single-parameter harmonic potential. , 1997, Folding & design.
[193] P Argos,et al. Protein thermal stability, hydrogen bonds, and ion pairs. , 1997, Journal of molecular biology.
[194] R Sánchez,et al. Evaluation of comparative protein structure modeling by MODELLER‐3 , 1997, Proteins.
[195] S L Mowbray,et al. Multiple open forms of ribose-binding protein trace the path of its conformational change. , 1998, Journal of molecular biology.
[196] G. Varani,et al. RNA recognition by RNP proteins during RNA processing. , 1998, Annual review of biophysics and biomolecular structure.
[197] R. Huber,et al. Structure-based redesign of the catalytic/metal binding site of Cfr10I restriction endonuclease reveals importance of spatial rather than sequence conservation of active centre residues. , 1998, Journal of molecular biology.
[198] S. Phillips,et al. Crystal structure of restriction endonuclease BglI bound to its interrupted DNA recognition sequence , 1998, The EMBO journal.
[199] P. Simpson,et al. All three surface tryptophans in Type IIa cellulose binding domains play a pivotal role in binding both soluble and insoluble ligands , 1998, FEBS letters.
[200] P E Bourne,et al. Protein structure alignment by incremental combinatorial extension (CE) of the optimal path. , 1998, Protein engineering.
[201] C DeLisi,et al. Estimating the number of protein folds. , 1998, Journal of molecular biology.
[202] K. Karlsson. Meaning and therapeutic potential of microbial recognition of host glycoconjugates , 1998, Molecular microbiology.
[203] Sean R. Eddy,et al. Profile hidden Markov models , 1998, Bioinform..
[204] A. Sali,et al. Large-scale protein structure modeling of the Saccharomyces cerevisiae genome. , 1998, Proceedings of the National Academy of Sciences of the United States of America.
[205] W. Eisenreich,et al. The deoxyxylulose phosphate pathway of terpenoid biosynthesis in plants and microorganisms. , 1998, Chemistry & biology.
[206] Eric Hunter,et al. Potent suppression of HIV-1 replication in humans by T-20, a peptide inhibitor of gp41-mediated virus entry , 1998, Nature Medicine.
[207] U. Pieper,et al. Structural features of halophilicity derived from the crystal structure of dihydrofolate reductase from the Dead Sea halophilic archaeon, Haloferax volcanii. , 1998, Structure.
[208] K. Holmes. A powerful stroke , 1998, Nature Structural Biology.
[209] R J Read,et al. Crystallography & NMR system: A new software suite for macromolecular structure determination. , 1998, Acta crystallographica. Section D, Biological crystallography.
[210] V. Orlov,et al. Differential scanning calorimetric studies on myosin and actin. , 1998, Biochemistry. Biokhimiia.
[211] A. Costantino,et al. Hepatitis C virus E1 protein induces modification of membrane permeability in E. coli cells. , 1998, Virology.
[212] L Serrano,et al. Design of a 20-amino acid, three-stranded beta-sheet protein. , 1998, Science.
[213] L R Pease,et al. Structural basis of plasticity in T cell receptor recognition of a self peptide-MHC antigen. , 1998, Science.
[214] Z. X. Wang,et al. A re-estimation for the total numbers of protein folds and superfamilies. , 1998, Protein engineering.
[215] Roberto Dominguez,et al. Crystal Structure of a Vertebrate Smooth Muscle Myosin Motor Domain and Its Complex with the Essential Light Chain Visualization of the Pre–Power Stroke State , 1998, Cell.
[216] D. Covell,et al. Correlation between native-state hydrogen exchange and cooperative residue fluctuations from a simple model. , 1998, Biochemistry.
[217] E Warbrick,et al. PCNA binding through a conserved motif. , 1998, BioEssays : news and reviews in molecular, cellular and developmental biology.
[218] G. Böhm,et al. The stability of proteins in extreme environments. , 1998, Current opinion in structural biology.
[219] A. Costantino,et al. Hepatitis C Virus E1 Protein Induces Modification of Membrane Permeability inE. coliCells , 1998 .
[220] R. Jernigan,et al. Identification of kinetically hot residues in proteins , 1998, Protein science : a publication of the Protein Society.
[221] P. Qasba,et al. Architecture of the sugar binding sites in carbohydrate binding proteins--a computer modeling study. , 1998, International journal of biological macromolecules.
[222] N. Sharon,et al. Lectins: Carbohydrate-Specific Proteins That Mediate Cellular Recognition. , 1998, Chemical reviews.
[223] Winfried Boos,et al. Maltose/Maltodextrin System of Escherichia coli: Transport, Metabolism, and Regulation , 1998, Microbiology and Molecular Biology Reviews.
[224] S. Hohmann,et al. Thiamin metabolism and thiamin diphosphate-dependent enzymes in the yeast Saccharomyces cerevisiae: genetic regulation. , 1998, Biochimica et biophysica acta.
[225] Yoshihiro Kawaoka,et al. Molecular Basis for the Generation in Pigs of Influenza A Viruses with Pandemic Potential , 1998, Journal of Virology.
[226] S. Halford,et al. DNA looping by the Sfi I restriction endonuclease. , 1998, Journal of molecular biology.
[227] S. Halford,et al. DNA excision by the Sfi I restriction endonuclease. , 1998, Journal of molecular biology.
[228] D. Barford,et al. The structure and mechanism of protein phosphatases: insights into catalysis and regulation. , 1998, Annual review of biophysics and biomolecular structure.
[229] H. Toh,et al. Functional Interactions of a Homolog of Proliferating Cell Nuclear Antigen with DNA Polymerases inArchaea , 1999, Journal of bacteriology.
[230] I. Searle,et al. Binuclear metal centers in plant purple acid phosphatases: Fe-Mn in sweet potato and Fe-Zn in soybean. , 1999, Archives of biochemistry and biophysics.
[231] I. Zhulin,et al. PAS Domains: Internal Sensors of Oxygen, Redox Potential, and Light , 1999, Microbiology and Molecular Biology Reviews.
[232] C Urbanke,et al. The Cfr10I restriction enzyme is functional as a tetramer. , 1999, Journal of molecular biology.
[233] E. Johansson,et al. Three-dimensional structure of a mammalian purple acid phosphatase at 2.2 A resolution with a mu-(hydr)oxo bridged di-iron center. , 1999, Journal of molecular biology.
[234] H. Lichtenthaler,et al. Inhibitors of the nonmevalonate pathway of isoprenoid biosynthesis as antimalarial drugs. , 1999, Science.
[235] G. Zaccai,et al. Relative role of anions and cations in the stabilization of halophilic malate dehydrogenase. , 1999, Biochemistry.
[236] E. García-Hernández,et al. Structural bases of lectin‐carbohydrate affinities: Comparison with protein‐folding energetics , 1999, Protein science : a publication of the Protein Society.
[237] M. Twitchett,et al. Structure, properties and reactivity of the (FeFeIII)-Fe-II and (ZnFeIII)-Fe-II purple acid phosphatases , 1999 .
[238] K. Nakai,et al. PSORT: a program for detecting sorting signals in proteins and predicting their subcellular localization. , 1999, Trends in biochemical sciences.
[239] F. Barras,et al. Functional Analysis of the Carbohydrate-Binding Domains of Erwinia chrysanthemi Cel5 (Endoglucanase Z) and an Escherichia coli Putative Chitinase , 1999, Journal of bacteriology.
[240] L. Wyns,et al. The crystal structure of triosephosphate isomerase (TIM) from Thermotoga maritima: A comparative thermostability structural analysis of ten different TIM structures , 1999, Proteins.
[241] T. Duke,et al. Molecular model of muscle contraction. , 1999, Proceedings of the National Academy of Sciences of the United States of America.
[242] R. Kappl,et al. The active site of purple acid phosphatase from sweet potatoes (Ipomoea batatas) metal content and spectroscopic characterization. , 1999, European journal of biochemistry.
[243] M. Saier,et al. TRAP transporters: an ancient family of extracytoplasmic solute-receptor-dependent secondary active transporters. , 1999, Microbiology.
[244] I. Bahar,et al. Structure‐based analysis of protein dynamics: Comparison of theoretical results for hen lysozyme with X‐ray diffraction and NMR relaxation data , 1999, Proteins.
[245] Ruben Recabarren,et al. Estimating the total number of protein folds , 1999, Proteins.
[246] D. Cruickshank,et al. Remarks about protein structure precision. , 1999, Acta crystallographica. Section D, Biological crystallography.
[247] T. Terwilliger,et al. Rapid protein-folding assay using green fluorescent protein , 1999, Nature Biotechnology.
[248] S. Levy,et al. Functional Analysis of Cell Surface-Expressed Hepatitis C Virus E2 Glycoprotein , 1999, Journal of Virology.
[249] M. Merkx,et al. Evidence for nonbridged coordination of p-nitrophenyl phosphate to the dinuclear Fe(III)-M(II) center in bovine spleen purple acid phosphatase during enzymatic turnover. , 1999, Biochemistry.
[250] R. Webster,et al. The Surface Glycoproteins of H5 Influenza Viruses Isolated from Humans, Chickens, and Wild Aquatic Birds Have Distinguishable Properties , 1999, Journal of Virology.
[251] B. Schölkopf,et al. Advances in kernel methods: support vector learning , 1999 .
[252] D. Eisenberg,et al. Assigning protein functions by comparative genome analysis: protein phylogenetic profiles. , 1999, Proceedings of the National Academy of Sciences of the United States of America.
[253] W. Eisenreich,et al. Cytidine 5'-triphosphate-dependent biosynthesis of isoprenoids: YgbP protein of Escherichia coli catalyzes the formation of 4-diphosphocytidyl-2-C-methylerythritol. , 1999, Proceedings of the National Academy of Sciences of the United States of America.
