Structural basis for thermophilic protein stability: Structures of thermophilic and mesophilic malate dehydrogenases

Journal of Molecular Biology

Volumn 318, Issue 3, 2002, Pages 707-721

  Dalhus, Bjørn ^a   Saarinen, Markuu ^b   Sauer, Uwe H ^b   Eklund, Pär ^b   Johansson, Kenth ^b   Karlsson, Andreas ^b   Ramaswamy, S ^b   Bjørk, Alexandra ^a   Synstad, Bjørnar ^a   Naterstad, Kristine ^a   Sirevåg, Reidun ^a   Eklund, Hans ^b  

^a UNIVERSITY OF OSLO   (Norway)

^b SWEDISH UNIVERSITY OF AGRICULTURAL SCIENCES   (Sweden)

Author keywords

Crystal structure; NAD; Tetrameric malate dehydrogenases; Thermostability

Indexed keywords

MALATE DEHYDROGENASE;

ARCHAEBACTERIUM; ARTICLE; BACTERIAL GROWTH; CHLOROBIUM; CONTROLLED STUDY; CRYSTAL STRUCTURE; ENZYME BINDING; ENZYME STABILITY; ENZYME STRUCTURE; ENZYME SUBUNIT; HYDROGEN BOND; NONHUMAN; PRIORITY JOURNAL; TEMPERATURE; X RAY CRYSTALLOGRAPHY;

ARCHAEA; CHLOROBACULUM TEPIDUM; CHLOROBIUM; CHLOROFLEXUS AURANTIACUS; PROKARYOTA; PROSTHECOCHLORIS VIBRIOFORMIS;

EID: 0036301197     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0022-2836(02)00050-5     Document Type: Article

References (67)

