메뉴 건너뛰기




Volumn 27, Issue 1, 2009, Pages 99-103

Crystal structures of substrate and inhibitor complexes of ribose 5-phosphate isomerase A from Vibrio vulnificus YJ016

Author keywords

Arabinose 5 phosphate; Crystal structure; E. coli RpiA; Ribose 5 phosphate isomerase A (RpiA); Vibrio vulnificus YJ016

Indexed keywords

ARABINOSE 5 PHOSPHATE; ASPARTIC ACID; ISOMERASE; LYSINE; RIBOSE 5 PHOSPHATE ISOMERASE A; RIBULOSE PHOSPHATE; SERINE; SUGAR PHOSPHATE; UNCLASSIFIED DRUG; WATER; ENZYME INHIBITOR; RIBOSEPHOSPHATE ISOMERASE;

EID: 62849122601     PISSN: 10168478     EISSN: None     Source Type: Journal    
DOI: 10.1007/s10059-009-0010-6     Document Type: Article
Times cited : (6)

References (31)
  • 3
    • 0028240502 scopus 로고
    • Ribose biosynthesis in methanogenic bacteria
    • 1:CAS:528:DyaK2cXkslyjtrk%3D 10.1007/BF00307768
    • C.G. Choquet J.C. Richards G.B. Patel G.D. Sprott 1994 Ribose biosynthesis in methanogenic bacteria Arch. Microbiol. 161 481 488 1:CAS:528:DyaK2cXkslyjtrk%3D 10.1007/BF00307768
    • (1994) Arch. Microbiol. , vol.161 , pp. 481-488
    • Choquet, C.G.1    Richards, J.C.2    Patel, G.B.3    Sprott, G.D.4
  • 4
    • 0033215210 scopus 로고    scopus 로고
    • Pathway alignment: Application to the comparative analysis of glycolytic enzymes
    • DOI 10.1042/0264-6021:3430115
    • T. Dandekar S. Schuster B. Snel M. Huyen P. Bork 1999 Pathway alignment: application to the comparative analysis of glycolytic enzymes Biochem. J. 343 115 124 10493919 1:CAS:528:DyaK1MXmvVyjtbY%3D 10.1042/0264-6021:3430115 (Pubitemid 29473885)
    • (1999) Biochemical Journal , vol.343 , Issue.1 , pp. 115-124
    • Dandekar, T.1    Schuster, S.2    Snel, B.3    Huynen, M.4    Bork, P.5
  • 5
    • 49049130810 scopus 로고
    • Identification of formose sugars, presumable prebiotic metabolites, using capillary gas chromatography/gas chromatography-mass spectrometry of n-butoximine trifluoroactatcs on OV-225
    • 1:CAS:528:DyaL38XlsFyqtLc%3D 10.1016/S0021-9673(00)85692-7
    • P. Decker H. Schweer R. Pohlmann 1982 Identification of formose sugars, presumable prebiotic metabolites, using capillary gas chromatography/gas chromatography-mass spectrometry of n-butoximine trifluoroactatcs on OV-225 J. Chromatogr. 244 281 291 1:CAS:528:DyaL38XlsFyqtLc%3D 10.1016/S0021-9673(00) 85692-7
    • (1982) J. Chromatogr. , vol.244 , pp. 281-291
    • Decker, P.1    Schweer, H.2    Pohlmann, R.3
  • 7
    • 0026315795 scopus 로고
    • Biosynthesis of 5-hydroxybenzimidazolylcobamid (factor III) in Methanobacterium thermoautotrophicum
    • W. Eisenreich A. Bacher 1991 Biosynthesis of 5- hydroxybenzimidazolycobamid (factor III) in Methanobacterium thermoautotrophicum J. Biol. Chem. 266 23840 23849 1748658 1:CAS:528:DyaK3MXmsFWrtLk%3D (Pubitemid 21908873)
    • (1991) Journal of Biological Chemistry , vol.266 , Issue.35 , pp. 23840-23849
    • Eisenreich, W.1    Bacher, A.2
  • 8
    • 0016784251 scopus 로고
    • Two ribose-5-phosphate isomerases from Escherichia coli K-12: Partial characterization of the enzymes and consideration of their possible physiological roles