[254] M. Gromiha,et al. Important amino acid properties for enhanced thermostability from mesophilic to thermophilic proteins. , 1999, Biophysical chemistry.
[255] Christopher M. Summa,et al. De novo design and structural characterization of proteins and metalloproteins. , 1999, Annual review of biochemistry.
[256] J. Pflugrath,et al. The finer things in X-ray diffraction data collection. , 1999, Acta crystallographica. Section D, Biological crystallography.
[257] K. Nishikawa,et al. Domain dislocation: a change of core structure in periplasmic binding proteins in their evolutionary history. , 1999, Journal of molecular biology.
[258] D. Hume,et al. Crystal structure of mammalian purple acid phosphatase. , 1999, Structure.
[259] David C. Jones,et al. GenTHREADER: an efficient and reliable protein fold recognition method for genomic sequences. , 1999, Journal of molecular biology.
[260] N. Blom,et al. Sequence and structure-based prediction of eukaryotic protein phosphorylation sites. , 1999, Journal of molecular biology.
[261] K C Holmes,et al. Structural mechanism of muscle contraction. , 1999, Annual review of biochemistry.
[262] P. Balaram. De novo design: backbone conformational constraints in nucleating helices and beta-hairpins. , 2008, The journal of peptide research : official journal of the American Peptide Society.
[263] S E Brenner,et al. Distribution of protein folds in the three superkingdoms of life. , 1999, Genome research.
[264] M. Merkx,et al. Fluoride inhibition of bovine spleen purple acid phosphatase: characterization of a ternary enzyme-phosphate-fluoride complex as a model for the active enzyme-substrate-hydroxide complex. , 1999, Biochemistry.
[265] G J Barton,et al. Application of multiple sequence alignment profiles to improve protein secondary structure prediction , 2000, Proteins.
[266] Thomas C. Terwilliger,et al. Electronic Reprint Biological Crystallography Maximum-likelihood Density Modification , 2022 .
[267] J. M. Sauder,et al. Large‐scale comparison of protein sequence alignment algorithms with structure alignments , 2000, Proteins.
[268] D Fischer,et al. Hybrid fold recognition: combining sequence derived properties with evolutionary information. , 1999, Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing.
[269] P. Simpson,et al. Solution structure of the CBM10 cellulose binding module from Pseudomonas xylanase A. , 2000, Biochemistry.
[270] M. Blaser,et al. Purification of the Novel Endonuclease, Hpy188I, and Cloning of Its Restriction-Modification Genes Reveal Evidence of Its Horizontal Transfer to the Helicobacter pylori Genome* , 2000, The Journal of Biological Chemistry.
[271] A. Sali,et al. Protein structure modeling for structural genomics , 2000, Nature Structural Biology.
[272] V. Šikšnys,et al. Novel Subtype of Type IIs Restriction Enzymes , 2000, The Journal of Biological Chemistry.
[273] A. Rosenzweig,et al. Structure of the bacteriophage lambda Ser/Thr protein phosphatase with sulfate ion bound in two coordination modes. , 2000, Biochemistry.
[274] A. Szilágyi,et al. Structural differences between mesophilic, moderately thermophilic and extremely thermophilic protein subunits: results of a comprehensive survey. , 2000, Structure.
[275] Janusz M. Bujnicki,et al. Phylogeny of the Restriction Endonuclease-Like Superfamily Inferred from Comparison of Protein Structures , 2000, Journal of Molecular Evolution.
[276] Honggao Yan,et al. Catalytic center assembly of HPPK as revealed by the crystal structure of a ternary complex at 1.25 A resolution. , 2000, Structure.
[277] A. Edwards,et al. Structure-based functional classification of hypothetical protein MTH538 from Methanobacterium thermoautotrophicum. , 2000, Journal of molecular biology.
[278] Yoshihiro Kawaoka,et al. Early Alterations of the Receptor-Binding Properties of H1, H2, and H3 Avian Influenza Virus Hemagglutinins after Their Introduction into Mammals , 2000, Journal of Virology.
[279] I. Kobayashi,et al. Evolution of sequence recognition by restriction-modification enzymes: selective pressure for specificity decrease. , 2000, Molecular biology and evolution.
[280] G. Besra,et al. Polyprenyl Phosphate Biosynthesis inMycobacterium tuberculosis and Mycobacterium smegmatis , 2000, Journal of bacteriology.
[281] T. N. Bhat,et al. The Protein Data Bank , 2000, Nucleic Acids Res..
[282] Nello Cristianini,et al. An Introduction to Support Vector Machines and Other Kernel-based Learning Methods , 2000 .
[283] K. Rao,et al. Maturation of an antibody response is governed by modulations in flexibility of the antigen-combining site. , 2000, Immunity.
[284] R. Huber,et al. Structure of the tetrameric restriction endonuclease NgoMIV in complex with cleaved DNA , 2000, Nature Structural Biology.
[285] M Ouali,et al. Cascaded multiple classifiers for secondary structure prediction , 2000, Protein science : a publication of the Protein Society.
[286] S. Halford,et al. Alternative geometries of DNA looping: an analysis using the SfiI endonuclease. , 2000, Journal of molecular biology.
[287] Mindy I. Davis,et al. Geometric and electronic structure/function correlations in non-heme iron enzymes. , 2000, Chemical reviews.
[288] B. Matthews,et al. Structure and function of the methionine aminopeptidases. , 2000, Biochimica et biophysica acta.
[289] E V Koonin,et al. Estimating the number of protein folds and families from complete genome data. , 2000, Journal of molecular biology.
[290] P. Simpson,et al. Trp22, Trp24, and Tyr8 play a pivotal role in the binding of the family 10 cellulose-binding module from Pseudomonas xylanase A to insoluble ligands. , 2000, Biochemistry.
[291] I Uchiyama,et al. Insertion with long target duplication: a mechanism for gene mobility suggested from comparison of two related bacterial genomes. , 2000, Gene.
[292] D. Madern,et al. Halophilic adaptation of enzymes , 2000, Extremophiles.
[293] Stephen K. Burley,et al. An overview of structural genomics , 2000, Nature Structural Biology.
[294] M. Teplova,et al. Complexes of smooth muscle tropomyosin with F-actin studied by differential scanning calorimetry. , 2000, European journal of biochemistry.
[295] E V Koonin,et al. SURVEY AND SUMMARY: holliday junction resolvases and related nucleases: identification of new families, phyletic distribution and evolutionary trajectories. , 2000, Nucleic acids research.
[296] A. Rodríguez‐Romero,et al. Stereochemical metrics of lectin-carbohydrate interactions: comparison with protein-protein interfaces. , 2000, Glycobiology.
[297] D. Hume,et al. Identification of mammalian-like purple acid phosphatases in a wide range of plants. , 2000, Gene.
[298] D. Hume,et al. Purple acid phosphatases from bacteria: similarities to mammalian and plant enzymes. , 2000, Gene.
[299] G. Air,et al. Influenza virus infection of desialylated cells. , 2000, Glycobiology.
[300] G. Unden,et al. Transport of C 4-Dicarboxylates in Wolinella succinogenes , 2000 .
[301] Y. Sanejouand,et al. Building‐block approach for determining low‐frequency normal modes of macromolecules , 2000, Proteins.
[302] E. Warbrick. The puzzle of PCNA's many partners. , 2000, BioEssays : news and reviews in molecular, cellular and developmental biology.
[303] Liam J. McGuffin,et al. The PSIPRED protein structure prediction server , 2000, Bioinform..
[304] J M Thornton,et al. Analysis and prediction of carbohydrate binding sites. , 2000, Protein engineering.
[305] A. Sali,et al. Modeling of loops in protein structures , 2000, Protein science : a publication of the Protein Society.
[306] J Kuriyan,et al. Crystal structure of the DNA polymerase processivity factor of T4 bacteriophage. , 2000, Journal of molecular biology.
[307] M. Blaser,et al. Identification of type II restriction and modification systems in Helicobacter pylori reveals their substantial diversity among strains. , 2000, Proceedings of the National Academy of Sciences of the United States of America.
[308] N. Kannan,et al. Aromatic clusters: a determinant of thermal stability of thermophilic proteins. , 2000, Protein engineering.
[309] M. D. Topal,et al. Crystal structure of NaeI—an evolutionary bridge between DNA endonuclease and topoisomerase , 2000, The EMBO journal.
[310] Patrice Koehl,et al. The ASTRAL compendium for protein structure and sequence analysis , 2000, Nucleic Acids Res..
[311] M. Sternberg,et al. Enhanced genome annotation using structural profiles in the program 3D-PSSM. , 2000, Journal of molecular biology.
[312] A. Sali,et al. Comparative protein structure modeling of genes and genomes. , 2000, Annual review of biophysics and biomolecular structure.
[313] D. Madern,et al. Halophilic adaptation: novel solvent protein interactions observed in the 2.9 and 2.6 A resolution structures of the wild type and a mutant of malate dehydrogenase from Haloarcula marismortui. , 2000, Biochemistry.
[314] A. Godzik,et al. Comparison of sequence profiles. Strategies for structural predictions using sequence information , 2008, Protein science : a publication of the Protein Society.
[315] F. Cohen,et al. Co-evolution of proteins with their interaction partners. , 2000, Journal of molecular biology.
[316] C. Haynes,et al. Analysis of binding of the family 2a carbohydrate-binding module from Cellulomonas fimi xylanase 10A to cellulose: specificity and identification of functionally important amino acid residues. , 2000, Protein engineering.
[317] Frances M. G. Pearl,et al. The CATH Dictionary of Homologous Superfamilies (DHS): a consensus approach for identifying distant structural homologues. , 2000, Protein engineering.