1. Phylogenetic analysis and in situ identification of bacteria in activated sludge
2. Malate dehydrogenase from the green gliding bacterium Chloroflexus aurantiacus is phylogenetically related to lactic dehydrogenases
3. Malate dehydrogenase from the mesophile Chlorobium vibrioforme and from the mild thermophile Chlorobium tepidum: Molecular cloning, construction of a hybrid, and expression in Escherichia coli
4. Malate dehydrogenase from thermophilic and mesophilic bacteria. Molecular size, subunit structure, amino acid composition, immunochemical homology, and catalytic activity
5. Malate dehydrogenases from actinomycetes: Structural comparison of Thermoactinomyces enzyme with other actinomycete and Bacillus enzymes
6. Malate dehydrogenase in phototrophic purple bacteria: Purification, molecular weight, and quaternary structure
7. Malate dehydrogenase from the thermophilic green bacterium Chloroflexus aurantiacus: Purification, molecular weight, amino acid composition, and partial amino acid sequence
8. Engineering the quaternary structure of an enzyme: Construction and analysis of a monomeric form of malate dehydrogenase from Escherichia coli
9. Hyperthermophilic enzymes: Sources, uses, and molecular mechanisms for thermostability
10. Tetrameric malate dehydrogenase from a thermophilic Bacillus: Cloning, sequence and overexpression of the gene encoding the enzyme and isolation and characterization of the recombinant enzyme
11. Properties and primary structure of a thermostable L-malate dehydrogenase from Archaeoglobus fulgidus
12. Insights into the molecular relationships between malate and lactate dehydrogenases: Structural and biochemical properties of monomeric and dimeric intermediates of a mutant of tetrameric L-[LDH-like] malate dehydrogenase from the halophilic archaeon Haloarcula marismortui
13. Stability and folding of ultra-stable proteins: Eye lens crystallins and enzymes from thermophiles
14. A cavity-containing mutant of T4 lysozyme is stabilized by buried benzene
15. Response of a protein structure to cavity-creating mutations and its relation to the hydrophobic effect
16. Contribution of hydrophobic residues to the stability of human lysozyme: Calorimetric studies and X-ray structural analysis of the five isoleucine to valine mutants
17. Stepwise mutation of barnase to binase. A procedure for engineering increased stability of proteins and an experimental analysis of the evolution of protein stability
18. Protein thermal stability, hydrogen bonds, and ion pairs
19. Disruption of an ionic network leads to accelerated thermal denaturation of D-glyceraldehyde-3-phosphate dehydrogenase from the hyperthermophilic bacterium Thermotoga maritima
20. Insights into the molecular basis of thermal stability from the analysis of ion-pair networks in the glutamate dehydrogenase family
21. Crystal structures of thermostable xylose isomerases from Thermus caldophilus and Thermus thermophilus: Possible structural determinants of thermostability
22. Oligomeric integrity - The structural key to thermal stability in bacterial alcohol dehydrogenases
23. Structure determination of the glutamate dehydrogenase from the hyperthermophile Thermococcus litoralis and its comparison with that from Pyrococcus furiosus
24. Determinants of enzyme thermostability observed in the molecular structure of Thermus aquaticus D-glyceraldehyde-3-phosphate dehydrogenase at 2.5 angstrom resolution
25. Lactate dehydrogenase from the hyperthermophilic bacterium Thermotoga maritima: The crystal structure at 2.1 Å resolution reveals strategies for intrinsic protein stabilization
26. Crystal structures of Escherihia coli and Salmonella typhidurium 3-isopropylmalate dehydrogenase and comparison with their thermophilic counterpart from Thermus thermophilus
27. Crystal structure of the MJ0490 gene product of the hyperthermophilic Archaebacterium Methanococcus jannaschii, a novel member of the lactate/malate family of dehydrogenases
28. Determinants of protein thermostability observed in the 1.9 Å crystal structure of malate dehydrogenase from the thermophilic bacterium Thermus flavus
29. The three-dimensional structure of porcine heart mitochondrial malate dehydrogenase at 3.0 Å resolution
30. Refined crystal structure of mitochondrial malate dehydrogenase from porcine heart and the consensus structure for dicarboxylic acid oxido-reductases
31. Structure of porcine heart cytoplasmic malate dehydrogenase: Combining X-ray diffraction and chemical sequence data in structural studies
32. Structural basis of substrate specificity in malate dehydrogenases: Crystal structure of a ternary complex of porcine cytoplasmic malate dehydrogenase, alpha-ketomalonate and tetrahydoNAD
33. Crystal structure of Escherichia coli malate dehydrogenase. A complex of the apoenzyme and citrate at 1.87 Å resolution
34. Structural basis for cold adaptation. Sequence, biochemical properties, and crystal structure of malate dehydrogenase from a psychrophile Aquaspirillium arcticum
35. Structural basis for light activation of a chloroplast enzyme: The structure of sorghum NADP-malate dehydrogenase in its oxidized form
36. Chloroplast NADP-malate dehydrogenase: Structural basis of light-dependent regulation of activity by thiol oxidation and reduction
37. Structural features that stabilize halophilic malate dehydrogenase from an archaebacterium
38. Halophilic adaptation: Novel solvent protein interactions observed in the 2.9 and 2.6 Å resolution structures of the wild type and a mutant of malate dehydrogenase from Haloarcula marismortui
39. PROCHECK: A program to check the stereochemistry quality of protein structures
40. Evolution and structural relationships among dehydrogenases
41. Malate dehydrogenase from the thermophilic green bacterium Chloroflexus aurantiacus: Purification, molecular weight, amino acid composition, and partial amino acid sequence
42. Malate dehydrogenase from Chlorobium vibrioforme, Chlorobium tepidum, and Heliobacterium gestii: Purification, characterization, and investigation of dinucleotide binding by dehydrogenases by use of empirical methods of protein sequence analysis
43. A specific, highly active malate dehydrogenase by redesign of a lactate dehydrogenase framework
44. Lactate dehydrogenase
45. Aromatic clusters: A determinant of thermal stability of thermophilic proteins
46. Effect of alanine versus glycine in alpha-helices on protein stability
47. Enhanced protein thermostability from site-directed mutations that decrease the entropy of unfolding
48. Analysis of the effectiveness of proline substitutions and glycine replacements in increasing the stability of phage T4 lysozyme
49. Crystal structure of a thermophilic alcohol dehydrogenase substrate complex suggests determinants of substrate specificity and thermostability
50. High resolution structure and sequence of T. aurantiacus xylanase I: Implications for the evolution of thermostability in family 10 xylanases and enzymes with (beta)alpha-barrel architecture
51. The crystal structure of dihydrofolate reductase from Thermotoga maritima: Molecular features of thermostability
52. Hydrophobic interaction at the subunit interface contributes to the thermostability of 3-isopropylmalate dehydrogenase from an extreme thermophile, Thermus thermophilus
53. Data collection and processing
54. Processing of X-ray data collected in oscillation mode
55. Mosfilm
56. The CCP4 suite: Programs for protein crystallography
57. AMoRe: An automated package for molecular replacement
58. Rapid automated molecular replacement by evolutionary search
59. Crystallography & NMR system: A new software suite for macromolecular structure determination
60. Improved methods for building protein models in electron density maps and the location of errors in these models
61. xdlMAPMAN and xdlDATAMAN
62. Detection, delineation, measurement and display of cavities in macromolecular structures
63. PROCHECK: A program to check the stereochemistry quality of protein structures
64. MOLSCRIPT: A program to produce both detailed and schematic plots of protein structures
65. An extensively modified version of MolScript that includes greatly enhanced coloring capabilities
66. Raster3D: Photorealistic molecular graphics