    • 10.1111/j.1432-1033.1975.tb02166.x
    • M.K. Essenbeg R.A. Cooper 1975 Two ribose-5-phosphate isomerases from Escherichia coli K-12: partial characterization of the enzymes and consideration of their possible physiological roles Eur. J. Biochem. 55 323 332 10.1111/j.1432-1033.1975.tb02166.x
    • (1975) Eur. J. Biochem. , vol.55 , pp. 323-332
    • Essenbeg, M.K.1    Cooper, R.A.2
  • 9
    • 0043123208 scopus 로고    scopus 로고
    • ESPript/ENDscript: Extracting and rendering sequence and 3D information from atomic structures of proteins
    • DOI 10.1093/nar/gkg556
    • P. Gouet X. Robert E. Courcelle 2003 ESPript/ENDscript: extracting and rendering sequence and 3D information from atomic structures of proteins Nucleic Acids Res. 31 3320 3323 12824317 1:CAS:528:DC%2BD3sXltVWjtLw%3D 10.1093/nar/gkg556 (Pubitemid 37442149)
    • (2003) Nucleic Acids Research , vol.31 , Issue.13 , pp. 3320-3323
    • Gouet, P.1    Robert, X.2    Courcelle, E.3
  • 10
    • 23044486735 scopus 로고    scopus 로고
    • Crystal structure of the S. cerevisiae D-ribose-5-phosphate isomerase: Comparison with the archaeal and bacterial enzymes
    • DOI 10.1016/j.biochi.2005.03.001, PII S0300908405000647
    • M. Graile P. Meyer N. Leulloit I. Sorel J. Janin H. Van Tilbeurgh S. Quevillon-Cheruel 2005 Crystal structure of the S. cerevisiae D-ribose-5-phosphate isomerase: comparison with the archaeal and bacterial enzymes Biochimie 87 763 769 10.1016/j.biochi.2005.03.001 (Pubitemid 41058907)
    • (2005) Biochimie , vol.87 , Issue.8 , pp. 763-769
    • Graille, M.1    Meyer, P.2    Leulliot, N.3    Sorel, I.4    Janin, J.5    Van Tilbeurgh, H.6    Quevillon-Cheruel, S.7
  • 11
    • 27144478660 scopus 로고    scopus 로고
    • Ribose-5-phosphate biosynthesis in Methanocaldococcus jannaschii occurs in the absence of a pentose-phosphate pathway
    • DOI 10.1128/JB.187.21.7382-7389.2005
    • L.L. Grochowski H. Xu R.H. White 2005 Ribose-5-phosphate biosynthesis in Methanocaldococcus jannaschii Occurs in the absence of pentose-phosphate pathway J. Bacteriol. 187 7382 7389 16237021 1:CAS:528:DC%2BD2MXhtFOru7jE 10.1128/JB.187.21.7382-7389.2005 (Pubitemid 41507794)
    • (2005) Journal of Bacteriology , vol.187 , Issue.21 , pp. 7382-7389
    • Grochowski, L.L.1    Xu, H.2    White, R.H.3
  • 12
    • 35448967008 scopus 로고    scopus 로고
    • Steady-state ATPase activity of E. coli MutS modulated by its dissociation from heteroduplex DNA
    • DOI 10.1016/j.bbrc.2007.09.130, PII S0006291X07021316
    • S.D. Heo M. Cho J.K. Ku C. Ban 2007 Steady-state ATPase activity of E. coli MutS modulated by its dissociation from heteroduplex DNA Biochem. Biophys. Res. Commun. 364 264 269 17950245 1:CAS:528:DC%2BD2sXht1akt7fP 10.1016/j.bbrc.2007.09.130 (Pubitemid 47633411)
    • (2007) Biochemical and Biophysical Research Communications , vol.364 , Issue.2 , pp. 264-269
    • Heo, S.-D.1    Cho, M.2    Ku, J.K.3    Ban, C.4
  • 14
    • 0027199219 scopus 로고
    • Escherichia coli rpiA gene encoding ribose phosphate isomerase A