[318] R. Nussinov,et al. Factors enhancing protein thermostability. , 2000, Protein engineering.
[319] L. Que,et al. Spectroscopic Characterization of a Ternary Phosphatase−Substrate−Fluoride Complex. Mechanistic Implications for Dinuclear Hydrolases [J. Am. Chem. Soc. 1999, 121, 9235−9236]. , 2000 .
[320] R. Jernigan,et al. Proteins with similar architecture exhibit similar large-scale dynamic behavior. , 2000, Biophysical journal.
[321] D. Hume,et al. Structure, function, and regulation of tartrate-resistant acid phosphatase. , 2000, Bone.
[322] A. Elcock,et al. Identification of protein oligomerization states by analysis of interface conservation , 2001, Proceedings of the National Academy of Sciences of the United States of America.
[323] F. Quiocho,et al. Trapping the transition state of an ATP-binding cassette transporter: evidence for a concerted mechanism of maltose transport. , 2001, Proceedings of the National Academy of Sciences of the United States of America.
[324] B. Poolman,et al. On the osmotic signal and osmosensing mechanism of an ABC transport system for glycine betaine , 2001, The EMBO journal.
[325] Robert A. Harris,et al. Crystal structure of thiamin pyrophosphokinase. , 2001, Journal of molecular biology.
[326] A. Pingoud,et al. Sau3AI, a Monomeric Type II Restriction Endonuclease That Dimerizes on the DNA and Thereby Induces DNA Loops* , 2001, The Journal of Biological Chemistry.
[327] Alessandro Senes,et al. The Cα—H⋅⋅⋅O hydrogen bond: A determinant of stability and specificity in transmembrane helix interactions , 2001, Proceedings of the National Academy of Sciences of the United States of America.
[328] R. Kumar. Preparation of genomic DNA from bacteria , 2001 .
[329] K. Nishikawa,et al. Protein surface amino acid compositions distinctively differ between thermophilic and mesophilic bacteria. , 2001, Journal of molecular biology.
[330] T L Blundell,et al. FUGUE: sequence-structure homology recognition using environment-specific substitution tables and structure-dependent gap penalties. , 2001, Journal of molecular biology.
[331] P. S. Kim,et al. Design of potent inhibitors of HIV-1 entry from the gp41 N-peptide region , 2001, Proceedings of the National Academy of Sciences of the United States of America.
[332] C. Vieille,et al. Hyperthermophilic Enzymes: Sources, Uses, and Molecular Mechanisms for Thermostability , 2001, Microbiology and Molecular Biology Reviews.
[333] Robert A. Harris,et al. The crystal structure of yeast thiamin pyrophosphokinase. , 2001, Structure.
[334] J. Bujnicki,et al. Polyphyletic evolution of type II restriction enzymes revisited: two independent sources of second-hand folds revealed. , 2001, Trends in biochemical sciences.
[335] Y. Ishino,et al. Crystal structure of an archaeal DNA sliding clamp: Proliferating cell nuclear antigen from Pyrococcus furiosus , 2001, Protein science : a publication of the Protein Society.
[336] J. Denu,et al. Molecular reactions of protein phosphatases--insights from structure and chemistry. , 2001, Chemical reviews.
[337] Y. Sanejouand,et al. Conformational change of proteins arising from normal mode calculations. , 2001, Protein engineering.
[338] Jozef Van Beeumen,et al. The Highly Exposed Loop Region in Mammalian Purple Acid Phosphatase Controls the Catalytic Activity , 2001, Chembiochem : a European journal of chemical biology.
[339] Thomas L. Madden,et al. Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements. , 2001, Nucleic acids research.
[340] R. Jernigan,et al. Anisotropy of fluctuation dynamics of proteins with an elastic network model. , 2001, Biophysical journal.
[341] Marc A. Martí-Renom,et al. EVA: continuous automatic evaluation of protein structure prediction servers , 2001, Bioinform..
[342] R. Stevens,et al. Global Efforts in Structural Genomics , 2001, Science.
[343] J. Bujnicki,et al. Understanding the evolution of restriction-modification systems: clues from sequence and structure comparisons. , 2001, Acta biochimica Polonica.
[344] Adam Godzik,et al. Clustering of highly homologous sequences to reduce the size of large protein databases , 2001, Bioinform..
[345] Nathan A. Baker,et al. Electrostatics of nanosystems: Application to microtubules and the ribosome , 2001, Proceedings of the National Academy of Sciences of the United States of America.
[346] N. Veljkovic,et al. AIDS epidemic at the beginning of the third millennium: time for a new AIDS vaccine strategy. , 2001, Vaccine.
[347] K. Wilson,et al. Structure-based rationalization of urease inhibition by phosphate: novel insights into the enzyme mechanism , 2001, JBIC Journal of Biological Inorganic Chemistry.
[348] Janusz M Bujnicki,et al. Sequence permutations in the molecular evolution of DNA methyltransferases , 2002, BMC Evolutionary Biology.
[349] N. Grishin. Fold change in evolution of protein structures. , 2001, Journal of structural biology.
[350] D. Lörinczy,et al. Nucleotide binding induces global and local structural changes of myosin head in muscle fibres. , 2001, European journal of biochemistry.
[351] D. Moras,et al. Dissecting the interaction network of multiprotein complexes by pairwise coexpression of subunits in E. coli. , 2001, Journal of molecular biology.
[352] J. Bujnicki. A model of structure and action of Sau3AI restriction endonuclease that comprises two MutH-like endonuclease domains within a single polypeptide. , 2001, Acta microbiologica Polonica.
[353] D Fischer,et al. LiveBench‐1: Continuous benchmarking of protein structure prediction servers , 2001, Protein science : a publication of the Protein Society.
[354] D Fischer,et al. LiveBench‐2: Large‐scale automated evaluation of protein structure prediction servers , 2001, Proteins.
[355] A. Costantino,et al. Mutagenesis of hepatitis C virus E1 protein affects its membrane-permeabilizing activity. , 2001, The Journal of general virology.
[356] R. Woods,et al. Involvement of water in carbohydrate-protein binding. , 2001, Journal of the American Chemical Society.
[357] J Lundström,et al. Pcons: A neural‐network–based consensus predictor that improves fold recognition , 2001, Protein science : a publication of the Protein Society.
[358] I. Kobayashi. Behavior of restriction-modification systems as selfish mobile elements and their impact on genome evolution. , 2001, Nucleic acids research.
[359] A G Cochran,et al. Tryptophan zippers: stable, monomeric beta -hairpins. , 2001, Proceedings of the National Academy of Sciences of the United States of America.
[360] J. Bujnicki,et al. Grouping together highly diverged PD-(D/E)XK nucleases and identification of novel superfamily members using structure-guided alignment of sequence profiles. , 2001, Journal of molecular microbiology and biotechnology.
[361] E V Koonin,et al. Prediction of the archaeal exosome and its connections with the proteasome and the translation and transcription machineries by a comparative-genomic approach. , 2001, Genome research.
[362] G. Schenk,et al. A Purple Acid Phosphatase from Sweet Potato Contains an Antiferromagnetically Coupled Binuclear Fe-Mn Center* 210 , 2001, The Journal of Biological Chemistry.
[363] E. Flores,et al. Identification of genes encoding amino acid permeases by inactivation of selected ORFs from the Synechocystis genomic sequence. , 2001, Genome research.
[364] Brian J. Smith,et al. The trypanosomal trans-sialidase: two catalytic functions associated with one catalytic site. , 2002, Structure.
[365] András Fiser,et al. Molecular Biophysics , 2022 .
[366] N. Gormley,et al. Many Type IIs Restriction Endonucleases Interact with Two Recognition Sites before Cleaving DNA* , 2002, The Journal of Biological Chemistry.
[367] Mark Gerstein,et al. Normal mode analysis of macromolecular motions in a database framework: Developing mode concentration as a useful classifying statistic , 2002, Proteins.
[368] O. Kohlbacher,et al. Lectin-sugar interaction. Calculated versus experimental binding energies. , 2002, European journal of biochemistry.
[369] Marcin Feder,et al. Structure Prediction and Phylogenetic Analysis of a Functionally Diverse Family of Proteins Homologous to the MT-A70 Subunit of the Human mRNA:m6A Methyltransferase , 2002, Journal of Molecular Evolution.
[370] Sarah A. Teichmann,et al. Principles of protein-protein interactions , 2002, ECCB.
[371] F. Penin,et al. Topological changes in the transmembrane domains of hepatitis C virus envelope glycoproteins , 2002, The EMBO journal.
[372] Frances M. G. Pearl,et al. Quantifying the similarities within fold space. , 2002, Journal of molecular biology.
[373] I. Kobayashi,et al. A DNA Methyltransferase Can Protect the Genome from Postdisturbance Attack by a Restriction-Modification Gene Complex , 2002, Journal of bacteriology.
[374] G. Schenk,et al. Reactivity of M(II) metal-substituted derivatives of pig purple acid phosphatase (uteroferrin) with phosphate. , 2002, Inorganic chemistry.
[375] J. Frère,et al. Substrate-activated zinc binding of metallo-beta -lactamases: physiological importance of mononuclear enzymes. , 2002, The Journal of biological chemistry.
[376] E. Eisenstein,et al. Structure of 2C‐methyl‐D‐erythrol‐2,4‐cyclodiphosphate synthase from Haemophilus influenzae: Activation by conformational transition , 2002, Proteins.
[377] W. Delano. The PyMOL Molecular Graphics System , 2002 .
[378] Ozlem Keskin,et al. Relating molecular flexibility to function: a case study of tubulin. , 2002, Biophysical journal.
[379] Golan Yona,et al. Within the twilight zone: a sensitive profile-profile comparison tool based on information theory. , 2002, Journal of molecular biology.
