The crystal structure of D-glyceraldehyde-3-phosphate dehydrogenase from the hyperthermophilic archaeon Methanothermus fervidus in the presence of NADP+ at 2.1 Å resolution

Journal of Molecular Biology

Volumn 297, Issue 2, 2000, Pages 481-500

  Charron, C ^a   Talfournier, F ^b   Isupov, M N ^c   Littlechild, J A ^c   Branlant, G ^b   Vitoux, B ^a   Aubry, A ^a  

^a Nancy University CNRS   (France)

^b Biopôle de l Université de Lorraine   (France)

^c UNIVERSITY OF EXETER   (United Kingdom)

Author keywords

Archaea; Crystal structure; Glyceraldehyde 3 phosphate dehydrogenase; Methanothermus fervidus; NADP

Indexed keywords

GLYCERALDEHYDE 3 PHOSPHATE DEHYDROGENASE; NICOTINAMIDE ADENINE DINUCLEOTIDE PHOSPHATE;

AMINO ACID SEQUENCE; ARTICLE; BINDING SITE; CRYSTAL STRUCTURE; CRYSTALLIZATION; ELECTRICITY; ENZYME ANALYSIS; ENZYME CONFORMATION; ENZYME STRUCTURE; HYDROGEN BOND; METHANOTHERMUS FERVIDUS; MUTATION; NONHUMAN; PRIORITY JOURNAL; PROTEIN QUATERNARY STRUCTURE; STRUCTURE ANALYSIS; THERMOSTABILITY;

METHANOTHERMUS FERVIDUS;

EID: 0034708345     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1006/jmbi.2000.3565     Document Type: Article

References (65)

