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Volumn 79, Issue 11, 2011, Pages 3099-3107

The X-ray crystallographic structure and specificity profile of HAD superfamily phosphohydrolase BT1666: Comparison of paralogous functions in B. thetaiotaomicron

Author keywords

Bacteroides thetaiotaomicron; BT1666; BT4131; Divergent evolution; Haloalkanoate dehalogenase superfamily; Housekeeping; Phosphatase; Phosphohydrolase; Substrate promiscuity

Indexed keywords

BT1666 PHOSPHATASE; ENZYME; HALOALKANOATE DEHALOGENASE SUPERFAMILY; PHOSPHATASE; UNCLASSIFIED DRUG;

EID: 80054006773     PISSN: 08873585     EISSN: 10970134     Source Type: Journal    
DOI: 10.1002/prot.23137     Document Type: Article
Times cited : (10)

References (35)
  • 1
    • 70549106287 scopus 로고    scopus 로고
    • Markers of fitness in a successful enzyme superfamily
    • Allen KN, Dunaway-Mariano D. Markers of fitness in a successful enzyme superfamily. Curr Opin Struct Biol 2009; 19: 658-665.
    • (2009) Curr Opin Struct Biol , vol.19 , pp. 658-665
    • Allen, K.N.1    Dunaway-Mariano, D.2
  • 2
    • 4344585269 scopus 로고    scopus 로고
    • Phosphoryl group transfer: evolution of a catalytic scaffold
    • Allen KN, Dunaway-Mariano D. Phosphoryl group transfer: evolution of a catalytic scaffold. Trends Biochem Sci 2004; 29: 495-503.
    • (2004) Trends Biochem Sci , vol.29 , pp. 495-503
    • Allen, K.N.1    Dunaway-Mariano, D.2
  • 3
    • 33746922036 scopus 로고    scopus 로고
    • Evolutionary genomics of the HAD superfamily: understanding the structural adaptations and catalytic diversity in a superfamily of phosphoesterases and allied enzymes
    • Burroughs AM, Allen KN, Dunaway-Mariano D, Aravind L. Evolutionary genomics of the HAD superfamily: understanding the structural adaptations and catalytic diversity in a superfamily of phosphoesterases and allied enzymes. J Mol Biol 2006; 361: 1003-1034.
    • (2006) J Mol Biol , vol.361 , pp. 1003-1034
    • Burroughs, A.M.1    Allen, K.N.2    Dunaway-Mariano, D.3    Aravind, L.4
  • 4
    • 31544471658 scopus 로고    scopus 로고
    • Structure and activity analyses of Escherichia coli K-12 NagD provide insight into the evolution of biochemical function in the haloalkanoic acid dehalogenase superfamily
    • Tremblay LW, Dunaway-Mariano D, Allen KN. Structure and activity analyses of Escherichia coli K-12 NagD provide insight into the evolution of biochemical function in the haloalkanoic acid dehalogenase superfamily. Biochemistry 2006; 45: 1183-1193.
    • (2006) Biochemistry , vol.45 , pp. 1183-1193
    • Tremblay, L.W.1    Dunaway-Mariano, D.2    Allen, K.N.3
  • 5
    • 20544469463 scopus 로고    scopus 로고
    • HAD superfamily phosphotransferase substrate diversification: structure and function analysis of HAD subclass IIB sugar phosphatase BT4131
    • Lu Z, Dunaway-Mariano D, Allen KN. HAD superfamily phosphotransferase substrate diversification: structure and function analysis of HAD subclass IIB sugar phosphatase BT4131. Biochemistry 2005; 44: 8684-8696.
    • (2005) Biochemistry , vol.44 , pp. 8684-8696
    • Lu, Z.1    Dunaway-Mariano, D.2    Allen, K.N.3
  • 6
    • 59449103272 scopus 로고    scopus 로고
    • Structure-function analysis of 2-keto-3-deoxy-D-glycero-D-galactonononate-9-phosphate phosphatase defines specificity elements in type C0 haloalkanoate dehalogenase family members
    • Lu Z, Wang L, Dunaway-Mariano D, Allen KN. Structure-function analysis of 2-keto-3-deoxy-D-glycero-D-galactonononate-9-phosphate phosphatase defines specificity elements in type C0 haloalkanoate dehalogenase family members. J Biol Chem 2009; 284: 1224-1233.
    • (2009) J Biol Chem , vol.284 , pp. 1224-1233
    • Lu, Z.1    Wang, L.2    Dunaway-Mariano, D.3    Allen, K.N.4
  • 7