[380] I. Simon,et al. Protein stability indicates divergent evolution of PD‐(D/E)XK type II restriction endonucleases , 2002, Protein science : a publication of the Protein Society.
[381] S. Pongor,et al. Protein fold similarity estimated by a probabilistic approach based on C(alpha)-C(alpha) distance comparison. , 2002, Journal of molecular biology.
[382] M. Wink. Medicinal Natural Products. A Biosynthetic Approach , 2002 .
[383] D. Covell,et al. Molecular motions and conformational changes of HPPK , 2002, Proteins.
[384] T. Kuzuyama. Mevalonate and Nonmevalonate Pathways for the Biosynthesis of Isoprene Units , 2002, Bioscience, biotechnology, and biochemistry.
[385] A. Valencia,et al. Prediction of protein--protein interaction sites in heterocomplexes with neural networks. , 2002, European journal of biochemistry.
[386] B. Charloteaux,et al. Analysis of the C-Terminal Membrane Anchor Domains of Hepatitis C Virus Glycoproteins E1 and E2: toward a Topological Model , 2002, Journal of Virology.
[387] Virander S. Chauhan,et al. Dehydrophenylalanine zippers: strong helix-helix clamping through a network of weak interactions. , 2002, Protein engineering.
[388] J. Feigon,et al. Solution structures of UBA domains reveal a conserved hydrophobic surface for protein-protein interactions. , 2002, Journal of molecular biology.
[389] Sherry L. Mowbray,et al. Hinge-bending Motion of d-Allose-binding Protein from Escherichia coli , 2002, The Journal of Biological Chemistry.
[390] B. Poolman,et al. ABC transporters: one, two or four extracytoplasmic substrate‐binding sites? , 2002, EMBO reports.
[391] H. Wolfson,et al. Multiple diverse ligands binding at a single protein site : A matter of pre-existing populations , 2001 .
[392] Alfredo Colosimo,et al. Nonlinear signal analysis methods in the elucidation of protein sequence-structure relationships. , 2002, Chemical reviews.
[393] G. Unden,et al. C4-dicarboxylate carriers and sensors in bacteria. , 2002, Biochimica et biophysica acta.
[394] Alessandro Giuliani,et al. Recurrence quantification analysis reveals interaction partners in paramyxoviridae envelope glycoproteins , 2002, Proteins.
[395] P. Røgen,et al. Automatic classification of protein structure by using Gauss integrals , 2002, Proceedings of the National Academy of Sciences of the United States of America.
[396] Adam Godzik,et al. Tolerating some redundancy significantly speeds up clustering of large protein databases , 2002, Bioinform..
[397] H. Kunte,et al. New Type of Osmoregulated Solute Transporter Identified in Halophilic Members of the Bacteria Domain: TRAP Transporter TeaABC Mediates Uptake of Ectoine and Hydroxyectoine in Halomonas elongata DSM 2581T , 2002, Journal of bacteriology.
[398] R. Kraft,et al. EcoRII: a restriction enzyme evolving recombination functions? , 2002, The EMBO journal.
[399] Jian Wang,et al. A complete sequence of the T. tengcongensis genome. , 2002, Genome research.
[400] S. Ciurli,et al. New insights into the mechanism of purple acid phosphatase through (1)H NMR spectroscopy of the recombinant human enzyme. , 2002, Journal of the American Chemical Society.
[401] Hui Lu,et al. MULTIPROSPECTOR: An algorithm for the prediction of protein–protein interactions by multimeric threading , 2002, Proteins.
[402] D. Fong,et al. Substrate promiscuity of an aminoglycoside antibiotic resistance enzyme via target mimicry. , 2002, The EMBO journal.
[403] J. Dixon,et al. A Unique Carbohydrate Binding Domain Targets the Lafora Disease Phosphatase to Glycogen* , 2002, The Journal of Biological Chemistry.
[404] S. Petersen,et al. L-phenylalanine binding and domain organization in human phenylalanine hydroxylase: a differential scanning calorimetry study. , 2002, Biochemistry.
[405] J. Bujnicki,et al. Evolutionary Relationship between Different Subgroups of Restriction Endonucleases* , 2002, The Journal of Biological Chemistry.
[406] V. D'souza,et al. Structurally distinct active sites in the copper(II)-substituted aminopeptidases from Aeromonas proteolytica and Escherichia coli. , 2002, Journal of the American Chemical Society.
[407] L. Que,et al. Electro-nuclear double resonance spectroscopic evidence for a hydroxo-bridge nucleophile involved in catalysis by a dinuclear hydrolase. , 2002, Journal of the American Chemical Society.
[408] John Moult,et al. A unifold, mesofold, and superfold model of protein fold use , 2002, Proteins.
[409] M. Gerstein,et al. Genomic analysis of membrane protein families: abundance and conserved motifs , 2002, Genome Biology.
[410] R. Huber,et al. Crystal structure of the Bse634I restriction endonuclease: comparison of two enzymes recognizing the same DNA sequence. , 2002, Nucleic acids research.
[411] Frances M. G. Pearl,et al. The CATH protein family database: A resource for structural and functional annotation of genomes , 2002, Proteomics.
[412] D. Lőrinczy,et al. Effect of adenosine 5′‐[β,γ‐imido]triphosphate on myosin head domain movements , 2002 .
[413] D. Herschlag,et al. Alkaline Phosphatase Revisited: Hydrolysis of Alkyl Phosphates †. , 2002, Biochemistry.
[414] R. Varadarajan,et al. Elucidation of factors responsible for enhanced thermal stability of proteins: a structural genomics based study. , 2002, Biochemistry.
[415] R L Jernigan,et al. Molecular mechanisms of chaperonin GroEL-GroES function. , 2002, Biochemistry.
[416] T. Poulos,et al. New understandings of thermostable and peizostable enzymes. , 2003, Current opinion in biotechnology.
[417] Liam J. McGuffin,et al. Improvement of the GenTHREADER Method for Genomic Fold Recognition , 2003, Bioinform..
[418] Paul W. Fitzjohn,et al. In silico protein recombination: enhancing template and sequence alignment selection for comparative protein modelling. , 2003, Journal of molecular biology.
[419] T. Holman,et al. Spectroscopic characterization of soybean lipoxygenase-1 mutants: the role of second coordination sphere residues in the regulation of enzyme activity. , 2003, Biochemistry.
[420] Michael Zuker,et al. Mfold web server for nucleic acid folding and hybridization prediction , 2003, Nucleic Acids Res..
[421] Adam Godzik,et al. XOL-1, primary determinant of sexual fate in C. elegans, is a GHMP kinase family member and a structural prototype for a class of developmental regulators. , 2003, Genes & development.
[422] Shandar Ahmad,et al. ASAView: Database and tool for solvent accessibility representation in proteins , 2003, BMC Bioinformatics.
[423] Andrzej Kolinski,et al. Protein fragment reconstruction using various modeling techniques , 2003, J. Comput. Aided Mol. Des..
[424] A. Sali,et al. Comparative protein structure modeling by iterative alignment, model building and model assessment. , 2003, Nucleic Acids Research.
[425] J. Heitman,et al. A nomenclature for restriction enzymes, DNA methyltransferases, homing endonucleases and their genes. , 2003, Nucleic acids research.
[426] K. Ginalski,et al. Protein structure prediction of CASP5 comparative modeling and fold recognition targets using consensus alignment approach and 3D assessment , 2003, Proteins.
[427] Laurence H Pearl,et al. Structural basis for recruitment of translesion DNA polymerase Pol IV/DinB to the β‐clamp , 2003, The EMBO journal.
[428] R. Garry,et al. Proteomics computational analyses suggest that hepatitis C virus E1 and pestivirus E2 envelope glycoproteins are truncated class II fusion proteins. , 2003, Virology.
[429] Shandar Ahmad,et al. Design and training of a neural network for predicting the solvent accessibility of proteins , 2003, J. Comput. Chem..
[430] S. Bell,et al. A heterotrimeric PCNA in the hyperthermophilic archaeon Sulfolobus solfataricus. , 2003, Molecular cell.
[431] Y. Ishino,et al. Intermolecular ion pairs maintain the toroidal structure of Pyrococcus furiosus PCNA , 2003, Protein science : a publication of the Protein Society.
[432] Janusz M. Bujnicki,et al. GeneSilico protein structure prediction meta-server , 2003, Nucleic Acids Res..
[433] J. Xiang,et al. Mapping protein: carbohydrate interactions. , 2003, Current protein & peptide science.
[434] E. O’Shea,et al. Global analysis of protein localization in budding yeast , 2003, Nature.
[435] J. Foote. Isomeric Antibodies , 2003, Science.
[436] Takashi Yamane,et al. An empirical approach for structure-based prediction of carbohydrate-binding sites on proteins. , 2003, Protein engineering.
[437] Homme W Hellinga,et al. An empirical model for electrostatic interactions in proteins incorporating multiple geometry‐dependent dielectric constants , 2003, Proteins.
[438] Thomas C Terwilliger,et al. SOLVE and RESOLVE: automated structure solution and density modification. , 2003, Methods in enzymology.
[439] J. Sacchettini,et al. Crystal Structure of ATP Phosphoribosyltransferase fromMycobacterium tuberculosis * , 2003, The Journal of Biological Chemistry.
[440] Dan S. Tawfik,et al. Conformational diversity and protein evolution--a 60-year-old hypothesis revisited. , 2003, Trends in biochemical sciences.
[441] L. Holm,et al. Exhaustive enumeration of protein domain families. , 2003, Journal of molecular biology.
[442] E. Gouaux,et al. Probing the function, conformational plasticity, and dimer-dimer contacts of the GluR2 ligand-binding core: studies of 5-substituted willardiines and GluR2 S1S2 in the crystal. , 2003, Biochemistry.
