메뉴 건너뛰기




Volumn 21, Issue 4, 2012, Pages 498-510

A structural mechanism for dimeric to tetrameric oligomer conversion in Halomonas sp. nucleoside diphosphate kinase

Author keywords

Halophilic enzyme; Light scattering; Nucleoside diphosphate kinase; Oligomerization; X ray crystallography

Indexed keywords

CARBON; DIMER; NUCLEOSIDE DIPHOSPHATE KINASE; OLIGOMER; TETRAMER;

EID: 84858686534     PISSN: 09618368     EISSN: 1469896X     Source Type: Journal    
DOI: 10.1002/pro.2032     Document Type: Article
Times cited : (16)

References (41)
  • 1
    • 0016139829 scopus 로고
    • Salt-dependent properties of proteins from extremely halophilic bacteria
    • Lanyi JK (1974) Salt-dependent properties of proteins from extremely halophilic bacteria. Bacteriol Rev 38:272-290.
    • (1974) Bacteriol Rev , vol.38 , pp. 272-290
    • Lanyi, J.K.1
  • 3
    • 0034734270 scopus 로고    scopus 로고
    • Halophilic enzymes: Proteins with a grain of salt
    • DOI 10.1016/S0301-4622(00)00126-5, PII S0301462200001265
    • Mevarech M, Frolow F, Gloss LM (2000) Halophilic enzymes: proteins with a grain of salt. Biophys Chem 86:155-164. (Pubitemid 30665604)
    • (2000) Biophysical Chemistry , vol.86 , Issue.2-3 , pp. 155-164
    • Mevarech, M.1    Frolow, F.2    Gloss, L.M.3
  • 4
    • 0035970769 scopus 로고    scopus 로고
    • NaCl-activated nucleoside diphosphate kinase from extremely halophilic archaeon, Halobacterium salinarum, maintains native conformation without salt
    • DOI 10.1016/S0014-5793(01)02292-X, PII S001457930102292X
    • Ishibashi M, Tokunaga H, Hiratsuka K, Yonezawa Y, Turumaru H, Arakawa T, Tokunaga M (2001) NaCl-activated nucleoside diphosphate kinase from extremely halophilic archaeon, Halobacterium salinarum, maintains native conformation without salt. FEBS Lett 493:134-138. (Pubitemid 32245791)
    • (2001) FEBS Letters , vol.493 , Issue.2-3 , pp. 134-138
    • Ishibashi, M.1    Tokunaga, H.2    Hiratsuka, K.3    Yonezawa, Y.4    Tsurumaru, H.5    Arakawa, T.6    Tokunaga, M.7
  • 6
    • 0842303216 scopus 로고    scopus 로고
    • Highly efficient renaturation of beta-lactamase isolated from moderately halophilic bacteria
    • DOI 10.1016/S0014-5793(03)01508-4
    • Tokunaga H, Ishibashi M, Arakawa T, Tokunaga M (2004) Highly efficient renaturation of beta-lactamase isolated from moderately halophilic bacteria. FEBS Lett 558:7-12. (Pubitemid 38167401)
    • (2004) FEBS Letters , vol.558 , Issue.1-3 , pp. 7-12
    • Tokunaga, H.1    Ishibashi, M.2    Arakawa, T.3    Tokunaga, M.4
  • 7
    • 79251597820 scopus 로고    scopus 로고
    • Salt-dependent thermo-reversible α-amylase: Cloning and characterization of halophilic α-amylase from moderately halophilic bacterium, Kocuria varians
    • Yamaguchi R, Tokunaga H, Ishibashi M, Arakawa T, Tokunaga M (2011) Salt-dependent thermo-reversible α-amylase: cloning and characterization of halophilic α-amylase from moderately halophilic bacterium, Kocuria varians. Appl Microbiol Biotech 89:673-684.
    • (2011) Appl Microbiol Biotech , vol.89 , pp. 673-684
    • Yamaguchi, R.1    Tokunaga, H.2    Ishibashi, M.3    Arakawa, T.4    Tokunaga, M.5
  • 8
    • 0033805046 scopus 로고    scopus 로고
    • The nucleoside diphosphate kinases 1973-2000
    • Lascu I (2000) The nucleoside diphosphate kinases 1973-2000. J Bioenerg Biomemb 32:213-214.
    • (2000) J Bioenerg Biomemb , vol.32 , pp. 213-214
    • Lascu, I.1
  • 9
    • 0038546599 scopus 로고    scopus 로고
    • Introduction: Nucleoside diphosphate kinases: Genes and protein functions
