Toward structural-omics of the bovine retinal pigment epithelium

[1]  Yue Xiong,et al.  An integrative pan-cancer analysis of molecular characteristics and oncogenic role of mitochondrial creatine kinase 1A (CKMT1A) in human tumors , 2022, Scientific Reports.

[2]  Jacob G. Scott,et al.  SLX4IP promotes RAP1 SUMOylation by PIAS1 to coordinate telomere maintenance through NF-κB and Notch signaling , 2021, Science Signaling.

[3]  P. Stewart,et al.  Cryo-EM Structures of CusA Reveal a Mechanism of Metal-Ion Export , 2021, mBio.

[4]  I. V. Leus,et al.  Cryoelectron Microscopy Structures of AdeB Illuminate Mechanisms of Simultaneous Binding and Exporting of Substrates , 2021, mBio.

[5]  Nadezhda T. Doncheva,et al.  The STRING database in 2021: customizable protein–protein networks, and functional characterization of user-uploaded gene/measurement sets , 2020, Nucleic Acids Res..

[6]  C. Robinson,et al.  A “Build and Retrieve” methodology to simultaneously solve cryo-EM structures of membrane proteins , 2020, Nature methods.

[7]  Dong Si,et al.  DeepTracer for fast de novo cryo-EM protein structure modeling and special studies on CoV-related complexes , 2020, Proceedings of the National Academy of Sciences.

[8]  Conrad C. Huang,et al.  UCSF ChimeraX: Structure visualization for researchers, educators, and developers , 2020, Protein science : a publication of the Protein Society.

[9]  I. Guzhova,et al.  Glyceraldehyde-3-phosphate Dehydrogenase Is a Multifaceted Therapeutic Target , 2020, Pharmaceutics.

[10]  Tinghua Wang,et al.  DPYSL2 is a novel regulator for neural stem cell differentiation in rats: revealed by Panax notoginseng saponin administration , 2020, Stem Cell Research & Therapy.

[11]  R. Read,et al.  Improvement of cryo-EM maps by density modification , 2019, Nature Methods.

[12]  Z. Zhou,et al.  Bottom-up structural proteomics: cryoEM of protein complexes enriched from the cellular milieu , 2019, Nature Methods.

[13]  B. Berger,et al.  TOPAZ: A Positive-Unlabeled Convolutional Neural Network CryoEM Particle Picker that can Pick Any Size and Shape Particle , 2019, Microscopy and Microanalysis.

[14]  N. Schalij-Delfos,et al.  Long-Term Follow-Up of Retinal Degenerations Associated With LRAT Mutations and Their Comparability to Phenotypes Associated With RPE65 Mutations , 2019, Translational vision science & technology.

[15]  D. Feinstein,et al.  Dysregulation of CRMP2 Post-Translational Modifications Drive Its Pathological Functions , 2019, Molecular Neurobiology.

[16]  R. Mezzenga,et al.  Apoferritin Protein Amyloid Fibrils with Tunable Chirality and Polymorphism. , 2018, Journal of the American Chemical Society.

[17]  B. McKay,et al.  GPR143 Signaling and Retinal Degeneration. , 2019, Advances in experimental medicine and biology.

[18]  Jerson Laks,et al.  Elevated Glutamate and Glutamine Levels in the Cerebrospinal Fluid of Patients With Probable Alzheimer's Disease and Depression , 2018, Front. Psychiatry.

[19]  H. Flynn,et al.  Stargardt macular dystrophy and evolving therapies , 2018, Expert opinion on biological therapy.

[20]  M. Gillies,et al.  Retinal pigment epithelium in the pathogenesis of age‐related macular degeneration and photobiomodulation as a potential therapy? , 2018, Clinical & experimental ophthalmology.

[21]  Anuradha Singh,et al.  Glyceraldehyde-3-phosphate dehydrogenase is a chaperone that allocates labile heme in cells , 2018, The Journal of Biological Chemistry.

[22]  N. Sen,et al.  Nitrosylation of GAPDH augments pathological tau acetylation upon exposure to amyloid-β , 2018, Science Signaling.

[23]  L. Ferrucci,et al.  The Human Eye Proteome Project: Updates on an Emerging Proteome , 2018, Proteomics.

[24]  J. Hejtmancik,et al.  Apoferritin is maintaining the native conformation of citrate synthase in vitro , 2009, Journal of analytical & pharmaceutical research.

[25]  S. Tsang,et al.  Inborn Errors of Metabolism: Gyrate Atrophy. , 2018, Advances in experimental medicine and biology.