[443] A. Sali,et al. Modeller: generation and refinement of homology-based protein structure models. , 2003, Methods in enzymology.
[444] Xavier Robert,et al. ESPript/ENDscript: extracting and rendering sequence and 3D information from atomic structures of proteins , 2003, Nucleic Acids Res..
[445] G. Phillips,et al. Structures of thermophilic and mesophilic adenylate kinases from the genus Methanococcus. , 2003, Journal of molecular biology.
[446] Dan S. Tawfik,et al. The specificity of cross‐reactivity: Promiscuous antibody binding involves specific hydrogen bonds rather than nonspecific hydrophobic stickiness , 2003, Protein science : a publication of the Protein Society.
[447] Anna Tramontano,et al. Assessment of homology‐based predictions in CASP5 , 2003, Proteins.
[448] Marcin Feder,et al. A “FRankenstein's monster” approach to comparative modeling: Merging the finest fragments of Fold‐Recognition models and iterative model refinement aided by 3D structure evaluation , 2003, Proteins.
[449] A. Elofsson,et al. Can correct protein models be identified? , 2003, Protein science : a publication of the Protein Society.
[450] N. Dixon,et al. Flexibility revealed by the 1.85 A crystal structure of the beta sliding-clamp subunit of Escherichia coli DNA polymerase III. , 2003, Acta crystallographica. Section D, Biological crystallography.
[451] D. Oesterhelt,et al. Crystal structure of halophilic dodecin: a novel, dodecameric flavin binding protein from Halobacterium salinarum. , 2003, Structure.
[452] S. Yokoyama,et al. Structure and catalytic mechanism of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MECDP) synthase, an enzyme in the non-mevalonate pathway of isoprenoid synthesis. , 2003, Acta crystallographica. Section D, Biological crystallography.
[453] T. Allers,et al. Genetic analysis of homologous recombination in Archaea: Haloferax volcanii as a model organism. , 2003, Biochemical Society transactions.
[454] Darren A. Natale,et al. The COG database: an updated version includes eukaryotes , 2003, BMC Bioinformatics.
[455] Gustavo Caetano-Anollés,et al. An evolutionarily structured universe of protein architecture. , 2003, Genome research.
[456] Johanna M. Rommens,et al. Mutations in SBDS are associated with Shwachman–Diamond syndrome , 2003, Nature Genetics.
[457] D. Baker,et al. Coupled prediction of protein secondary and tertiary structure , 2003, Proceedings of the National Academy of Sciences of the United States of America.
[458] Janusz M Bujnicki,et al. Crystallographic and bioinformatic studies on restriction endonucleases: inference of evolutionary relationships in the "midnight zone" of homology. , 2003, Current protein & peptide science.
[459] Daniel Fischer,et al. Twenty thousand ORFan microbial protein families for the biologist? , 2003, Structure.
[460] Jonathan Casper,et al. Combining local‐structure, fold‐recognition, and new fold methods for protein structure prediction , 2003, Proteins.
[461] Burkhard Rost,et al. The PredictProtein server , 2003, Nucleic Acids Res..
[462] Richard J. Roberts,et al. REBASE: restriction enzymes and methyltransferases , 2003, Nucleic Acids Res..
[463] S. M. Cowsik,et al. Large contact surface interactions between proteins detected by time series analysis methods: Case study on C‐phycocyanins , 2003, Proteins.
[464] V. Metelev,et al. PspGI, a type II restriction endonuclease from the extreme thermophile Pyrococcus sp.: structural and functional studies to investigate an evolutionary relationship with several mesophilic restriction enzymes. , 2003, Journal of molecular biology.
[465] Dan S. Tawfik,et al. Antibody Multispecificity Mediated by Conformational Diversity , 2003, Science.
[466] Virginijus Siksnys,et al. The metal-independent type IIs restriction enzyme BfiI is a dimer that binds two DNA sites but has only one catalytic centre. , 2003, Journal of molecular biology.
[467] M. Onozuka,et al. Steady-state kinetics and mutational studies of recombinant human thiamin pyrophosphokinase. , 2003, Journal of nutritional science and vitaminology.
[468] A. Godzik,et al. Homology modeling provides insights into the binding mode of the PAAD/DAPIN/pyrin domain, a fourth member of the CARD/DD/DED domain family , 2003, Protein science : a publication of the Protein Society.
[469] James P J Chong,et al. A novel nuclease-ATPase (Nar71) from archaea is part of a proposed thermophilic DNA repair system. , 2004, Nucleic acids research.
[470] Karsten Suhre,et al. ElNémo: a normal mode web server for protein movement analysis and the generation of templates for molecular replacement , 2004, Nucleic Acids Res..
[471] Peer Bork,et al. SMART 4.0: towards genomic data integration , 2004, Nucleic Acids Res..
[472] Jie Liang,et al. Protein-protein interactions: hot spots and structurally conserved residues often locate in complemented pockets that pre-organized in the unbound states: implications for docking. , 2004, Journal of molecular biology.
[473] J. Bujnicki,et al. Interaction preferences across protein-protein interfaces of obligatory and non-obligatory components are different , 2005, BMC Structural Biology.
[474] D. Hume,et al. Phosphotyrosyl peptides and analogues as substrates and inhibitors of purple acid phosphatases. , 2004, Archives of biochemistry and biophysics.
[475] Janusz M Bujnicki,et al. Type II restriction endonuclease R.KpnI is a member of the HNH nuclease superfamily. , 2004, Nucleic acids research.
[476] W. Eisenreich,et al. Hexameric Assembly of the Bifunctional Methylerythritol 2,4-Cyclodiphosphate Synthase and Protein-Protein Associations in the Deoxy-xylulose-dependent Pathway of Isoprenoid Precursor Biosynthesis* , 2004, Journal of Biological Chemistry.
[477] Roberto Sanchez,et al. Systematic analysis of added-value in simple comparative models of protein structure. , 2004, Structure.
[478] Hao Fan,et al. Refinement of homology‐based protein structures by molecular dynamics simulation techniques , 2004, Protein science : a publication of the Protein Society.
[479] J. Tainer,et al. Structural Basis for FEN-1 Substrate Specificity and PCNA-Mediated Activation in DNA Replication and Repair , 2004, Cell.
[480] Jean-Michel Claverie,et al. CaspR: a web server for automated molecular replacement using homology modelling , 2004, Nucleic Acids Res..
[481] Shandar Ahmad,et al. Analysis and prediction of DNA-binding proteins and their binding residues based on composition, sequence and structural information , 2004, Bioinform..
[482] B. Mikami,et al. Structure and function of a hypothetical Pseudomonas aeruginosa protein PA1167 classified into family PL-7: a novel alginate lyase with a beta-sandwich fold. , 2004, The Journal of biological chemistry.
[483] C. Rice,et al. An N-Terminal Amphipathic Helix in Hepatitis C Virus (HCV) NS4B Mediates Membrane Association, Correct Localization of Replication Complex Proteins, and HCV RNA Replication , 2004, Journal of Virology.
[484] Petety V Balaji,et al. Identification of common structural features of binding sites in galactose‐specific proteins , 2004, Proteins.
[485] Shaomin Yan,et al. Fate of 130 hemagglutinins from different influenza A viruses. , 2004, Biochemical and biophysical research communications.
[486] H. Larsen,et al. Halobacterium volcanii spec. nov., a Dead Sea halobacterium with a moderate salt requirement , 1975, Archives of Microbiology.
[487] Jue Chen,et al. ATP-binding cassette transporters in bacteria. , 2004, Annual review of biochemistry.
[488] J. Boucher,et al. Inhibitor coordination interactions in the binuclear manganese cluster of arginase. , 2004, Biochemistry.
[489] D. Schneider. Rendezvous in a membrane: close packing, hydrogen bonding, and the formation of transmembrane helix oligomers , 2004, FEBS letters.
[490] David Baker,et al. Improvement of comparative model accuracy by free-energy optimization along principal components of natural structural variation. , 2004, Proceedings of the National Academy of Sciences of the United States of America.
[491] A. Pingoud,et al. Type II restriction endonucleases: structure and mechanism , 2005, Cellular and Molecular Life Sciences.
[492] Kevin Cowtan,et al. research papers Acta Crystallographica Section D Biological , 2005 .
[493] Janusz M. Bujnicki,et al. COLORADO3D, a web server for the visual analysis of protein structures , 2004, Nucleic Acids Res..
[494] H. Drummer,et al. Hepatitis C Virus Glycoprotein E2 Contains a Membrane-proximal Heptad Repeat Sequence That Is Essential for E1E2 Glycoprotein Heterodimerization and Viral Entry* , 2004, Journal of Biological Chemistry.
[495] A. Sali,et al. Alignment of protein sequences by their profiles , 2004, Protein science : a publication of the Protein Society.
[496] K. Linton,et al. The ATP switch model for ABC transporters , 2004, Nature Structural &Molecular Biology.
[497] Conrad C. Huang,et al. UCSF Chimera—A visualization system for exploratory research and analysis , 2004, J. Comput. Chem..
[498] J. Lepault,et al. Conformational change and protein–protein interactions of the fusion protein of Semliki Forest virus , 2004, Nature.
[499] Stella Veretnik,et al. Toward consistent assignment of structural domains in proteins. , 2004, Journal of molecular biology.
[500] D. Bussiere,et al. Structure of 2C-methyl-D-erythritol-2,4-cyclodiphosphate synthase from Shewanella oneidensis at 1.6 A: identification of farnesyl pyrophosphate trapped in a hydrophobic cavity. , 2004, Acta crystallographica. Section D, Biological crystallography.