    • 8366047 1:CAS:528:DyaK2cXisVGrtw%3D%3D
    • B. Hove-Jensen M. Maigaard 1993 Escherichia coli rpiA gene encoding ribose phosphate isomerase A J. Bacteriol. 175 5628 5635 8366047 1:CAS:528:DyaK2cXisVGrtw%3D%3D
    • (1993) J. Bacteriol. , vol.175 , pp. 5628-5635
    • Hove-Jensen, B.1    Maigaard, M.2
  • 15
    • 1842592038 scopus 로고    scopus 로고
    • Ribose-5-Phosphate Isomerase Deficiency: New Inborn Error in the Pentose Phosphate Pathway Associated with a Slowly Progressive Leukoencephalopathy
    • DOI 10.1086/383204
    • J.H. Huck N.M. Verhoeven E.A. Struys G.S. Salomons C. Jakobs M.S. van der Knaap 2004 Ribose-5-phosphate isomerase deficiency: new inborn error in the pentose phosphate pathway associated with a slowly progrssive leukoencephalopathy Am. J. Hum. Genet. 74 745 751 14988808 1:CAS:528: DC%2BD2cXivFCntL4%3D 10.1086/383204 (Pubitemid 38420104)
    • (2004) American Journal of Human Genetics , vol.74 , Issue.4 , pp. 745-751
    • Huck, J.H.J.1    Verhoeven, N.M.2    Struys, E.A.3    Salomons, G.S.4    Jakobs, C.5    Van Der Knaap, M.S.6
  • 16
    • 0036278183 scopus 로고    scopus 로고
    • A hyperthermostable D-ribose-5-phosphate isomerase from Pyrococcus horikoshii characterization and three-dimensional structure
    • DOI 10.1016/S0969-2126(02)00779-7, PII S0969212602007797
    • K. Ishikawa I. Matsui F. Payan C. Cambillau H. Ishida Y. Kawarabayasi H. Kikuchi A. Roussel 2002 A hyperthermostable D-ribose-5-phosphate isomerase from Pyrococcus horikoshii characterization and three-dimensional structure Structure 10 877 886 12057201 1:CAS:528:DC%2BD38XksFOisrY%3D 10.1016/S0969-2126(02)00779- 7 (Pubitemid 34628715)
    • (2002) Structure , vol.10 , Issue.6 , pp. 877-886
    • Ishikawa, K.1    Matsui, I.2    Payan, F.3    Cambillau, C.4    Ishida, H.5    Kawarabayasi, Y.6    Kikuchi, H.7    Roussel, A.8
  • 17
    • 0030589514 scopus 로고    scopus 로고
    • Phi/psi-chology: Ramachandran revisited
    • 8994966 1:CAS:528:DyaK2sXmsFCq 10.1016/S0969-2126(96)00147-5
    • G.J. Kleywegt T.A. Jones 1996 Phi/psi-chology: Ramachandran revisited Structure 4 1395 1400 8994966 1:CAS:528:DyaK2sXmsFCq 10.1016/S0969-2126(96) 00147-5
    • (1996) Structure , vol.4 , pp. 1395-1400
    • Kleywegt, G.J.1    Jones, T.A.2
  • 18
    • 0000243829 scopus 로고
    • PROCHECK: A program to check the stereochemical quality of the protein structure
    • 1:CAS:528:DyaK3sXit12lurY%3D 10.1107/S0021889892009944
    • R.A. Laskowski M.W. Macarthur D.S. Moss J.M. Thornton 1993 PROCHECK: a program to check the stereochemical quality of the protein structure J. Appl. Crystallogr. 26 283 291 1:CAS:528:DyaK3sXit12lurY%3D 10.1107/S0021889892009944
    • (1993) J. Appl. Crystallogr. , vol.26 , pp. 283-291
    • Laskowski, R.A.1    MacArthur, M.W.2    Moss, D.S.3    Thornton, J.M.4
  • 19
    • 28944433395 scopus 로고    scopus 로고
    • Crystallization and preliminary X-ray crystallographic analysis of PAS factor from Vibrio vulnificus
    • 16404150 1:CAS:528:DC%2BD28XmsFyrtb4%3D