[26]  Joseph H. Davis,et al.  Addressing preferred specimen orientation in single-particle cryo-EM through tilting , 2017, Nature Methods.

[27]  David J. Fleet,et al.  cryoSPARC: algorithms for rapid unsupervised cryo-EM structure determination , 2017, Nature Methods.

[28]  G. Aguirre,et al.  Bestrophinopathy: An RPE-photoreceptor interface disease , 2016, Progress in Retinal and Eye Research.

[29]  S. Mangani,et al.  Iron binding to human heavy-chain ferritin. , 2015, Acta crystallographica. Section D, Biological crystallography.

[30]  Keith A. Johnson,et al.  Ferritin levels in the cerebrospinal fluid predict Alzheimer’s disease outcomes and are regulated by APOE , 2015, Nature Communications.

[31]  Jong Woo Kim,et al.  Changes in Dpysl2 expression are associated with prenatally stressed rat offspring and susceptibility to schizophrenia in humans , 2015, International journal of molecular medicine.

[32]  W. Hagen,et al.  Unity in the biochemistry of the iron-storage proteins ferritin and bacterioferritin. , 2015, Chemical reviews.

[33]  M. Raje,et al.  Protein moonlighting in iron metabolism: glyceraldehyde-3-phosphate dehydrogenase (GAPDH). , 2014, Biochemical Society transactions.

[34]  V. Mahajan,et al.  Proteomic landscape of the human choroid-retinal pigment epithelial complex. , 2014, JAMA ophthalmology.

[35]  Krzysztof Palczewski,et al.  High‐resolution crystal structures of the photoreceptor glyceraldehyde 3‐phosphate dehydrogenase (GAPDH) with three and four‐bound NAD molecules , 2014, Protein science : a publication of the Protein Society.

[36]  Yang Song,et al.  Fructose-Bisphosphate Aldolase A Is a Potential Metastasis-Associated Marker of Lung Squamous Cell Carcinoma and Promotes Lung Cell Tumorigenesis and Migration , 2014, PloS one.

[37]  Kuan-lin Huang,et al.  Yeast Tdh3 (Glyceraldehyde 3-Phosphate Dehydrogenase) Is a Sir2-Interacting Factor That Regulates Transcriptional Silencing and rDNA Recombination , 2013, PLoS genetics.

[38]  Ulrich Pfeffer,et al.  Glyceraldehyde-3-phosphate dehydrogenase gene over expression correlates with poor prognosis in non small cell lung cancer patients , 2013, Molecular Cancer.

[39]  D. Tolan,et al.  Aldolase sequesters WASP and affects WASP/Arp2/3‐stimulated actin dynamics , 2013, Journal of cellular biochemistry.

[40]  N. Seidler Basic biology of GAPDH. , 2013, Advances in experimental medicine and biology.

[41]  L. Fu,et al.  Overexpression of ubiquitous mitochondrial creatine kinase (uMtCK) accelerates tumor growth by inhibiting apoptosis of breast cancer cells and is associated with a poor prognosis in breast cancer patients. , 2012, Biochemical and biophysical research communications.

[42]  K. Kavanagh,et al.  Structure of human aspartyl aminopeptidase complexed with substrate analogue: insight into catalytic mechanism, substrate specificity and M18 peptidase family , 2012, BMC Structural Biology.

[43]  M. Chance,et al.  Insights into Substrate Specificity and Metal Activation of Mammalian Tetrahedral Aspartyl Aminopeptidase* , 2012, The Journal of Biological Chemistry.

[44]  H. Vapaatalo,et al.  Local ocular renin-angiotensin system - a target for glaucoma therapy? , 2011, Basic & clinical pharmacology & toxicology.

[45]  D. Ausiello,et al.  Aldolase directly interacts with ARNO and modulates cell morphology and acidic vesicle distribution. , 2011, American journal of physiology. Cell physiology.

[46]  M. Larsen,et al.  Fundus albipunctatus associated with compound heterozygous mutations in RPE65. , 2011, Ophthalmology.

[47]  M. Mann,et al.  Andromeda: a peptide search engine integrated into the MaxQuant environment. , 2011, Journal of proteome research.

[48]  K. Hensley,et al.  Collapsin Response Mediator Protein-2: An Emerging Pathologic Feature and Therapeutic Target for Neurodisease Indications , 2011, Molecular Neurobiology.

[49]  E. Fletcher,et al.  The renin–angiotensin system in retinal health and disease: Its influence on neurons, glia and the vasculature , 2010, Progress in Retinal and Eye Research.

[50]  J. Sygusch,et al.  Mechanism of Aldolase Control of Sorting Nexin 9 Function in Endocytosis* , 2010, The Journal of Biological Chemistry.

