Crystal structure of YihS in complex with D-mannose: structural annotation of Escherichia coli and Salmonella enterica yihS-encoded proteins to an aldose-ketose isomerase.

[1]  H. Matsui,et al.  Cloning and sequencing of the cellobiose 2-epimerase gene from an obligatory anaerobe, Ruminococcus albus. , 2007, Biochemical and biophysical research communications.

[2]  Wen-Ching Wang,et al.  The central cavity from the (alpha/alpha)6 barrel structure of Anabaena sp. CH1 N-acetyl-D-glucosamine 2-epimerase contains two key histidine residues for reversible conversion. , 2007, Journal of molecular biology.

[3]  Hongjie Guo,et al.  Biochemical characterization of UDP-GlcNAc/Glc 4-epimerase from Escherichia coli O86:B7. , 2006, Biochemistry.

[4]  B. Mikami,et al.  Crystal Structure of Unsaturated Glucuronyl Hydrolase Complexed with Substrate , 2006, Journal of Biological Chemistry.

[5]  B. Mikami,et al.  Structure of unsaturated rhamnogalacturonyl hydrolase complexed with substrate. , 2006, Biochemical and biophysical research communications.

[6]  B. Mikami,et al.  A novel glycoside hydrolase family 105: the structure of family 105 unsaturated rhamnogalacturonyl hydrolase complexed with a disaccharide in comparison with family 88 enzyme complexed with the disaccharide. , 2006, Journal of molecular biology.

[7]  P. Babbitt,et al.  d-Ribulose 5-Phosphate 3-Epimerase:  Functional and Structural Relationships to Members of the Ribulose-Phosphate Binding (β/α)8-Barrel Superfamily, , 2006 .

[8]  Robert D. Finn,et al.  Pfam: clans, web tools and services , 2005, Nucleic Acids Res..

[9]  M. Tanner,et al.  The enzymes of sialic acid biosynthesis. , 2005, Bioorganic chemistry.

[10]  Jie-Oh Lee,et al.  Structural insights into the monosaccharide specificity of Escherichia coli rhamnose mutarotase. , 2005, Journal of molecular biology.

[11]  Kevin Cowtan,et al.  research papers Acta Crystallographica Section D Biological , 2005 .

[12]  A. S. Murkin,et al.  Identification and mechanism of a bacterial hydrolyzing UDP-N-acetylglucosamine 2-epimerase. , 2004, Biochemistry.

[13]  Masayuki Okuyama,et al.  Overexpression and characterization of two unknown proteins, YicI and YihQ, originated from Escherichia coli. , 2004, Protein expression and purification.

[14]  B. Mikami,et al.  Crystal Structure of Unsaturated Glucuronyl Hydrolase, Responsible for the Degradation of Glycosaminoglycan, from Bacillus sp. GL1 at 1.8 Å Resolution* , 2004, Journal of Biological Chemistry.

[15]  D. Timson,et al.  Molecular Structure of Human Galactose Mutarotase* , 2004, Journal of Biological Chemistry.

[16]  G. Petsko,et al.  Xylose isomerase in substrate and inhibitor michaelis States: atomic resolution studies of a metal-mediated hydride shift(,). , 2004 .

[17]  Weontae Lee,et al.  Crystal Structures of RbsD Leading to the Identification of Cytoplasmic Sugar-binding Proteins with a Novel Folding Architecture* , 2003, Journal of Biological Chemistry.

[18]  Miroslaw Cygler,et al.  Crystal structure of Proteus vulgaris chondroitin sulfate ABC lyase I at 1.9A resolution. , 2003, Journal of molecular biology.

[19]  F. Raushel,et al.  The catalytic mechanism of galactose mutarotase , 2003, Protein science : a publication of the Protein Society.

[20]  B. Mikami,et al.  Crystal Structure of Bacillus sp. GL1 Xanthan Lyase, Which Acts on the Side Chains of Xanthan* , 2003, The Journal of Biological Chemistry.

[21]  W. Reutter,et al.  Sialic acid biosynthesis: stereochemistry and mechanism of the reaction catalyzed by the mammalian UDP-N-acetylglucosamine 2-epimerase. , 2003, Journal of the American Chemical Society.