[501] S. Halford,et al. Dynamics of DNA loop capture by the SfiI restriction endonuclease on supercoiled and relaxed DNA. , 2004, Journal of molecular biology.
[502] J. Badia,et al. Functional characterization of the Escherichia coli K-12 yiaMNO transport protein genes , 2004, Molecular membrane biology.
[503] Hongyi Zhou,et al. Single‐body residue‐level knowledge‐based energy score combined with sequence‐profile and secondary structure information for fold recognition , 2004, Proteins.
[504] D. Krüger,et al. Crystal structure of type IIE restriction endonuclease EcoRII reveals an autoinhibition mechanism by a novel effector-binding fold. , 2004, Journal of molecular biology.
[505] Y. Makita,et al. Novel SBDS mutations caused by gene conversion in Japanese patients with Shwachman-Diamond syndrome , 2004, Human Genetics.
[506] Shandar Ahmad,et al. PSSM-based prediction of DNA binding sites in proteins , 2005, BMC Bioinformatics.
[507] K. Stiasny,et al. Structure of a flavivirus envelope glycoprotein in its low‐pH‐induced membrane fusion conformation , 2004, The EMBO journal.
[508] Kay Diederichs,et al. Cation-π Interactions as Determinants for Binding of the Compatible Solutes Glycine Betaine and Proline Betaine by the Periplasmic Ligand-binding Protein ProX from Escherichia coli* , 2004, Journal of Biological Chemistry.
[509] N. Veljkovic,et al. MOLECULAR MAKEUP OF HIV-1 ENVELOPE PROTEIN , 2004, International reviews of immunology.
[510] K Henrick,et al. Electronic Reprint Biological Crystallography Secondary-structure Matching (ssm), a New Tool for Fast Protein Structure Alignment in Three Dimensions Biological Crystallography Secondary-structure Matching (ssm), a New Tool for Fast Protein Structure Alignment in Three Dimensions , 2022 .
[511] B. Somogyi,et al. The effect of phalloidin and jasplakinolide on the flexibility and thermal stability of actin filaments , 2004, FEBS letters.
[512] Sung-Hou Kim,et al. Local feature frequency profile: a method to measure structural similarity in proteins. , 2004, Proceedings of the National Academy of Sciences of the United States of America.
[513] Aleksey Porollo,et al. PROTEINS: Structure, Function, and Bioinformatics 56:753–767 (2004) Accurate Prediction of Solvent Accessibility Using Neural Networks–Based Regression , 2022 .
[514] M. Vieth,et al. Kinomics-structural biology and chemogenomics of kinase inhibitors and targets. , 2004, Biochimica et biophysica acta.
[515] Marcin Feder,et al. Identification of a new family of putative PD-(D/E)XK nucleases with unusual phylogenomic distribution and a new type of the active site , 2005, BMC Genomics.
[516] R. Wilson,et al. Mutations of the SBDS gene are present in most patients with Shwachman-Diamond syndrome. , 2004, Blood.
[517] A. Kolinski. Protein modeling and structure prediction with a reduced representation. , 2004, Acta biochimica Polonica.
[518] Alessandro Senes,et al. Folding of helical membrane proteins: the role of polar, GxxxG-like and proline motifs. , 2004, Current opinion in structural biology.
[519] G. Wilson,et al. Direct electrochemistry of porcine purple acid phosphatase (uteroferrin). , 2004, Biochemistry.
[520] J. Claverie,et al. Structural genomics of highly conserved microbial genes of unknown function in search of new antibacterial targets , 2004, Journal of Structural and Functional Genomics.
[521] Y. Modis,et al. Structure of the dengue virus envelope protein after membrane fusion , 2004, Nature.
[522] R. MacKinnon,et al. Glycine as a D-amino acid surrogate in the K(+)-selectivity filter. , 2004, Proceedings of the National Academy of Sciences of the United States of America.
[523] Virander S. Chauhan,et al. De novo design and characterization of a helical hairpin eicosapeptide; emergence of an anion receptor in the linker region. , 2004, Structure.
[524] I. Kobayashi. Restriction-Modification Systems as Minimal Forms of Life , 2004 .
[525] Iosif I Vaisman,et al. A simple topological representation of protein structure: Implications for new, fast, and robust structural classification , 2004, Proteins.
[526] J. Bujnicki. Molecular Phylogenetics of Restriction Endonucleases , 2004 .
[527] Robert C. Edgar,et al. MUSCLE: multiple sequence alignment with high accuracy and high throughput. , 2004, Nucleic acids research.
[528] Tim J. P. Hubbard,et al. SCOP database in 2004: refinements integrate structure and sequence family data , 2004, Nucleic Acids Res..
[529] Ming-Tat Ko,et al. Amino acid coupling patterns in thermophilic proteins , 2005, Proteins.
[530] Lei Wang,et al. Accuracy of structure-derived properties in simple comparative models of protein structures , 2005, Nucleic acids research.
[531] P. Weers,et al. Role of buried polar residues in helix bundle stability and lipid binding of apolipophorin III: destabilization by threonine 31. , 2005, Biochemistry.
[532] R. Leary,et al. The Shwachman-Diamond SBDS protein localizes to the nucleolus. , 2005, Blood.
[533] Charles M. Rice,et al. Unravelling hepatitis C virus replication from genome to function , 2005, Nature.
[534] H. Viadiu,et al. A view of consecutive binding events from structures of tetrameric endonuclease SfiI bound to DNA , 2005, The EMBO journal.
[535] Johannes Söding,et al. The HHpred interactive server for protein homology detection and structure prediction , 2005, Nucleic Acids Res..
[536] J. Bao,et al. Effect of amino acid residue and oligosaccharide chain chemical modifications on spectral and hemagglutinating activity of Millettia dielsiana Harms. ex Diels. lectin. , 2005, Acta biochimica et biophysica Sinica.
[537] T. Hughes,et al. The Shwachman-Bodian-Diamond Syndrome Protein Family Is Involved in RNA Metabolism* , 2005, Journal of Biological Chemistry.
[538] B. Kawakami,et al. Discovery of a novel restriction endonuclease by genome comparison and application of a wheat-germ-based cell-free translation assay: PabI (5′-GTA/C) from the hyperthermophilic archaeon Pyrococcus abyssi , 2005, Nucleic acids research.
[539] J. Bujnicki,et al. Specificity Changes in the Evolution of Type II Restriction Endonucleases , 2005, Journal of Biological Chemistry.
[540] K. Katoh,et al. MAFFT version 5: improvement in accuracy of multiple sequence alignment , 2005, Nucleic acids research.
[541] I. Bahar,et al. Structural changes involved in protein binding correlate with intrinsic motions of proteins in the unbound state. , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[542] Robert Huber,et al. Structure of the metal-independent restriction enzyme BfiI reveals fusion of a specific DNA-binding domain with a nonspecific nuclease. , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[543] Cathy H. Wu,et al. InterPro, progress and status in 2005 , 2004, Nucleic Acids Res..
[544] Vasant Honavar,et al. Predicting DNA-binding sites of proteins from amino acid sequence , 2006, BMC Bioinformatics.
[545] Su-Ying Wu,et al. Structural and biochemical studies of human proliferating cell nuclear antigen complexes provide a rationale for cyclin association and inhibitor design. , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[546] Shigeyuki Yokoyama,et al. Structure-based functional identification of a novel heme-binding protein from Thermus thermophilus HB8 , 2004, Journal of Structural and Functional Genomics.
[547] A. Bracher,et al. Structure of a halophilic nucleoside diphosphate kinase from Halobacterium salinarum , 2005, FEBS letters.
[548] Č. Venclovas,et al. Comparative modeling in CASP6 using consensus approach to template selection, sequence‐structure alignment, and structure assessment , 2005, Proteins.
[549] Joost Schymkowitz,et al. Recognizing and defining true Ras binding domains II: in silico prediction based on homology modelling and energy calculations. , 2005, Journal of molecular biology.
[550] Gaynor A Randle,et al. Sialic acid transport in Haemophilus influenzae is essential for lipopolysaccharide sialylation and serum resistance and is dependent on a novel tripartite ATP‐independent periplasmic transporter , 2005, Molecular microbiology.
[551] Ozlem Keskin,et al. Protein Interactions and Fluctuations in a Proteomic Network using an Elastic Network Model , 2005, Journal of biomolecular structure & dynamics.
[552] Nick V Grishin,et al. A tale of two ferredoxins: sequence similarity and structural differences , 2006 .
[553] A Pandini,et al. Conservation and specialization in PAS domain dynamics. , 2005, Protein engineering, design & selection : PEDS.
[554] D. Pignol,et al. A papain-like enzyme at work: native and acyl-enzyme intermediate structures in phytochelatin synthesis. , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[555] Arne Elofsson,et al. All are not equal: A benchmark of different homology modeling programs , 2005, Protein science : a publication of the Protein Society.
[556] L. Guddat,et al. Phosphate forms an unusual tripodal complex with the Fe-Mn center of sweet potato purple acid phosphatase. , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[557] Vojtech Spiwok,et al. Modelling of carbohydrate–aromatic interactions: ab initio energetics and force field performance , 2006, J. Comput. Aided Mol. Des..
[558] B. Van Houten,et al. Structural insights into the first incision reaction during nucleotide excision repair , 2005, The EMBO journal.
[559] Sándor Pongor,et al. Efficient recognition of folds in protein 3D structures by the improved PRIDE algorithm , 2005, Bioinform..
[560] Alfredo Colosimo,et al. Structure-Related Statistical Singularities along Protein Sequences: A Correlation Study , 2005, J. Chem. Inf. Model..
[561] N. Sträter,et al. Crystal structures of recombinant human purple Acid phosphatase with and without an inhibitory conformation of the repression loop. , 2005, Journal of molecular biology.