[51]  Randy J. Read,et al.  Acta Crystallographica Section D Biological , 2003 .

[52]  Vincent B. Chen,et al.  Correspondence e-mail: , 2000 .

[53]  Neil D. Rawlings,et al.  MEROPS: the peptidase database , 2009, Nucleic Acids Res..

[54]  D. Green,et al.  Novel roles for GAPDH in cell death and carcinogenesis , 2009, Cell Death and Differentiation.

[55]  Samy Suissa,et al.  Renal and retinal effects of enalapril and losartan in type 1 diabetes. , 2009, The New England journal of medicine.

[56]  J. Dunaief,et al.  Iron homeostasis and eye disease. , 2009, Biochimica et biophysica acta.

[57]  C. Turck,et al.  Proteomic analysis of dorsolateral prefrontal cortex indicates the involvement of cytoskeleton, oligodendrocyte, energy metabolism and new potential markers in schizophrenia. , 2009, Journal of psychiatric research.

[58]  J. B. Lopes de Faria,et al.  Diabetic Retinal Neurodegeneration Is Associated With Mitochondrial Oxidative Stress and Is Improved by an Angiotensin Receptor Blocker in a Model Combining Hypertension and Diabetes , 2009, Diabetes.

[59]  M. Mann,et al.  MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification , 2008, Nature Biotechnology.

[60]  Mark Johnson,et al.  NCBI BLAST: a better web interface , 2008, Nucleic Acids Res..

[61]  S. Mowbray,et al.  Crystal structures of mammalian glutamine synthetases illustrate substrate-induced conformational changes and provide opportunities for drug and herbicide design. , 2008, Journal of molecular biology.

[62]  E. Ben-Menachem,et al.  Efficacy and Safety of Oral Lacosamide as Adjunctive Therapy in Adults with Partial‐Onset Seizures , 2007, Epilepsia.

[63]  D. Butterfield,et al.  An increase in S‐glutathionylated proteins in the Alzheimer's disease inferior parietal lobule, a proteomics approach , 2007, Journal of neuroscience research.

[64]  P. Nordlund,et al.  The structure of human collapsin response mediator protein 2, a regulator of axonal growth , 2007, Journal of neurochemistry.

[65]  S. Temple,et al.  Human retinal pigment epithelium cell changes and expression of alphaB-crystallin: a biomarker for retinal pigment epithelium cell change in age-related macular degeneration. , 2007, Archives of ophthalmology.

[66]  J. Connor,et al.  Ferritin: a novel mechanism for delivery of iron to the brain and other organs. , 2007, American journal of physiology. Cell physiology.

[67]  R. Homayouni,et al.  The Creatine Kinase/Creatine Connection to Alzheimer's Disease: CK Inactivation, APP-CK Complexes, and Focal Creatine Deposits , 2006, Journal of biomedicine & biotechnology.

[68]  Theo Wallimann,et al.  Mitochondrial creatine kinase in human health and disease. , 2006, Biochimica et biophysica acta.

[69]  A. Toutain,et al.  Congenital glutamine deficiency with glutamine synthetase mutations. , 2005, The New England journal of medicine.

[70]  S. Ismail,et al.  Structural analysis of human liver glyceraldehyde-3-phosphate dehydrogenase. , 2005, Acta crystallographica. Section D, Biological crystallography.

[71]  G. Screaton,et al.  HIV-1 Nef down-regulates the hemochromatosis protein HFE, manipulating cellular iron homeostasis. , 2005, Proceedings of the National Academy of Sciences of the United States of America.

[72]  J. Lafrance-Vanasse,et al.  High Resolution Reaction Intermediates of Rabbit Muscle Fructose-1,6-bisphosphate Aldolase , 2005, Journal of Biological Chemistry.

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

[74]  Conrad C. Huang,et al.  UCSF Chimera—A visualization system for exploratory research and analysis , 2004, J. Comput. Chem..

[75]  R. Klein,et al.  Causes and prevalence of visual impairment among adults in the United States. , 2004, Archives of ophthalmology.

[76]  Rahul C. Deo,et al.  Structural bases for CRMP function in plexin‐dependent semaphorin3A signaling , 2004, The EMBO journal.

[77]  T. Woolsey,et al.  Restricted neuronal expression of ubiquitous mitochondrial creatine kinase: Changing patterns in development and with increased activity , 2003, Molecular and Cellular Biochemistry.

[78]  W. Hemmer,et al.  Creatine kinase in non-muscle tissues and cells , 1994, Molecular and Cellular Biochemistry.