    • J.H. Lee S.Y. Kim S.-H. Rho Y.J. Im Y.R. Kim M.-K. Kim G.B. Kang J.H. Rhee S.H. Eom 2005 Crystallization and preliminary X-ray crystallographic analysis of PAS factor from Vibrio vulnificus Mol. Cells 20 361 363 16404150 1:CAS:528:DC%2BD28XmsFyrtb4%3D
    • (2005) Mol. Cells , vol.20 , pp. 361-363
    • Lee, J.H.1    Kim, S.Y.2    Rho, S.-H.3    Im, Y.J.4    Kim, Y.R.5    Kim, M.-K.6    Kang, G.B.7    Rhee, J.H.8    Eom, S.H.9
  • 20
    • 0033212815 scopus 로고    scopus 로고
    • Integration of macromolecular diffraction data
    • DOI 10.1107/S090744499900846X
    • A.G. Leslie 1999 Integration of macromolecular diffraction data. Acta Crystallogr D. Biol. Crystallogr. 55 1696 1702 1:STN:280: DC%2BD3c%2FgtlWitA%3D%3D 10.1107/S090744499900846X (Pubitemid 29504424)
    • (1999) Acta Crystallographica Section D: Biological Crystallography , vol.55 , Issue.10 , pp. 1696-1702
    • Leslie, A.G.W.1
  • 21
    • 35048842051 scopus 로고    scopus 로고
    • Crystal Structure of TTC0263, a Thermophilic TPR Protein from Thermus thermophilus HB27
    • H. Lim K. Kim D. Han J. Oh Y. Kim 2008 Crystal Structure of TTC0263, a Thermophilic TPR Protein from Thermus thermophilus HB27 Mol. Cells 24 27 36
    • (2008) Mol. Cells , vol.24 , pp. 27-36
    • Lim, H.1    Kim, K.2    Han, D.3    Oh, J.4    Kim, Y.5
  • 22
    • 0031058143 scopus 로고    scopus 로고
    • Theoretical approaches to the evolutionary optimization of glycolysis. Chemical analysis
    • E. Melendez-Hevia T.G. Waddell R. Heinrich F. Montero 1997 Theoretical approaches to the evolutionary optimization of glycolysis-chemical analysis Eur. J. Biochem. 244 527 543 9119021 1:CAS:528:DyaK2sXhvVKksrw%3D 10.1111/j.1432-1033.1997.t01-1-00527.x (Pubitemid 27110757)
    • (1997) European Journal of Biochemistry , vol.244 , Issue.2 , pp. 527-543
    • Melendez-Hevia, E.1    Waddell, T.G.2    Heinrich, R.3    Montero, F.4
  • 23
    • 0031059866 scopus 로고    scopus 로고
    • Processing of X-ray diffraction data collected in oscillation mode
    • DOI 10.1016/S0076-6879(97)76066-X
    • Z. Otwinowski W. Minor 1997 Processing of x-ray diffraction data collected in oscillation mode Methods Enzymol. 276 307 326 1:CAS:528: DyaK2sXivFehsbw%3D 10.1016/S0076-6879(97)76066-X (Pubitemid 27085611)
    • (1997) Methods in Enzymology , vol.276 , pp. 307-326
    • Otwinowski, Z.1    Minor, W.2
  • 24
    • 33644850810 scopus 로고    scopus 로고
    • Drosophila melanogaster is susceptible to vibrio cholerae infection
    • 16404157 1:CAS:528:DC%2BD28XmsFyrtbg%3D
    • S.-Y. Park Y.-J. Heo K.-S. Kim Y.-H. Cho 2005 Drosophila melanogaster Is Susceptible to Vibrio cholerae Infection Mol. Cells 20 409 415 16404157 1:CAS:528:DC%2BD28XmsFyrtbg%3D
    • (2005) Mol. Cells , vol.20 , pp. 409-415
    • Park, S.-Y.1    Heo, Y.-J.2    Kim, K.-S.3    Cho, Y.-H.4
  • 25
    • 0036721069 scopus 로고    scopus 로고
    • Crystal structure of D-ribose-5-phosphate isomerase (RpiA) from Escherichia coli
    • DOI 10.1002/prot.10203