    • Kimura N (2003) Introduction: nucleoside diphosphate kinases: genes and protein functions. J Bioenerg Biomemb 35:3-4.
    • (2003) J Bioenerg Biomemb , vol.35 , pp. 3-4
    • Kimura, N.1
  • 10
    • 33846828378 scopus 로고    scopus 로고
    • Interaction of nucleoside diphosphate kinase B with heterotrimeric G protein βγ dimers: Consequences on G protein activation and stability
    • Wieland T (2007) Interaction of nucleoside diphosphate kinase B with heterotrimeric G protein βγ dimers: consequences on G protein activation and stability. Naunyn-Schmiedeberg's Arch Pharmacol 374:373-383.
    • (2007) Naunyn-Schmiedeberg's Arch Pharmacol , vol.374 , pp. 373-383
    • Wieland, T.1
  • 14
    • 0027764466 scopus 로고
    • Crystal structure of Myxococcus xanthus nucleoside diphosphate kinase and its interaction with a nucleotide substrate at 2.0 A resolution
    • Williams RL, Oren DA, Muñoz-Dorado J, Inouye S, Inouye M, Arnold E (1993) Crystal structure of Myxococcus xanthus nucleoside diphosphate kinase and its interaction with a nucleotide substrate at 2.0 A resolution. J Mol Biol 234:1230-1247.
    • (1993) J Mol Biol , vol.234 , pp. 1230-1247
    • Williams, R.L.1    Oren, D.A.2    Muñoz-Dorado, J.3    Inouye, S.4    Inouye, M.5    Arnold, E.6
  • 15
    • 0028989601 scopus 로고
    • The 1.9 A crystal structure of a nucleoside diphosphate kinase complex with adenosine 3′,5′-cyclic monophosphate: Evidence for competitive inhibition
    • Strelkov SV, Perisic O, Webb PA, Williams RL (1995) The 1.9 A crystal structure of a nucleoside diphosphate kinase complex with adenosine 3′,5′-cyclic monophosphate: evidence for competitive inhibition. J Mol Biol 249:665-674.
    • (1995) J Mol Biol , vol.249 , pp. 665-674
    • Strelkov, S.V.1    Perisic, O.2    Webb, P.A.3    Williams, R.L.4
  • 16
    • 34247248191 scopus 로고    scopus 로고
    • The structure of the Escherichia coli nucleoside diphosphate kinase reveals a new quaternary architecture for this enzyme family
    • DOI 10.1002/prot.21316
    • Moynié L, Giraud MF, Georgescauld F, Lascu I, Dautant A (2007) The structure of the Escherichia coli nucleoside diphosphate kinase reveals a new quaternary architecture for this enzyme family. Proteins 67:755-765. (Pubitemid 46625590)
    • (2007) Proteins: Structure, Function and Genetics , vol.67 , Issue.3 , pp. 755-765
    • Moynie, L.1    Giraud, M.-F.2    Georgescauld, F.3    Lascu, I.4    Dautant, A.5
  • 18
    • 0024103455 scopus 로고
    • Analysis of the lethal interaction between the prune and Killer of prune mutations of Drosophila
    • Biggs J, Tripoulas N, Hersperger E, Dearolf C, Shearn A (1988) Analysis of the lethal interaction between the prune and Killer of prune mutations of Drosophila. Genes Dev 2:1333-1343.
    • (1988) Genes Dev , vol.2 , pp. 1333-1343
    • Biggs, J.1    Tripoulas, N.2    Hersperger, E.3    Dearolf, C.4    Shearn, A.5
  • 19
    • 0026708128 scopus 로고
    • A Pro/Ser substitution in nucleoside diphosphate kinase of Drosophila melanogaster (mutation killer of prune) affects stability but not catalytic efficiency of the enzyme
    • Lascu I, Chaffotte A, Limbourg-Bouchon B, Véron M (1992) A Pro/Ser substitution in nucleoside diphosphate kinase of Drosophila melanogaster (mutation killer of prune) affects stability but not catalytic efficiency of the enzyme. J Biol Chem 267:12775-12781.
    • (1992) J Biol Chem , vol.267 , pp. 12775-12781
    • Lascu, I.1    Chaffotte, A.2    Limbourg-Bouchon, B.3    Véron, M.4