[79]  David N. Mastronarde,et al.  SerialEM: A Program for Automated Tilt Series Acquisition on Tecnai Microscopes Using Prediction of Specimen Position , 2003, Microscopy and Microanalysis.

[80]  Sonia H Yoo,et al.  Age-related macular degeneration: etiology, pathogenesis, and therapeutic strategies. , 2003, Survey of ophthalmology.

[81]  R. Magnusson,et al.  Identification of histidine residues important in the catalysis and structure of aspartyl aminopeptidase. , 2002, Archives of biochemistry and biophysics.

[82]  B. Matthews,et al.  Metalloaminopeptidases: common functional themes in disparate structural surroundings. , 2002, Chemical reviews.

[83]  G. Bodega,et al.  Glutamine synthetase in brain: effect of ammonia , 2002, Neurochemistry International.

[84]  O. Andreassen,et al.  Reduced creatine kinase activity in transgenic amyotrophic lateral sclerosis mice. , 2002, Free radical biology & medicine.

[85]  M. Boulton,et al.  The role of the retinal pigment epithelium: Topographical variation and ageing changes , 2001, Eye.

[86]  E. Fröhlich,et al.  Glutamine synthetase and marker enzymes of the blood-retina barrier in fetal bovine retinal pigment epithelial cells , 2000, Graefe's Archive for Clinical and Experimental Ophthalmology.

[87]  T. Hornemann,et al.  Isoenzyme-Specific Interaction of Muscle-Type Creatine Kinase with the Sarcomeric M-Line Is Mediated by Nh2-Terminal Lysine Charge-Clamps , 2000, The Journal of cell biology.

[88]  W. Kabsch,et al.  Crystal structure of human ubiquitous mitochondrial creatine kinase , 2000, Proteins.

[89]  R. Faull,et al.  Comparative proteome analysis of the hippocampus implicates chromosome 6q in schizophrenia , 2000, Molecular Psychiatry.

[90]  R. Yolken,et al.  Disease-specific alterations in frontal cortex brain proteins in schizophrenia, bipolar disorder, and major depressive disorder , 2000, Molecular Psychiatry.

[91]  Z Dauter,et al.  Crystal structure of human muscle aldolase complexed with fructose 1,6‐bisphosphate: Mechanistic implications , 2008, Protein science : a publication of the Protein Society.

[92]  M A Sirover,et al.  New insights into an old protein: the functional diversity of mammalian glyceraldehyde-3-phosphate dehydrogenase. , 1999, Biochimica et biophysica acta.

[93]  L. Vitagliano,et al.  Novel six-nucleotide deletion in the hepatic fructose-1,6-bisphosphate aldolase gene in a patient with hereditary fructose intolerance and enzyme structure-function implications , 1999, European Journal of Human Genetics.

[94]  K. Suzuma,et al.  Angiotensin II potentiates vascular endothelial growth factor-induced angiogenic activity in retinal microcapillary endothelial cells. , 1998, Circulation research.

[95]  L. Pagliaro,et al.  Metabolic compartmentation in living cells: structural association of aldolase. , 1997, Experimental cell research.

[96]  Jurgen Sygusch,et al.  Product binding and role of the C-terminal region in Class I D-fructose 1, 6-bisphosphate aldolase , 1997, Nature Structural Biology.

[97]  F. Torti,et al.  Role of H and L Subunits in Mouse Ferritin* , 1996, The Journal of Biological Chemistry.

[98]  B. Roques,et al.  Identification of metabolic pathways of brain angiotensin II and III using specific aminopeptidase inhibitors: predominant role of angiotensin III in the control of vasopressin release. , 1996, Proceedings of the National Academy of Sciences of the United States of America.

[99]  M. Wyss,et al.  Identification of two distinctly localized mitochondrial creatine kinase isoenzymes in spermatozoa. , 1996, Journal of cell science.

[100]  P. Harrison,et al.  The ferritins: molecular properties, iron storage function and cellular regulation. , 1996, Biochimica et biophysica acta.

[101]  Theo Wallimann,et al.  Structure of mitochondrial creatine kinase , 1996, Nature.

[102]  S. Liaw,et al.  Discovery of the ammonium substrate site on glutamine synthetase, A third cation binding site , 1995, Protein science : a publication of the Protein Society.

[103]  J. Connor,et al.  A Quantitative Analysis of Isoferritins in Select Regions of Aged, Parkinsonian, and Alzheimer's Diseased Brains , 1995, Journal of neurochemistry.