1. Nucleotide sequence and molecular evolution of the gene coding for glyceraldehyde-3-phosphate dehydrogenase in the thermoacidophilic archaebacterium Sulfolobus solfataricus
2. Structural consequences of sequence patterns in the fingerprint region of the nucleotide binding fold. Implications for nucleotide specificity
3. Remarkable archaeal diversity detected in a yellowstone park hot spring environment
4. Engineering thermostability in archaebacterial glyceraldehyde-3-phosphate dehydrogenase. Hints for the important role of interdomain contacts in stabilizing protein conformation
5. Recognition of different nucleotide-binding sites in primary structures using a property-pattern approach
6. Higher-plant chloroplast and cytosolic 3-phosphoglycerate kinases: A case of endosymbiotic gene replacement
7. NADP-dependent enzymes. I. Conserved stereochemistry of cofactor binding
8. CH/π interaction in the packing of the adenine ring in protein structures
9. Crystallization and preliminary X-ray diffraction studies of D-glyceraldehyde-3-phosphate dehydrogenase from the hyperthermophilic archaeon Methanothermus fervidus
10. Determinants of coenzyme specificity in glyceraldehyde-3-phosphate dehydrogenase: Role of the acidic residue in the fingerprint region of the nucleotide binding fold
11. Probing the coenzyme specificity of glyceraldehyde-3-phosphate dehydrogenases by site-directed mutagenesis
12. The nicotinamide subsite of glyceraldehyde-3-phosphate dehydrogenase studied by site-directed mutagenesis
13. High abundance of archaea in antartic marine picoplankton
14. +
15. A naturally occurring horizontal gene transfer from an eukaryote to a prokaryote
16. Comparison of the structures of wild-type and a N313T mutant of Escherichia coli glyceraldehyde 3-phosphate dehydrogenases: Implication for NAD binding and cooperativity
17. Phosphorus-31 nuclear magnetic resonance studies on coenzyme binding and specificity in glyceraldehyde-3-phosphate dehydrogenase
18. + nicotinamide but does not experience A-specific hydride transfer
19. Purification and characterization of D-glyceraldehyde-3-phosphate dehydrogenase from the thermophilic archaebacterium Methanothermus fervidus
20. Primary structure of glyceraldehyde-3-phosphate dehydrogenase deduced from the nucleotide sequence of the thermophilic archaebacterium Methanothermus fervidus
21. Expression of the glyceraldehyde 3-phosphate dehydrogenase gene from the extremely thermophilic archaebacterium Methanothermus fervidus in E. coli
22. Characterisation, crystallization and preliminary x-ray investigation of glyceraldehyde-3-phosphate dehydrogenase from the hyperthermophilic archaeon Sulfolobus solfataricus
23. Evolution of glycolysis
24. Crystallization and preliminary crystallographic analysis of glyceraldehyde 3-phosphate dehydrogenase from Saccharomyces cerevisiae (baker's yeast)
25. Molecular symmetry of glyceraldehyde-3-phosphate dehydrogenase from Bacillus coagulans
26. Disallowed Ramachandran conformations of amino acid residues in protein structures
27. Structure of aspartate-β-semialdehyde dehydrogenase from Escherichia coli, a key enzyme in the aspartate family of amino acid biosynthesis
28. Sequence comparison of glyceraldehyde-3-phosphate dehydrogenases from the three urkingdoms: Evolutionary implications
29. A revised set of potentials for β-turn formation in proteins
30. Crystal structure of the glyceraldehyde 3-phosphate dehydrogenase from the hyperthermophilic archaeon Sulfolobus solfataricus
31. The phosphoglycerate kinase and glyceraldehyde-3-phosphate dehydrogenase genes from the thermophilic archaeon Sulfolobus solfataricus overlap by 8-bp. Isolation, sequencing of the genes and expression in Escherichia coli
32. Improved methods for building models in electron density maps and the location of errors in these models
33. A solution for the best rotation to relate two sets of vectors
34. Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features
35. Proteins from thermophilic and mesophilic organisms essentially do not differ in packing
36. Crystal structure of glycosomal glyceraldehyde-3-phosphate dehydrogenase from Leishmania mexicana: Implications for structure-based drug design and a new position for the inorganic phosphate binding site
37. The crystal structure of hologlyceraldehyde-3-phosphate dehydrogenase from the hyperthermophilic bacterium Thermotoga maritima at 2.5 Å resolution
38. MOLSCRIPT: A program to produce both detailed and schematic plots of protein structures
39. Automated refinement of protein models
40. PROCHECK: A program to check the stereochemical quality of protein structures
41. NAD-binding domains of dehydrogenases
42. Twinning in crystals of human skeletal muscle D-glyceraldehyde-3-phosphate dehydrogenase
43. Protein recognition of adenylate: An example of a fuzzy recognition template
44. Studies of asymmetry in the three-dimensional structure of lobster D-glyceraldehyde-3-phosphate dehydrogenase
45. Use of site-directed mutagenesis to probe the role of Cys149 in the formation of charge-transfer transition in glyceraldehyde-3-phosphate dehydrogenase
46. Refinement of macromolecular structures by the maximum likelihood method
47. AMoRe: An automated package for molecular replacement
48. The mechanism of oxidation of aldehydes by glyceraldehyde-3-phosphate dehydrogenase
49. Crystallization and preliminary x-ray study of chloroplast glyceraldehyde-3-phosphate dehydrogenase
50. Binding of nucleotides by proteins
51. Coenzyme-induced conformational changes in glyceraldehyde-3-phosphate dehydrogenase from Bacillus stearothermophilus
52. Structure of holo-glyceraldehyde-3-phosphate dehydrogenase from Bacillus stearothermophilus at 1.8 Å resolution
53. Structure of holo-glyceraldehyde-3-phosphate dehydrogenase from Palinurus versicolor refined at 2 Å resolution
54. The modular arrangement of proteins as inferred from analysis of homology
55. Trypanosoma cruzi glycosomal glyceraldehyde-3-phosphate dehydrogenase: Structure, catalytic mechanism and targeted inhibitor design
56. Pyrobaculum Aerophilum sp. nov., a novel nitrate-reducing hyperthermophilic archaeum
57. Comparative study of the catalytic domain of phosphorylating glyceraldehyde-3-phosphate dehydrogenases from bacteria and archaea via essential cysteine probes and site-directed mutagenesis
58. Functional characterization of the D-glyceraldehyde 3-phosphate dehydrogenase from the archaeon Methanothermus fervidus by comparative molecular modelling and site-directed mutagenesis
59. Determinants of enzyme thermostability observed in the molecular structure of Thermus aquaticus D-glyceraldehyde-3-phosphate dehydrogenase at 2.5 Å resolution
60. Structure of glycosomal glyceraldehyde-3-phosphate dehydrogenase from Trypanosoma brucei determined from Laue data
61. Thermozymes: Identifying molecular determinants of protein structural and functional stability
62. Prediction of the occurrence of the ADP-binding βαβ-fold in proteins, using an amino acid sequence fingerprint
63. Towards a natural system of organisms: Proposal for the domains archaea, bacteria, and eucarya