  • 20
    • 0028981364 scopus 로고
    • Kpn which revert the prune/Killer of prune lethal interaction affect conserved residues that are involved in nucleoside diphosphate kinase substrate binding and catalysis
    • Kpn which revert the prune/Killer of prune lethal interaction affect conserved residues that are involved in nucleoside diphosphate kinase substrate binding and catalysis. J Biol Chem 270:23021-23030.
    • (1995) J Biol Chem , vol.270 , pp. 23021-23030
    • Timmons, L.1    Xu, J.2    Hersperger, G.3    Deng, X.F.4    Shearn, A.5
  • 21
    • 33846652454 scopus 로고    scopus 로고
    • Dimeric structure of nucleoside diphosphate kinase from moderately halophilic bacterium: Contrast to the tetrameric Pseudomonas counterpart
    • DOI 10.1111/j.1574-6968.2007.00626.x
    • Yonezawa Y, Izutsu K, Tokunaga H, Maeda H, Arakawa T, Tokunaga M (2007) Dimeric structure of nucleoside diphosphate kinase from moderately halophilic bacterium: contrast to the tetrameric Pseudomonas counterpart. FEMS Microbiol Lett 268:52-58. (Pubitemid 46192835)
    • (2007) FEMS Microbiology Letters , vol.268 , Issue.1 , pp. 52-58
    • Yonezawa, Y.1    Izutsu, K.-I.2    Tokunaga, H.3    Maeda, H.4    Arakawa, T.5    Tokunaga, M.6
  • 22
    • 40849123928 scopus 로고    scopus 로고
    • Residue 134 determines the dimmer-tetramer assembly of nucleoside diphosphate kinase from moderately halophilic bacteria
    • Tokunaga H, Ishibashi M, Arisaka F, Arai S, Kuroki R, Arakawa T, Tokunaga M (2008) Residue 134 determines the dimmer-tetramer assembly of nucleoside diphosphate kinase from moderately halophilic bacteria. FEBS Lett 582:1049-1054.
    • (2008) FEBS Lett , vol.582 , pp. 1049-1054
    • Tokunaga, H.1    Ishibashi, M.2    Arisaka, F.3    Arai, S.4    Kuroki, R.5    Arakawa, T.6    Tokunaga, M.7
  • 23
    • 50049123899 scopus 로고    scopus 로고
    • Engineering of halophilic enzymes: Two acidic amino acid residues at the carboxy-terminal region confer halophilic characteristics to Halomonas and Pseudomonas nucleoside diphosphate kinases
    • Tokunaga H, Arakawa T, Tokunaga M (2008) Engineering of halophilic enzymes: two acidic amino acid residues at the carboxy-terminal region confer halophilic characteristics to Halomonas and Pseudomonas nucleoside diphosphate kinases. Protein Sci 17:1603-1610.
    • (2008) Protein Sci , vol.17 , pp. 1603-1610
    • Tokunaga, H.1    Arakawa, T.2    Tokunaga, M.3
  • 25
    • 34548232365 scopus 로고    scopus 로고
    • Inference of Macromolecular Assemblies from Crystalline State
    • DOI 10.1016/j.jmb.2007.05.022, PII S0022283607006420
    • Krissinel E, Henrick E (2007) Inference of macromolecular assemblies from crystalline state. J Mol Biol 372:774-797. (Pubitemid 47321791)
    • (2007) Journal of Molecular Biology , vol.372 , Issue.3 , pp. 774-797
    • Krissinel, E.1    Henrick, K.2
  • 26
    • 0028103275 scopus 로고
    • The CCP4 suite: Programs for protein crystallography
    • Collaborative Computational Project, Number 4
    • Collaborative Computational Project, Number 4 (1994) The CCP4 suite: programs for protein crystallography. Acta Cryst D50:760-763.
    • (1994) Acta Cryst , vol.D50 , pp. 760-763
  • 27
    • 0032961270 scopus 로고    scopus 로고
    • ESPript: Analysis of multiple sequence alignments in PostScript
    • DOI 10.1093/bioinformatics/15.4.305
    • Gouet P, Courcelle E, Stuart DI, Métoz F (1999) ESPript: analysis of multiple sequence alignments in PostScript. Bioinformatics 15:305-308. (Pubitemid 29213756)