    • 51649110132 scopus 로고    scopus 로고
    • Human symbiont Bacteroides thetaiotaomicron synthesizes 2-keto-3-deoxy-D-glycero-D-galacto-nononic acid (KDN)
    • Wang L, Lu Z, Allen KN, Mariano PS, Dunaway-Mariano D. Human symbiont Bacteroides thetaiotaomicron synthesizes 2-keto-3-deoxy-D-glycero-D-galacto-nononic acid (KDN). Chem Biol 2008; 15: 893-897.
    • (2008) Chem Biol , vol.15 , pp. 893-897
    • Wang, L.1    Lu, Z.2    Allen, K.N.3    Mariano, P.S.4    Dunaway-Mariano, D.5
  • 8
    • 0031059866 scopus 로고    scopus 로고
    • Processing of X-ray diffraction data collected in oscillation mode
    • Otwinowski Z, Minor W. Processing of X-ray diffraction data collected in oscillation mode. Methods Enzymol 1997; 276: 307-326.
    • (1997) Methods Enzymol , vol.276 , pp. 307-326
    • Otwinowski, Z.1    Minor, W.2
  • 9
    • 0000560808 scopus 로고    scopus 로고
    • MOLREP: an automated program for molecular replacement
    • Vagin A, Teplyakov A. MOLREP: an automated program for molecular replacement. J Appl Crystallogr 1997; 30 (Part 6): 1022-1025.
    • (1997) J Appl Crystallogr , vol.30 , Issue.PART 6 , pp. 1022-1025
    • Vagin, A.1    Teplyakov, A.2
  • 10
  • 13
    • 0000243829 scopus 로고
    • PROCHECK: a program to check the stereochemical quality of protein structures
    • Laskowski RA, MacArthur MW, Moss DS, Thornton JM. PROCHECK: a program to check the stereochemical quality of protein structures. J Appl Cryst 1993; 26 (Part 2): 283-291.
    • (1993) J Appl Cryst , vol.26 , Issue.PART 2 , pp. 283-291
    • Laskowski, R.A.1    MacArthur, M.W.2    Moss, D.S.3    Thornton, J.M.4
  • 14
    • 0026244229 scopus 로고
    • MOLSCRIPT: a program to produce both detailed and schematic plots of protein structures
    • Kraulis PJ. MOLSCRIPT: a program to produce both detailed and schematic plots of protein structures. J Appl Cryst 1991; 24: 946-950.
    • (1991) J Appl Cryst , vol.24 , pp. 946-950
    • Kraulis, P.J.1
  • 15
    • 0038243196 scopus 로고    scopus 로고
    • A program for model and data visualization using persistence of vision ray-tracing
    • Fenn TD, Ringe D, and Petsko GA. A program for model and data visualization using persistence of vision ray-tracing. J Appl Crystallogr 2003; 36: 944-947.
    • (2003) J Appl Crystallogr , vol.36 , pp. 944-947
    • Fenn, T.D.1    Ringe, D.2    Petsko, G.A.3
  • 16
    • 2142646427 scopus 로고    scopus 로고
    • Investigation of metal ion binding in phosphonoacetaldehyde hydrolase identifies sequence markers for metal-activated enzymes of the HAD enzyme superfamily
    • Zhang G, Morais MC, Dai J, Zhang W, Dunaway-Mariano D, Allen KN. Investigation of metal ion binding in phosphonoacetaldehyde hydrolase identifies sequence markers for metal-activated enzymes of the HAD enzyme superfamily. Biochemistry 2004; 43: 4990-4997.
    • (2004) Biochemistry , vol.43 , pp. 4990-4997
    • Zhang, G.1    Morais, M.C.2    Dai, J.3    Zhang, W.4    Dunaway-Mariano, D.5    Allen, K.N.6
  • 17
    • 44449119913 scopus 로고    scopus 로고
    • The catalytic scaffold of the haloalkanoic acid dehalogenase enzyme superfamily acts as a mold for the trigonal bipyramidal transition state
    • Lu Z, Dunaway-Mariano D, Allen KN. The catalytic scaffold of the haloalkanoic acid dehalogenase enzyme superfamily acts as a mold for the trigonal bipyramidal transition state. Proc Natl Acad Sci USA 2008; 105: 5687-5692.
    • (2008) Proc Natl Acad Sci USA , vol.105 , pp. 5687-5692
    • Lu, Z.1    Dunaway-Mariano, D.2    Allen, K.N.3
  • 19
    • 33745712759 scopus 로고    scopus 로고
    • Crystal structure of trehalose-6-phosphate phosphatase-related protein: biochemical and biological implications