[22]  J. Turkenburg,et al.  Convergent evolution sheds light on the anti-β-elimination mechanism common to family 1 and 10 polysaccharide lyases , 2002, Proceedings of the National Academy of Sciences of the United States of America.

[23]  C. Jeffery,et al.  The crystal structure of rabbit phosphoglucose isomerase complexed with 5-phospho-d-arabinonohydroxamic acid , 2002, Proceedings of the National Academy of Sciences of the United States of America.

[24]  M. Tanner,et al.  Understanding nature's strategies for enzyme-catalyzed racemization and epimerization. , 2002, Accounts of chemical research.

[25]  H. van Tilbeurgh,et al.  Crystal structure of maltose phosphorylase from Lactobacillus brevis: unexpected evolutionary relationship with glucoamylases. , 2001, Structure.

[26]  R. W. Nagorski,et al.  Mechanistic imperatives for aldose-ketose isomerization in water: specific, general base- and metal ion-catalyzed isomerization of glyceraldehyde with proton and hydride transfer. , 2001, Journal of the American Chemical Society.

[27]  J. Sambrook,et al.  Molecular Cloning: A Laboratory Manual , 2001 .

[28]  H. Yokoi,et al.  Purification and Characterization of Mannose Isomerase from Agrobacterium radiobacter M-1 , 2001, Bioscience, biotechnology and biochemistry.

[29]  B. Mikami,et al.  CRYSTAL STRUCTURE OF N-ACYL-D-GLUCOSAMINE 2-EPIMERASE FROM PORCINE KIDNEY , 2000 .

[30]  B. Mikami,et al.  Crystal structure of N-acyl-D-glucosamine 2-epimerase from porcine kidney at 2.0 A resolution. , 2000, Journal of molecular biology.

[31]  G. Náray‐Szabó,et al.  Mechanism of action of D-xylose isomerase. , 2000, Current protein & peptide science.

[32]  B. Matthews,et al.  The structure of rhamnose isomerase from Escherichia coli and its relation with xylose isomerase illustrates a change between inter and intra-subunit complementation during evolution. , 2000, Journal of molecular biology.

[33]  Songlin Li,et al.  Structural basis of hyaluronan degradation by Streptococcus pneumoniae hyaluronate lyase , 2000, The EMBO journal.

[34]  P. Howell,et al.  Crystal structure of a class I α1,2‐mannosidase involved in N‐glycan processing and endoplasmic reticulum quality control , 2000, The EMBO journal.

[35]  B. Mikami,et al.  Crystal structure of alginate lyase A1-III from Sphingomonas species A1 at 1.78 A resolution. , 1999, Journal of molecular biology.

[36]  M. Cygler,et al.  Crystal structure of chondroitin AC lyase, a representative of a family of glycosaminoglycan degrading enzymes. , 1999, Journal of molecular biology.

[37]  G. Schulz,et al.  The structure of the membrane protein squalene-hopene cyclase at 2.0 A resolution. , 1999, Journal of molecular biology.

[38]  R J Read,et al.  Crystallography & NMR system: A new software suite for macromolecular structure determination. , 1998, Acta crystallographica. Section D, Biological crystallography.

[39]  Z. Dauter,et al.  Structure of glucoamylase from Saccharomycopsis fibuligera at 1.7 A resolution. , 1998, Acta crystallographica. Section D, Biological crystallography.

[40]  J. Thoden,et al.  Dramatic differences in the binding of UDP-galactose and UDP-glucose to UDP-galactose 4-epimerase from Escherichia coli. , 1998, Biochemistry.

[41]  P. Karplus,et al.  Structure and mechanism of endo/exocellulase E4 from Thermomonospora fusca , 1997, Nature Structural Biology.

[42]  G. Murshudov,et al.  Refinement of macromolecular structures by the maximum-likelihood method. , 1997, Acta crystallographica. Section D, Biological crystallography.

[43]  J. Thoden,et al.  UDP-GALACTOSE 4-EPIMERASE FROM ESCHERICHIA COLI , 1997 .