    • E.S. Rangarajan J. Sivaraman A. Matte M. Cygler 2002 Crystal structure of D-ribose-5-phosphate isomerase (RpiA) from Escherichia coli PROTEINS: Structure, Functions, and Genetics 48 737 740 1:CAS:528:DC%2BD38XmslWjsbo%3D 10.1002/prot.10203 (Pubitemid 34925460)
    • (2002) Proteins: Structure, Function and Genetics , vol.48 , Issue.4 , pp. 737-740
    • Rangarajan, E.S.1    Sivaraman, J.2    Matte, A.3    Cygler, M.4
  • 26
    • 0027424786 scopus 로고
    • Structural and functional properties of a multi-enzyme complex from spinach chloroplasts. I. Stoichiometry of the polypeptide chains
    • DOI 10.1111/j.1432-1033.1993.tb18338.x
    • M. Rault M.T. Giudici-Orticoni B. Gontero J. Ricard 1993 Structural and functional properties of a multi-enzyme complex from spinach chloroplast. 1. Stoichiometry of the polypeptide chains Eur. J. Biochem. 217 1065 1073 8223630 1:CAS:528:DyaK3sXmt1Sntr4%3D 10.1111/j.1432-1033.1993.tb18338.x (Pubitemid 23326890)
    • (1993) European Journal of Biochemistry , vol.217 , Issue.3 , pp. 1065-1073
    • Rault, M.1    Giudici-Orticoni, M.-T.2    Gontero, B.3    Ricard, J.4
  • 29
    • 0037633997 scopus 로고    scopus 로고
    • Crystal structure of a phosphatase with a unique substrate binding domain from Thermotoga maritima
    • DOI 10.1110/ps.0302703
    • D.H. Shin A. Roberts J. Jancarik H. Yokota R. Kim D.E. Wemmer S.H. Kim 2003 Crystal structure of a phosphatase with a unique substrate binding domain from Thermotoga maritime Protein Sci. 12 1464 1472 12824492 1:CAS:528: DC%2BD3sXltFekurY%3D 10.1110/ps.0302703 (Pubitemid 36759350)
    • (2003) Protein Science , vol.12 , Issue.7 , pp. 1464-1472
    • Shin, D.H.1    Roberts, A.2    Jancarik, J.3    Yokota, H.4    Kim, R.5    Wemmer, D.E.6    Kim, S.-H.7
  • 30
    • 0027968068 scopus 로고
    • CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
    • 7984417 1:CAS:528:DyaK2MXitlSgu74%3D 10.1093/nar/22.22.4673
    • J.D. Thompson D.G. Higgins T.J. Gibson 1994 CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice Nucleic Acids Res. 22 4673 4680 7984417 1:CAS:528:DyaK2MXitlSgu74%3D 10.1093/nar/22.22.4673
    • (1994) Nucleic Acids Res. , vol.22 , pp. 4673-4680
    • Thompson, J.D.1    Higgins, D.G.2    Gibson, T.J.3
  • 31
    • 0037224131 scopus 로고    scopus 로고
    • Structure of Escherichia coli ribose-5-phosphate isomerase: A ubiquitous enzyme of the pentose phosphate pathway and the Calvin cycle
    • DOI 10.1016/S0969-2126(02)00933-4, PII S0969212602009334
    • R. Zhang C.E. Andersson A. Savchenko T. Skarina E. Evdokimova S. Beasley C.H. Arrowsmith A.M. Edwards A. Joachimiak S.L. Mowbray 2003 Structure of Escherichia coli ribose-5-phosphate isomerase: a ubiquitous enzyme of the pentose phosphate pathway and the Calvin cycle Structure 11 31 42 12517338 1:CAS:528:DC%2BD3sXivVyitA%3D%3D 10.1016/S0969-2126(02)00933-4 (Pubitemid 36074966)
    • (2003) Structure , vol.11 , Issue.1 , pp. 31-42
    • Zhang, R.-G.1    Andersson, C.E.2    Savchenko, A.3    Skarina, T.4    Evdokimova, E.5    Beasley, S.6    Arrowsmith, C.H.7    Edwards, A.M.8    Joachimiak, A.9    Mowbray, S.L.10


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.