[104]  C. Costagliola,et al.  Effect of Oral Captopril (SQ 14225) on Intraocular Pressure in Man , 1995, European journal of ophthalmology.

[105]  A. J. Morris,et al.  Lysine-146 of rabbit muscle aldolase is essential for cleavage and condensation of the C3-C4 bond of fructose 1,6-bis(phosphate). , 1994, Biochemistry.

[106]  R. Hawkes,et al.  The cloning of zebrin II reveals its identity with aldolase C. , 1994, Development.

[107]  E. Zrenner,et al.  Neuromodulatory effects of the renin-angiotensin system on the cat electroretinogram. , 1994, Investigative ophthalmology & visual science.

[108]  P. Christen,et al.  Paracatalytic self-inactivation of fructose-1,6-bisphosphate aldolase. Structure of the crosslink formed at the active site. , 1993, European journal of biochemistry.

[109]  A. J. Morris,et al.  Site-directed mutagenesis identifies aspartate 33 as a previously unidentified critical residue in the catalytic mechanism of rabbit aldolase A. , 1993, The Journal of biological chemistry.

[110]  Boyd E. Haley,et al.  Detection of glutamine synthetase in the cerebrospinal fluid of Alzheimer diseased patients: a potential diagnostic biochemical marker. , 1992, Proceedings of the National Academy of Sciences of the United States of America.

[111]  W. Markesbery,et al.  Excess brain protein oxidation and enzyme dysfunction in normal aging and in Alzheimer disease. , 1991, Proceedings of the National Academy of Sciences of the United States of America.

[112]  W. V. Shaw,et al.  Solving the structure of human H ferritin by genetically engineering intermolecular crystal contacts , 1991, Nature.

[113]  A. Strauss,et al.  Separate nuclear genes encode sarcomere-specific and ubiquitous human mitochondrial creatine kinase isoenzymes. , 1990, The Journal of biological chemistry.

[114]  J. C. Saari,et al.  Acyl-CoA:retinol acyltransferase and lecithin:retinol acyltransferase activities of bovine retinal pigment epithelial microsomes. , 1990, Methods in enzymology.

[115]  H. Knull,et al.  Glycolytic enzyme interactions with tubulin and microtubules. , 1989, Biochimica et biophysica acta.

[116]  P. Artymiuk,et al.  Identification of the ferroxidase centre in ferritin , 1989, FEBS letters.

[117]  A. Strauss,et al.  Isolation and characterization of the gene and cDNA encoding human mitochondrial creatine kinase. , 1989, The Journal of biological chemistry.

[118]  G. Lewis,et al.  An immunocytochemical comparison of Müller cells and astrocytes in the cat retina. , 1988, Experimental eye research.

[119]  M. Wyss,et al.  Mitochondrial creatine kinase from cardiac muscle and brain are two distinct isoenzymes but both form octameric molecules. , 1988, The Journal of biological chemistry.

[120]  M. Allaire,et al.  Molecular architecture of rabbit skeletal muscle aldolase at 2.7-A resolution. , 1987, Proceedings of the National Academy of Sciences of the United States of America.

[121]  K. Fujimori,et al.  Enhanced expression of a glyceraldehyde-3-phosphate dehydrogenase gene in human lung cancers. , 1987, Cancer research.

[122]  D. Pantaloni,et al.  Bundling of microtubules by glyceraldehyde-3-phosphate dehydrogenase and its modulation by ATP. , 1985, European journal of biochemistry.

[123]  Mi-Hee Jun,et al.  Mitochondrial creatine kinase as a tumor-associated marker. , 1984 .

[124]  M. Norenberg,et al.  Glutamine synthetase in the developing rat retina: an immunohistochemical study. , 1978, Experimental eye research.

[125]  F. C. Hartman,et al.  Affinity labeling of a previously undetected essential lysyl residue in class I fructose bisphosphate aldolase. , 1976, The Journal of biological chemistry.

[126]  M G Rossmann,et al.  Studies of asymmetry in the three-dimensional structure of lobster D-glyceraldehyde-3-phosphate dehydrogenase. , 1977, The Journal of biological chemistry.

[127]  H. Hill,et al.  Arginine as the C‐1 phosphate binding site in rabbit muscle aldolase , 1975, FEBS letters.

[128]  C. Lai,et al.  Amino Acid Sequence of Rabbit Muscle Aldolase and the Structure of the Active Center , 1974, Science.

[129]  M G Rossmann,et al.  Comparison of super-secondary structures in proteins. , 1973, Journal of molecular biology.

[130]  W. Rutter,et al.  EVOLUTION OF ALDOLASE. , 1964, Federation proceedings.