[44]  B. Mikami,et al.  Crystallization and preliminary X-ray diffraction studies of N-acyl-D-glucosamine 2-epimerase from porcine kidney. , 1996, Journal of biochemistry.

[45]  K. Murata,et al.  Molecular Cloning and Identification of N-Acyl-D-glucosamine 2-Epimerase from Porcine Kidney as a Renin-binding Protein* , 1996, The Journal of Biological Chemistry.

[46]  C. Sander,et al.  Errors in protein structures , 1996, Nature.

[47]  R. Dominguez,et al.  The crystal structure of endoglucanase CelA, a family 8 glycosyl hydrolase from Clostridium thermocellum. , 1996, Structure.

[48]  A G Murzin,et al.  SCOP: a structural classification of proteins database for the investigation of sequences and structures. , 1995, Journal of molecular biology.

[49]  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.

[50]  U. Lindahl,et al.  Biosynthesis of heparin/heparan sulfate. Purification of the D-glucuronyl C-5 epimerase from bovine liver. , 1994, The Journal of biological chemistry.

[51]  A. Golubev,et al.  Crystal structure of glucoamylase from Aspergillus awamori var. X100 to 2.2-A resolution. , 1994, The Journal of biological chemistry.

[52]  C. Sander,et al.  Protein structure comparison by alignment of distance matrices. , 1993, Journal of molecular biology.

[53]  D. Blow,et al.  Mechanism for aldose-ketose interconversion by D-xylose isomerase involving ring opening followed by a 1,2-hydride shift. , 1993, Journal of molecular biology.

[54]  K. Merz,et al.  Theoretical examination of the mechanism of aldose-ketose isomerization. , 1993, Protein engineering.

[55]  J. Thornton,et al.  PROCHECK: a program to check the stereochemical quality of protein structures , 1993 .

[56]  P. Alzari,et al.  Three-dimensional structure of a thermostable bacterial cellulase , 1992, Nature.

[57]  E. Myers,et al.  Basic local alignment search tool. , 1990, Journal of molecular biology.

[58]  J. Nakamura,et al.  High-performance liquid chromatography of reducing carbohydrates as strongly ultraviolet-absorbing and electrochemically sensitive 1-phenyl-3-methyl-5-pyrazolone derivatives. , 1989, Analytical biochemistry.

[59]  F. Stevens,et al.  Some properties of D-mannose isomerase from Escherichia coli K12. , 1981, Journal of general microbiology.

[60]  F. Stevens,et al.  Growth on D-lyxose of a mutant strain of Escherichia coli K12 using a novel isomerase and enzymes related to D-xylase metabolism. , 1976, Journal of general microbiology.

[61]  M. M. Bradford.  A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. , 1976, Analytical biochemistry.

[62]  A. Elbein,et al.  Purification of a d-Mannose Isomerase from Mycobacterium smegmatis , 1970, Journal of bacteriology.

[63]  S. Roseman,et al.  THE SIALIC ACIDS. V. N-ACYL-D-GLUCOSAMINE 2-EPIMERASE. , 1965, The Journal of biological chemistry.

[64]  H. Martínez-Blanco,et al.  Purification and characterization of GlcNAc-6-P 2-epimerase from Escherichia coli K92. , 2007, Acta biochimica Polonica.

[65]  P. Babbitt,et al.  D-Ribulose 5-phosphate 3-epimerase: functional and structural relationships to members of the ribulose-phosphate binding (beta/alpha)8-barrel superfamily. , 2006, Biochemistry.

[66]  G. Petsko,et al.  Xylose isomerase in substrate and inhibitor michaelis states: atomic resolution studies of a metal-mediated hydride shift. , 2004, Biochemistry.

[67]  Z. Otwinowski,et al.  Processing of X-ray diffraction data collected in oscillation mode. , 1997, Methods in enzymology.

[68]  I. A. Rose.  Mechanism of the aldose-ketose isomerase reactions. , 1975, Advances in enzymology and related areas of molecular biology.

[69]  M. Doudoroff,et al.  Mannose isomerase of Pseudomonas saccharophila. , 1956, The Journal of biological chemistry.

[70]  G. Blix,et al.  Sialic Acids , 1955, Nature.