[562] P J Winn,et al. Issues in high‐throughput comparative modelling: A case study using the ubiquitin E2 conjugating enzymes , 2004, Proteins.
[563] Arne Elofsson,et al. Pcons5: combining consensus, structural evaluation and fold recognition scores , 2005, Bioinform..
[564] Edita Kriukienė,et al. MnlI--The member of H-N-H subtype of Type IIS restriction endonucleases. , 2005, Biochimica et biophysica acta.
[565] M. Gerstein,et al. Global analysis of protein phosphorylation in yeast , 2005, Nature.
[566] Adam Godzik,et al. Connecting the protein structure universe by using sparse recurring fragments. , 2005, Structure.
[567] Johannes Söding,et al. Protein homology detection by HMM?CHMM comparison , 2005, Bioinform..
[568] Barry Honig,et al. Retroviral matrix domains share electrostatic homology: models for membrane binding function throughout the viral life cycle. , 2005, Structure.
[569] Russell L. Marsden,et al. Progress of structural genomics initiatives: an analysis of solved target structures. , 2005, Journal of molecular biology.
[570] L. Kay,et al. Intrinsic dynamics of an enzyme underlies catalysis , 2005, Nature.
[571] B. Somogyi,et al. A simple model for the cooperative stabilisation of actin filaments by phalloidin and jasplakinolide , 2005, FEBS letters.
[572] Liisa Holm,et al. ADDA: a domain database with global coverage of the protein universe , 2004, Nucleic Acids Res..
[573] Mohd Firdaus Raih,et al. Solvent accessibility in native and isolated domain environments: general features and implications to interface predictability. , 2005, Biophysical chemistry.
[574] Itay Mayrose,et al. ConSurf 2005: the projection of evolutionary conservation scores of residues on protein structures , 2005, Nucleic Acids Res..
[575] Leszek Rychlewski,et al. LiveBench‐8: The large‐scale, continuous assessment of automated protein structure prediction , 2005, Protein science : a publication of the Protein Society.
[576] T. D. de Jongh,et al. Direct observation of multiple protonation states in recombinant human purple acid phosphatase , 2005, JBIC Journal of Biological Inorganic Chemistry.
[577] B. Assael,et al. Identification of novel mutations in patients with Shwachman‐Diamond syndrome , 2005, Human mutation.
[578] D. O’Leary,et al. Secondary structure spatial conformation footprint: a novel method for fast protein structure comparison and classification , 2006, BMC Structural Biology.
[579] Marcin Feder,et al. The PD-(D/E)XK superfamily revisited: identification of new members among proteins involved in DNA metabolism and functional predictions for domains of (hitherto) unknown function , 2005, BMC Bioinformatics.
[580] John Moult,et al. A decade of CASP: progress, bottlenecks and prognosis in protein structure prediction. , 2005, Current opinion in structural biology.
[581] J. Rommens,et al. Structural and Mutational Analysis of the SBDS Protein Family , 2005, Journal of Biological Chemistry.
[582] B. Ranjbar,et al. Deglycosylation of glucoamylase from Aspergillus niger: effects on structure, activity and stability. , 2005, Biochimica et biophysica acta.
[583] S. Brunak,et al. Prediction, conservation analysis, and structural characterization of mammalian mucin-type O-glycosylation sites. , 2005, Glycobiology.
[584] Janusz M Bujnicki,et al. Generalized protein structure prediction based on combination of fold‐recognition with de novo folding and evaluation of models , 2005, Proteins.
[585] Marcin Feder,et al. FRankenstein becomes a cyborg: The automatic recombination and realignment of fold recognition models in CASP6 , 2005, Proteins.
[586] J. Bujnicki,et al. A theoretical model of restriction endonuclease NlaIV in complex with DNA, predicted by fold recognition and validated by site-directed mutagenesis and circular dichroism spectroscopy. , 2005, Protein engineering, design & selection : PEDS.
[587] Leszek Rychlewski,et al. FFAS03: a server for profile–profile sequence alignments , 2005, Nucleic Acids Res..
[588] Eugene I Shakhnovich,et al. Physics and evolution of thermophilic adaptation. , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[589] R. Greaves,et al. Mechanisms for stabilisation and the maintenance of solubility in proteins from thermophiles , 2007, BMC Structural Biology.
[590] Y. Iwasa,et al. Genetic Addiction: Selfish Gene's Strategy for Symbiosis in the Genome , 2006, Genetics.
[591] B. Patel,et al. Crystal structure of AmyA lacks acidic surface and provide insights into protein stability at poly‐extreme condition , 2006, FEBS letters.
[592] Stephen D. Bell,et al. DNA Replication in the Archaea , 2006, Microbiology and Molecular Biology Reviews.
[593] Liangjiang Wang,et al. BindN: a web-based tool for efficient prediction of DNA and RNA binding sites in amino acid sequences , 2006, Nucleic Acids Res..
[594] Jean-François Gibrat,et al. ROC and confusion analysis of structure comparison methods identify the main causes of divergence from manual protein classification , 2006, BMC Bioinform..
[595] R. Bahadur,et al. ProFace: a server for the analysis of the physicochemical features of protein-protein interfaces , 2006, BMC Structural Biology.
[596] L. Maródi,et al. Severe Shwachman-Diamond syndrome phenotype caused by compound heterozygous missense mutations in the SBDS gene. , 2006, Experimental hematology.
[597] Dinakar M Salunke,et al. Differential epitope positioning within the germline antibody paratope enhances promiscuity in the primary immune response. , 2006, Immunity.
[598] Alessandra Corazza,et al. Structure, conformational stability, and enzymatic properties of acylphosphatase from the hyperthermophile Sulfolobus solfataricus , 2005, Proteins.
[599] Philip E. Bourne,et al. Identifying allosteric fluctuation transitions between different protein conformational states as applied to Cyclin Dependent Kinase 2 , 2007, BMC Bioinformatics.
[600] Tom L Blundell,et al. An algorithm for predicting protein–protein interaction sites: Abnormally exposed amino acid residues and secondary structure elements , 2006, Protein science : a publication of the Protein Society.
[601] C. Voisset,et al. Hepatitis C virus entry: potential receptors and their biological functions. , 2006, The Journal of general virology.
[602] E. Blanchard,et al. Hepatitis C Virus Entry Depends on Clathrin-Mediated Endocytosis , 2006, Journal of Virology.
[603] R. Hohl,et al. Anti-cancer therapy: targeting the mevalonate pathway. , 2006, Current cancer drug targets.
[604] R. Mariuzza. Multiple paths to multispecificity. , 2006, Immunity.
[605] Marcin Feder,et al. Phylogenomic analysis of the GIY-YIG nuclease superfamily , 2006, BMC Genomics.
[606] D. Pignol,et al. Genetic and Biochemical Evidence for the Involvement of a Molybdenum-Dependent Enzyme in One of the Selenite Reduction Pathways of Rhodobacter sphaeroides f. sp. denitrificans IL106 , 2006, Applied and Environmental Microbiology.
[607] Gabrielle A. Reeves,et al. Structural diversity of domain superfamilies in the CATH database. , 2006, Journal of molecular biology.
[608] Milton H. Saier,et al. TCDB: the Transporter Classification Database for membrane transport protein analyses and information , 2005, Nucleic Acids Res..
[609] K. Britton,et al. Analysis of protein solvent interactions in glucose dehydrogenase from the extreme halophile Haloferax mediterranei. , 2006, Proceedings of the National Academy of Sciences of the United States of America.
[610] D. Hume,et al. Identification and molecular modeling of a novel, plant-like, human purple acid phosphatase. , 2006, Gene.
[611] A. J. Perez-Berna,et al. The membrane-active regions of the hepatitis C virus E1 and E2 envelope glycoproteins. , 2006, Biochemistry.
[612] J. M. Scholtz,et al. Lessons in stability from thermophilic proteins , 2006, Protein science : a publication of the Protein Society.
[613] Xiaoliang Liang,et al. The roles of surface loop insertions and disulfide bond in the stabilization of thermophilic WF146 protease , 2006, FEBS letters.
[614] Shandar Ahmad,et al. Dimensionality of amino acid space and solvent accessibility prediction with neural networks , 2006, Comput. Biol. Chem..
[615] A. Giuliani,et al. Simulated point mutations in the Aalpha-chain of human fibrinogen support a role of the alphaC domain in the stabilization of fibrin gel. , 2006, Pathophysiology of haemostasis and thrombosis.
[616] G. Thomas,et al. Novel ligands for the extracellular solute receptors of two bacterial TRAP transporters. , 2006, Microbiology.
[617] J. Soppa. From genomes to function: haloarchaea as model organisms. , 2006, Microbiology.
[618] B. Bassler,et al. Ligand-Induced Asymmetry in Histidine Sensor Kinase Complex Regulates Quorum Sensing , 2006, Cell.
[619] M. Ellingham,et al. Selection and characterization of RNA aptamers to the RNA-dependent RNA polymerase from foot-and-mouth disease virus. , 2006, RNA.
[620] H. Kanegane,et al. Clinical and genetic analyses of presumed shwachman-diamond syndrome in Japan , 2006, International journal of hematology.
[621] F. Rey,et al. Virus membrane-fusion proteins: more than one way to make a hairpin , 2006, Nature Reviews Microbiology.
[622] H. Hellinga,et al. The crystal structure of a thermophilic glucose binding protein reveals adaptations that interconvert mono and di-saccharide binding sites. , 2006, Journal of molecular biology.
[623] J. Wiesner,et al. Fosmidomycin plus Clindamycin for Treatment of Pediatric Patients Aged 1 to 14 Years with Plasmodium falciparum Malaria , 2006, Antimicrobial Agents and Chemotherapy.