    • (1999) Bioinformatics , vol.15 , Issue.4 , pp. 305-308
    • Gouet, P.1    Courcelle, E.2    Stuart, D.I.3    Metoz, F.4
  • 28
    • 0014943238 scopus 로고
    • Affinity and the immune response
    • Karush F (1970) Affinity and the immune response. Ann N Y Acad Sci 169:56-64.
    • (1970) Ann N Y Acad Sci , vol.169 , pp. 56-64
    • Karush, F.1
  • 29
    • 0032438190 scopus 로고    scopus 로고
    • The stability of proteins in extreme environments
    • DOI 10.1016/S0959-440X(98)80094-8
    • Jaenicke R, Boèhm G (1998) The stability of proteins in extreme environments. Curr Opin Struct Biol 8:738-748. (Pubitemid 29004672)
    • (1998) Current Opinion in Structural Biology , vol.8 , Issue.6 , pp. 738-748
    • Jaenicke, R.1    Bohm, G.2
  • 31
    • 0033551438 scopus 로고    scopus 로고
    • Stability and folding of dihydrofolate reductase from the hyperthermophilic bacterium Thermotoga maritima
    • Dams T, Jaenicke R (1999) Stability and folding of dihydrofolate reductase from the hyperthermophilic bacterium Thermotoga maritima. Biochemistry 38:9169-9178.
    • (1999) Biochemistry , vol.38 , pp. 9169-9178
    • Dams, T.1    Jaenicke, R.2
  • 32
    • 20644437994 scopus 로고    scopus 로고
    • Beamline Scheduling Software: Administration software for automatic operation of the RIKEN structural genomics beamlines at SPring-8
    • DOI 10.1107/S0909049505004735
    • Ueno G, Kanda H, Kumasaka T, Yamamoto M (2005) Beamline Scheduling Software: administration software for automatic operation of the RIKEN structural genomics beamlines at SPring-8. J Synch Rad 12:380-384. (Pubitemid 41557615)
    • (2005) Journal of Synchrotron Radiation , vol.12 , Issue.3 , pp. 380-384
    • Ueno, G.1    Kanda, H.2    Kumasaka, T.3    Yamamoto, M.4
  • 34
    • 10344243967 scopus 로고    scopus 로고
    • Sample management system for a vast amount of frozen crystals at SPring-8
    • Ueno G, Hirose R, Ida K, Kumasaka T, Yamamoto M (2004) Sample management system for a vast amount of frozen crystals at SPring-8. J Appl Cryst 37:867-873.
    • (2004) J Appl Cryst , vol.37 , pp. 867-873
    • Ueno, G.1    Hirose, R.2    Ida, K.3    Kumasaka, T.4    Yamamoto, M.5
  • 35
    • 0031059866 scopus 로고    scopus 로고
    • Processing of X-ray diffraction data collected in oscillation mode
    • DOI 10.1016/S0076-6879(97)76066-X
    • Otwinowski Z, Minor W (1997) Processing of X-ray diffraction data collected in oscillation mode. Meth Enzymol 276:307-326. (Pubitemid 27085611)
    • (1997) Methods in Enzymology , vol.276 , pp. 307-326
    • Otwinowski, Z.1    Minor, W.2
  • 36
    • 0000560808 scopus 로고    scopus 로고
    • MOLREP: An Automated Program for Molecular Replacement
    • Vagin A, Teplyakov A (1997) MOLREP: an automated program for molecular replacement. J Appl Cryst 30:1022-1025. (Pubitemid 127485985)
    • (1997) Journal of Applied Crystallography , vol.30 , Issue.6 , pp. 1022-1025
    • Vagin, A.1    Teplyakov, A.2
  • 41
    • 13444307044 scopus 로고    scopus 로고
    • Secondary-structure matching (SSM), a new tool for fast protein structure alignment in three dimensions
    • DOI 10.1107/S0907444904026460
    • Krissinel E, Henrick K (2004) Secondary-structure matching (SSM), a new tool for fast protein structure alignment in three dimensions. Acta Cryst D60:2256-2268. (Pubitemid 41742778)
    • (2004) Acta Crystallographica Section D: Biological Crystallography , vol.60 , Issue.12 I , pp. 2256-2268
    • Krissinel, E.1    Henrick, K.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.