Crystal structure of the S. cerevisiae D-ribose-5-phosphate isomerase: Comparison with the archaeal and bacterial enzymes

Biochimie

Volumn 87, Issue 8, 2005, Pages 763-769

  Graille, M ^a   Meyer, P ^a   Leulliot, N ^a   Sorel, I ^a   Janin, J ^b   Van Tilbeurgh, H ^a   Quevillon Cheruel, S ^a  

^a INSTITUTE FOR INTEGRATIVE BIOLOGY OF THE CELL I2BC   (France)

^b LABORATOIRE D ENZYMOLOGIE ET BIOCHIMIE STRUCTURALES   (France)

Author keywords

Crystal structure; Ribose 5 phosphate isomerase; Sugar metabolism; Yeast

Indexed keywords

ARGININE; BACTERIAL ENZYME; FUNGAL ENZYME; ISOMERASE; LYSINE; RIBOSEPHOSPHATE ISOMERASE; TETRAMER; UNCLASSIFIED DRUG;

ARCHAEBACTERIUM; ARTICLE; CATALYSIS; CATALYST; CONTROLLED STUDY; CRYSTAL STRUCTURE; ENZYME STRUCTURE; LIGAND BINDING; MUTATION; NONHUMAN; ORTHOLOGY; PROTEIN DOMAIN; PROTEIN FOLDING; SACCHAROMYCES CEREVISIAE;

ALDOSE-KETOSE ISOMERASES; AMINO ACID SEQUENCE; ARCHAEA; BACTERIA; BINDING SITES; CATALYSIS; CLONING, MOLECULAR; CRYSTALLOGRAPHY, X-RAY; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; MUTATION; PROTEIN CONFORMATION; PROTEIN FOLDING; PROTEIN STRUCTURE, SECONDARY; PROTEIN STRUCTURE, TERTIARY; RIBULOSEPHOSPHATES; SACCHAROMYCES CEREVISIAE; SEQUENCE ALIGNMENT; SEQUENCE HOMOLOGY, AMINO ACID;

ARCHAEA; SACCHAROMYCES CEREVISIAE;

EID: 23044486735     PISSN: 03009084     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.biochi.2005.03.001     Document Type: Article

References (20)

1. K.I. Sorensen, and B. Hove-Jensen Ribose catabolism of Escherichia coli: characterization of the rpiB gene encoding ribose phosphate isomerase B and of the rpiR gene, which is involved in regulation of rpiB expression J. Bacteriol. 178 1996 1003 1011
2. J. David, and H. Wiesmeyer Regulation of ribose metabolism in Escherichia coli. II. Evidence for two ribose-5-phosphate isomerase activities Biochim. Biophys. Acta 208 1970 56 67
3. G.F. Domagk, and W.R. Alexander D-ribose-5-phosphate isomerase from skeletal muscle Methods Enzymol. 41 1975 424 426
4. G.F. Domagk, and K.M. Doering D-ribose-5-phosphate isomerase from Candida utilis Methods Enzymol. 41 1975 427 429
5. T. Miosga, and F.K. Zimmermann Cloning and characterization of the first two genes of the non-oxidative part of the Saccharomyces cerevisiae pentose-phosphate pathway Curr. Genet. 30 1996 404 409
6. C.H. Jung, F.C. Hartman, T.Y. Lu, and F.W. Larimer D-ribose-5-phosphate isomerase from spinach: heterologous overexpression, purification, characterization, and site-directed mutagenesis of the recombinant enzyme Arch. Biochem. Biophys. 373 2000 409 417
7. K. Ishikawa, I. Matsui, F. Payan, C. Cambillau, H. Ishida, Y. Kawarabayasi, H. Kikuchi, and A. Roussel A hyperthermostable D-ribose-5-phosphate isomerase from Pyrococcus horikoshii characterization and three-dimensional structure Structure (Camb) 10 2002 877 886
8. M.K. Essenberg, and R.A. Cooper Two ribose-5-phosphate isomerases from Escherichia coli K12: partial characterisation of the enzymes and consideration of their possible physiological roles Eur. J. Biochem. 55 1975 323 332
9. E.S. Rangarajan, J. Sivaraman, A. Matte, and M. Cygler Crystal structure of D-ribose-5-phosphate isomerase (RpiA) from Escherichia coli Proteins 48 2002 737 740
10. R. Zhang, C.E. Andersson, A. Savchenko, T. Skarina, E. Evdokimova, S. Beasley, C.H. Arrowsmith, A.M. Edwards, A. Joachimiak, and S.L. Mowbray Structure of Escherichia coli ribose-5-phosphate isomerase: a ubiquitous enzyme of the pentose phosphate pathway and the Calvin cycle Structure (Camb) 11 2003 31 42
11. K. Hamada, H. Ago, M. Sugahara, Y. Nodake, S. Kuramitsu, and M. Miyano Oxyanion hole-stabilized stereospecific isomerization in ribose-5-phosphate isomerase (Rpi) J. Biol. Chem. 278 2003 49183 49190
12. S. Quevillon-Cheruel, B. Collinet, C.Z. Zhou, P. Minard, K. Blondeau, G. Henkes, R. Aufrere, J. Coutant, E. Guittet, A. Lewit-Bentley, N. Leulliot, I. Ascone, I. Sorel, P. Savarin, I.L. de La Sierra Gallay, F. de la Torre, A. Poupon, R. Fourme, J. Janin, and H. van Tilbeurgh A structural genomics initiative on yeast proteins J. Synchrotron Radiat. 10 2003 4 8
13. M. Rault, M.T. Giudici-Orticoni, B. Gontero, and J. Ricard Structural and functional properties of a multi-enzyme complex from spinach chloroplasts. 1. Stoichiometry of the polypeptide chains Eur. J. Biochem. 217 1993 1065 1073
14. H. Kondo, Y. Nakamura, Y.X. Dong, J. Nikawa, and S. Sueda Pyridoxine biosynthesis in yeast: participation of ribose 5-phosphate ketol-isomerase Biochem. J. 379 2004 65 70
15. S. Bailey The CCP4 suite: programs for protein crystallography Acta Crystallogr. D Biol. Crystallogr. 50 1994 760 763
16. R.J. Read Pushing the boundaries of molecular replacement with maximum likelyhood Acta Crystallogr. D Biol. Crystallogr. 57 2001 1373 1382
17. A. Roussel, and C. Cambillau Turbo Frodo 1991 Silicon Graphics Mountain View, CA pp. 77-78
18. G.N. Murshudov, A.A. Vagin, and E.J. Dodson Refinement of macromolecular structures by the maximum-likelihood method Acta Crystallogr. D Biol. Crystallogr. 53 1997 240 255
19. R.A. Laskowski, M.W. MacArthur, D.S. Moss, and J.M. Thornton PROCHECK: a program to check the stereochemical quality of protein structures J. Appl. Crystallogr. 26 1993 283 291
20. R. Reuter, M. Naumann, J. Bar, T. Miosga, and G. Kopperschlager Ribose-5-phosphate isomerase from Saccharomyces cerevisiae: purification and molecular analysis of the enzyme Bioseparation 7 1998 107 115