    • Rao KN, Kumaran D, Seetharaman J, Bonanno JB, Burley SK, Swaminathan S. Crystal structure of trehalose-6-phosphate phosphatase-related protein: biochemical and biological implications. Protein Sci 2006; 15: 1735-1744.
    • (2006) Protein Sci , vol.15 , pp. 1735-1744
    • Rao, K.N.1    Kumaran, D.2    Seetharaman, J.3    Bonanno, J.B.4    Burley, S.K.5    Swaminathan, S.6
  • 20
    • 0037633997 scopus 로고    scopus 로고
    • Crystal structure of a phosphatase with a unique substrate binding domain from Thermotoga maritima
    • Shin DH, Roberts A, Jancarik J, Yokota H, Kim R, Wemmer DE, Kim SH. Crystal structure of a phosphatase with a unique substrate binding domain from Thermotoga maritima. Protein Sci 2003; 12: 1464-1472.
    • (2003) Protein Sci , vol.12 , 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
  • 21
    • 33744955343 scopus 로고    scopus 로고
    • The X-ray crystal structures of human α-phosphomannomutase 1 reveal the structural basis of congenital disorder of glycosylation type 1a
    • Silvaggi NR, Zhang C, Lu Z, Dai J, Dunaway-Mariano D, Allen KN. The X-ray crystal structures of human α-phosphomannomutase 1 reveal the structural basis of congenital disorder of glycosylation type 1a. J Biol Chem 2006; 281: 14918-14926.
    • (2006) J Biol Chem , vol.281 , pp. 14918-14926
    • Silvaggi, N.R.1    Zhang, C.2    Lu, Z.3    Dai, J.4    Dunaway-Mariano, D.5    Allen, K.N.6
  • 22
    • 12344250639 scopus 로고    scopus 로고
    • Chronophin, a novel HAD-type serine protein phosphatase, regulates cofilin-dependent actin dynamics
    • Gohla A, Birkenfeld J, Bokoch GM. Chronophin, a novel HAD-type serine protein phosphatase, regulates cofilin-dependent actin dynamics. Nat Cell Biol 2005; 7: 21-29.
    • (2005) Nat Cell Biol , vol.7 , pp. 21-29
    • Gohla, A.1    Birkenfeld, J.2    Bokoch, G.M.3
  • 23
    • 67650230540 scopus 로고    scopus 로고
    • Dephosphorylation of the C-terminal tyrosyl residue of the DNA damage-related histone H2A.X is mediated by the protein phosphatase eyes absent
    • Krishnan N, Jeong DG, Jung SK, Ryu SE, Xiao A, Allis CD, Kim SJ, Tonks NK. Dephosphorylation of the C-terminal tyrosyl residue of the DNA damage-related histone H2A.X is mediated by the protein phosphatase eyes absent. J Biol Chem 2009; 284: 16066-16070.
    • (2009) J Biol Chem , vol.284 , pp. 16066-16070
    • Krishnan, N.1    Jeong, D.G.2    Jung, S.K.3    Ryu, S.E.4    Xiao, A.5    Allis, C.D.6    Kim, S.J.7    Tonks, N.K.8
  • 24
    • 64549129548 scopus 로고    scopus 로고
    • Analysis of the structural determinants underlying discrimination between substrate and solvent in β-phosphoglucomutase catalysis
    • Dai J, Finci L, Zhang C, Lahiri S, Zhang G, Peisach E, Allen KN, Dunaway-Mariano D. Analysis of the structural determinants underlying discrimination between substrate and solvent in β-phosphoglucomutase catalysis. Biochemistry 2009; 48: 1984-1995.
    • (2009) Biochemistry , vol.48 , pp. 1984-1995
    • Dai, J.1    Finci, L.2    Zhang, C.3    Lahiri, S.4    Zhang, G.5    Peisach, E.6    Allen, K.N.7    Dunaway-Mariano, D.8
  • 25
    • 33746895489 scopus 로고    scopus 로고
    • Conformational cycling in β-phosphoglucomutase catalysis: reorientation of the β-D-glucose 1,6-(Bis)phosphate intermediate
    • Dai J, Wang L, Allen KN, Radstrom P, Dunaway-Mariano D. Conformational cycling in β-phosphoglucomutase catalysis: reorientation of the β-D-glucose 1, 6-(Bis)phosphate intermediate. Biochemistry 2006; 45: 7818-7824.
    • (2006) Biochemistry , vol.45 , pp. 7818-7824
    • Dai, J.1    Wang, L.2    Allen, K.N.3    Radstrom, P.4    Dunaway-Mariano, D.5
  • 26
    • 77952388742 scopus 로고    scopus 로고
    • Nucleotide-dependent conformational change governs specificity and analog discrimination by HIV reverse transcriptase