[624] F. Penin,et al. Transmembrane Domains of Hepatitis C Virus Envelope Glycoproteins: Residues Involved in E1E2 Heterodimerization and Involvement of These Domains in Virus Entry , 2006, Journal of Virology.
[625] L. Guddat,et al. Inhibition studies of purple acid phosphatases: implications for the catalytic mechanism , 2006 .
[626] J. Rommens,et al. Phylogeny, sequence conservation, and functional complementation of the SBDS protein family. , 2006, Genomics.
[627] Seungwoo Hwang,et al. Using evolutionary and structural information to predict DNA‐binding sites on DNA‐binding proteins , 2006, Proteins.
[628] Sean R. Collins,et al. Global landscape of protein complexes in the yeast Saccharomyces cerevisiae , 2006, Nature.
[629] A. Giuliani,et al. Simulated Point Mutations in the Aα-Chain of Human Fibrinogen Support a Role of the αC Domain in the Stabilization of Fibrin Gel , 2007, Pathophysiology of Haemostasis and Thrombosis.
[630] K. Resing,et al. The gatekeeper residue controls autoactivation of ERK2 via a pathway of intramolecular connectivity , 2006, Proceedings of the National Academy of Sciences.
[631] Andrew G. Watts,et al. Conservation of Structure and Mechanism in Primary and Secondary Transporters Exemplified by SiaP, a Sialic Acid Binding Virulence Factor from Haemophilus influenzae* , 2006, Journal of Biological Chemistry.
[632] L. Guddat,et al. The catalytic mechanisms of binuclear metallohydrolases. , 2006, Chemical reviews.
[633] David Tollervey,et al. RNA-quality control by the exosome , 2006, Nature Reviews Molecular Cell Biology.
[634] F. Spener,et al. Recombinant purple acid phosphatase isoform 3 from sweet potato is an enzyme with a diiron metal center , 2006, The FEBS journal.
[635] F. Penin,et al. Hepatitis C Virus Glycoproteins Mediate Low pH-dependent Membrane Fusion with Liposomes* , 2006, Journal of Biological Chemistry.
[636] H. Morii,et al. Biosynthesis of Ether-Type Polar Lipids in Archaea and Evolutionary Considerations , 2007, Microbiology and Molecular Biology Reviews.
[637] D. Chang,et al. Membrane interaction and structure of the transmembrane domain of influenza hemagglutinin and its fusion peptide complex. , 2008 .
[638] Jürgen Kurths,et al. Recurrence plots for the analysis of complex systems , 2009 .
[639] F. Penin,et al. Characterization of Fusion Determinants Points to the Involvement of Three Discrete Regions of Both E1 and E2 Glycoproteins in the Membrane Fusion Process of Hepatitis C Virus , 2007, Journal of Virology.
[640] M. Nei,et al. MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. , 2007, Molecular biology and evolution.
[641] William N. Hunter,et al. The Non-mevalonate Pathway of Isoprenoid Precursor Biosynthesis* , 2007, Journal of Biological Chemistry.
[642] R. Peralta,et al. Probing the role of the divalent metal ion in uteroferrin using metal ion replacement and a comparison to isostructural biomimetics , 2007, JBIC Journal of Biological Inorganic Chemistry.
[643] Michelle G. Giglio,et al. TIGRFAMs and Genome Properties: tools for the assignment of molecular function and biological process in prokaryotic genomes , 2006, Nucleic Acids Res..
[644] J. Bujnicki,et al. Identification of a single HNH active site in type IIS restriction endonuclease Eco31I. , 2007, Journal of molecular biology.
[645] Michail Yu. Lobanov,et al. Different packing of external residues can explain differences in the thermostability of proteins from thermophilic and mesophilic organisms , 2007, Bioinform..
[646] A. Hengge,et al. Diesterase activity and substrate binding in purple acid phosphatases. , 2007, Journal of the American Chemical Society.
[647] Homme W Hellinga,et al. Protein fabrication automation , 2007, Protein science : a publication of the Protein Society.
[648] N. Zanchin,et al. The Shwachman-Bodian-Diamond syndrome associated protein interacts with HsNip7 and its down-regulation affects gene expression at the transcriptional and translational levels. , 2007, Experimental cell research.
[649] Marcin Feder,et al. Type II restriction endonuclease R.Eco29kI is a member of the GIY-YIG nuclease superfamily , 2007, BMC Structural Biology.
[650] Jianguo Wu,et al. Origin of highly pathogenic H5N1 avian influenza virus in China and genetic characterization of donor and recipient viruses. , 2007, The Journal of general virology.
[651] U. Dietrich,et al. Application of the EIIP/ISM bioinformatics concept in development of new drugs. , 2007, Current medicinal chemistry.
[652] V. Hilser,et al. Functional residues serve a dominant role in mediating the cooperativity of the protein ensemble , 2007, Proceedings of the National Academy of Sciences.
[653] Michael Costanzo,et al. The Shwachman-Bodian-Diamond syndrome protein mediates translational activation of ribosomes in yeast , 2007, Nature Genetics.
[654] A. Mandell,et al. Designing allosteric peptide ligands targeting a globular protein. , 2007, Biopolymers.
[655] Janusz M Bujnicki,et al. A model of restriction endonuclease MvaI in complex with DNA: A template for interpretation of experimental data and a guide for specificity engineering , 2007, Proteins.
[656] Benjamin J. Raphael,et al. The Sorcerer II Global Ocean Sampling Expedition: Expanding the Universe of Protein Families , 2007, PLoS biology.
[657] L. Gahan,et al. The reaction mechanism of the Ga(III)Zn(II) derivative of uteroferrin and corresponding biomimetics , 2007, JBIC Journal of Biological Inorganic Chemistry.
[658] V. Šikšnys,et al. Restriction endonuclease MvaI is a monomer that recognizes its target sequence asymmetrically , 2007, Nucleic acids research.
[659] Akiko Shimamura,et al. The human Shwachman-Diamond syndrome protein, SBDS, associates with ribosomal RNA. , 2007, Blood.
[660] Jens Carlsson,et al. Structures of Mycobacterium tuberculosis 1-Deoxy-D-xylulose-5-phosphate Reductoisomerase Provide New Insights into Catalysis* , 2007, Journal of Biological Chemistry.
[661] K. Henrick,et al. Inference of macromolecular assemblies from crystalline state. , 2007, Journal of molecular biology.
[662] J. Bujnicki,et al. Novel protein fold discovered in the PabI family of restriction enzymes , 2007, Nucleic acids research.
[663] R. Peralta,et al. An unprecedented Fe(III)(mu-OH)Zn(II) complex that mimics the structural and functional properties of purple acid phosphatases. , 2007, Journal of the American Chemical Society.
[664] S. Emerson,et al. Isolation and Characterization of Broadly Neutralizing Human Monoclonal Antibodies to the E1 Glycoprotein of Hepatitis C Virus , 2007, Journal of Virology.
[665] R. Goldstein. Amino‐acid interactions in psychrophiles, mesophiles, thermophiles, and hyperthermophiles: Insights from the quasi‐chemical approximation , 2007, Protein science : a publication of the Protein Society.
[666] H. Drummer,et al. Mutagenesis of a conserved fusion peptide-like motif and membrane-proximal heptad-repeat region of hepatitis C virus glycoprotein E1. , 2007, The Journal of general virology.
[667] P. Tien,et al. Analysis of a point mutation in H5N1 avian influenza virus hemagglutinin in relation to virus entry into live mammalian cells , 2008, Archives of Virology.
[668] Burak Erman,et al. Prediction of binding sites in receptor-ligand complexes with the Gaussian Network Model. , 2008, Physical review letters.
[669] Fei Long,et al. BALBES: a molecular-replacement pipeline , 2007, Acta crystallographica. Section D, Biological crystallography.
[670] N. Veljkovic,et al. Lipoprotein lipase: A bioinformatics criterion for assessment of mutations as a risk factor for cardiovascular disease , 2008, Proteins.
[671] N. Veljkovic,et al. EMILINs interact with anthrax protective antigen and inhibit toxin action in vitro. , 2008, Matrix biology : journal of the International Society for Matrix Biology.
[672] Kuo-Bin Li,et al. Remote protein homology detection using recurrence quantification analysis and amino acid physicochemical properties. , 2008, Journal of theoretical biology.
[673] E. Birney,et al. Pfam: the protein families database , 2013, Nucleic Acids Res..
[674] N. Veljkovic,et al. AIDS vaccine: efficacy, safety and ethics. , 2008, Vaccine.
[675] Michal Boniecki,et al. Structural bioinformatics analysis of enzymes involved in the biosynthesis pathway of the hypermodified nucleoside ms2io6A37 in tRNA , 2007, Proteins.
[676] Janusz M. Bujnicki,et al. MetaMQAP: A meta-server for the quality assessment of protein models , 2008, BMC Bioinformatics.
[677] Collin M. Stultz,et al. The Effect of a ΔK280 Mutation on the Unfolded State of a Microtubule-Binding Repeat in Tau , 2008, PLoS Comput. Biol..
[678] A. J. Perez-Berna,et al. The pre-transmembrane region of the HCV E1 envelope glycoprotein: interaction with model membranes. , 2008, Biochimica et biophysica acta.
[679] Y. Ishino,et al. Mechanism of replication machinery assembly as revealed by the DNA ligase–PCNA–DNA complex architecture , 2009, Proceedings of the National Academy of Sciences.
[680] T. Yasunaga,et al. Detection of circulating Asian H5N1 viruses by a newly established monoclonal antibody. , 2009, Biochemical and biophysical research communications.
[681] M. Kreek,et al. Sticky-End PCR : New Method for Subcloning , 2022 .