    • Kellinger MW, Johnson KA. Nucleotide-dependent conformational change governs specificity and analog discrimination by HIV reverse transcriptase. Proc Natl Acad Sci USA 2010; 107: 7734-7739.
    • (2010) Proc Natl Acad Sci USA , vol.107 , pp. 7734-7739
    • Kellinger, M.W.1    Johnson, K.A.2
  • 28
    • 71449103005 scopus 로고    scopus 로고
    • Hidden alternative structures of proline isomerase essential for catalysis
    • Fraser JS, Clarkson MW, Degnan SC, Erion R, Kern D, Alber T. Hidden alternative structures of proline isomerase essential for catalysis. Nature 2009; 462: 669-673.
    • (2009) Nature , vol.462 , pp. 669-673
    • Fraser, J.S.1    Clarkson, M.W.2    Degnan, S.C.3    Erion, R.4    Kern, D.5    Alber, T.6
  • 29
    • 48449095267 scopus 로고    scopus 로고
    • PVS: a web server for protein sequence variability analysis tuned to facilitate conserved epitope discovery
    • Garcia-Boronat M, Diez-Rivero CM, Reinherz EL, Reche PA. PVS: a web server for protein sequence variability analysis tuned to facilitate conserved epitope discovery. Nucleic Acids Res 2008; 36: W35-W41.
    • (2008) Nucleic Acids Res , vol.36
    • Garcia-Boronat, M.1    Diez-Rivero, C.M.2    Reinherz, E.L.3    Reche, P.A.4
  • 30
    • 0017272554 scopus 로고
    • Enzyme recruitment in evolution of new function
    • Jensen RA. Enzyme recruitment in evolution of new function. Annu Rev Microbiol 1976; 30: 409-425.
    • (1976) Annu Rev Microbiol , vol.30 , pp. 409-425
    • Jensen, R.A.1
  • 31
    • 80053978608 scopus 로고
    • Ohno S, editor. Evolution by gene duplication, London, New York: Allen & Unwin/Springer-Verlag
    • Ohno S, editor. Evolution by gene duplication, Vol. xv. London, New York: Allen & Unwin/Springer-Verlag; 1970.
    • (1970) , vol.15
  • 32
    • 77953623874 scopus 로고    scopus 로고
    • Enzyme promiscuity: a mechanistic and evolutionary perspective
    • Khersonsky O, Tawfik DS. Enzyme promiscuity: a mechanistic and evolutionary perspective. Annu Rev Biochem 2010; 79: 471-505.
    • (2010) Annu Rev Biochem , vol.79 , pp. 471-505
    • Khersonsky, O.1    Tawfik, D.S.2
  • 33
    • 0035142427 scopus 로고    scopus 로고
    • Evidence for extensive resistance gene transfer among Bacteroides spp. and among Bacteroides and other genera in the human colon
    • Shoemaker NB, Vlamakis H, Hayes K, Salyers AA. Evidence for extensive resistance gene transfer among Bacteroides spp. and among Bacteroides and other genera in the human colon. Appl Environ Microbiol 2001; 67: 561-568.
    • (2001) Appl Environ Microbiol , vol.67 , pp. 561-568
    • Shoemaker, N.B.1    Vlamakis, H.2    Hayes, K.3    Salyers, A.A.4
  • 34
    • 78149484875 scopus 로고    scopus 로고
    • Evolution of bacterial phosphoglycerate mutases: non-homologous isofunctional enzymes undergoing gene losses, gains and lateral transfers
    • Foster JM, Davis PJ, Raverdy S, Sibley MH, Raleigh EA, Kumar S, Carlow CK. Evolution of bacterial phosphoglycerate mutases: non-homologous isofunctional enzymes undergoing gene losses, gains and lateral transfers. PLoS One 2010; 5: e13576.
    • (2010) PLoS One , vol.5
    • Foster, J.M.1    Davis, P.J.2    Raverdy, S.3    Sibley, M.H.4    Raleigh, E.A.5    Kumar, S.6    Carlow, C.K.7
  • 35
    • 0031588581 scopus 로고    scopus 로고
    • Genome analysis of Bacteroides by pulsed-field gel electrophoresis: chromosome sizes and restriction patterns
    • Shaheduzzaman SM, Akimoto S, Kuwahara T, Kinouchi T, Ohnishi Y. Genome analysis of Bacteroides by pulsed-field gel electrophoresis: chromosome sizes and restriction patterns. DNA Res 1997; 4: 19-25.
    • (1997) DNA Res , vol.4 , pp. 19-25
    • Shaheduzzaman, S.M.1    Akimoto, S.2    Kuwahara, T.3    Kinouchi, T.4    Ohnishi, Y.5


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