메뉴 건너뛰기




Volumn 37, Issue 9, 2009, Pages 2796-2809

Contributions of the individual hydrophobic clefts of the Escherichia coli β sliding clamp to clamp loading, DNA replication and clamp recycling

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; DNA BINDING PROTEIN; DNA DIRECTED DNA POLYMERASE GAMMA; ESCHERICHIA COLI PROTEIN; ESCHERICHIA COLI PROTEIN BETA SLIDING CLAMP PROTEIN; HETERODIMER; UNCLASSIFIED DRUG;

EID: 66249104683     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkp128     Document Type: Article
Times cited : (24)

References (47)
  • 1
    • 77955094232 scopus 로고
    • The dnaN gene codes for the beta subunit of DNA polymerase III holoenzyme of escherichia coli
    • Burgers, P.M., Kornberg, A. and Sakakibara, Y. (1981) The dnaN gene codes for the beta subunit of DNA polymerase III holoenzyme of escherichia coli. Proc. Natl Acad. Sci. USA, 78, 5391-5395.
    • (1981) Proc. Natl Acad. Sci. USA , vol.78 , pp. 5391-5395
    • Burgers, P.M.1    Kornberg, A.2    Sakakibara, Y.3
  • 2
    • 34249066085 scopus 로고    scopus 로고
    • PCNA, the maestro of the replication fork
    • Moldovan, G.L., Pfander, B. and Jentsch, S. (2007) PCNA, the maestro of the replication fork. Cell, 129, 665-679.
    • (2007) Cell , vol.129 , pp. 665-679
    • Moldovan, G.L.1    Pfander, B.2    Jentsch, S.3
  • 3
    • 0141677891 scopus 로고    scopus 로고
    • Chromosomal replicases as asymmetric dimers: Studies of subunit arrangement and functional consequences
    • McHenry, C.S. (2003) Chromosomal replicases as asymmetric dimers: studies of subunit arrangement and functional consequences. Mol. Microbiol., 49, 1157-1165.
    • (2003) Mol. Microbiol , vol.49 , pp. 1157-1165
    • McHenry, C.S.1
  • 4
    • 33244454780 scopus 로고    scopus 로고
    • Crystal structure of a DNA polymerase sliding clamp from a Gram-positive bacterium
    • Argiriadi, M.A., Goedken, E.R., Bruck, I., O'Donnell, M. and Kuriyan, J. (2006) Crystal structure of a DNA polymerase sliding clamp from a Gram-positive bacterium. BMC Struct. Biol., 6, 2.
    • (2006) BMC Struct. Biol , vol.6 , pp. 2
    • Argiriadi, M.A.1    Goedken, E.R.2    Bruck, I.3    O'Donnell, M.4    Kuriyan, J.5
  • 5
    • 0026717535 scopus 로고
    • Three-dimensional structure of the beta subunit of E. coli DNA polymerase III holoenzyme: A sliding DNA clamp
    • Kong, X.P., Onrust, R., O'Donnell, M. and Kuriyan, J. (1992) Three-dimensional structure of the beta subunit of E. coli DNA polymerase III holoenzyme: A sliding DNA clamp. Cell, 69, 425-437.
    • (1992) Cell , vol.69 , pp. 425-437
    • Kong, X.P.1    Onrust, R.2    O'Donnell, M.3    Kuriyan, J.4
  • 6
    • 0028618183 scopus 로고
    • Crystal structure of the eukaryotic DNA polymerase processivity factor PCNA
    • Krishna, T.S., Kong, X.P., Gary, S., Burgers, P.M. and Kuriyan, J. (1994) Crystal structure of the eukaryotic DNA polymerase processivity factor PCNA. Cell, 79, 1233-1243.
    • (1994) Cell , vol.79 , pp. 1233-1243
    • Krishna, T.S.1    Kong, X.P.2    Gary, S.3    Burgers, P.M.4    Kuriyan, J.5
  • 7
    • 0034628915 scopus 로고    scopus 로고
    • Crystal structure of the DNA polymerase processivity factor of T4 bacteriophage
    • Moarefi, I., Jeruzalmi, D., Turner, J., O'Donnell, M. and Kuriyan, J. (2000) Crystal structure of the DNA polymerase processivity factor of T4 bacteriophage. J. Mol. Biol., 296, 1215-1223.
    • (2000) J. Mol. Biol , vol.296 , pp. 1215-1223
    • Moarefi, I.1    Jeruzalmi, D.2    Turner, J.3    O'Donnell, M.4    Kuriyan, J.5
  • 10
    • 33845625617 scopus 로고    scopus 로고
    • Proliferating cell nuclear antigen loaded onto double-stranded DNA: Dynamics, minor groove interactions and functional implications
    • Ivanov, I., Chapados, B.R., McCammon, J.A. and Tainer, J.A. (2006) Proliferating cell nuclear antigen loaded onto double-stranded DNA: dynamics, minor groove interactions and functional implications. Nucleic Acids Res., 34, 6023-6033.
    • (2006) Nucleic Acids Res , vol.34 , pp. 6023-6033
    • Ivanov, I.1    Chapados, B.R.2    McCammon, J.A.3    Tainer, J.A.4
  • 13
    • 0027280149 scopus 로고
    • The Escherichia coli DNA polymerase III holoenzyme contains both products of the dnaX gene, tau and gamma, but only tau is essential
    • Blinkova, A., Hervas, C., Stukenberg, P.T., Onrust, R., O'Donnell, M.E. and Walker, J.R. (1993) The Escherichia coli DNA polymerase III holoenzyme contains both products of the dnaX gene, tau and gamma, but only tau is essential. J. Bacteriol., 175, 6018-6027.
    • (1993) J. Bacteriol , vol.175 , pp. 6018-6027
    • Blinkova, A.1    Hervas, C.2    Stukenberg, P.T.3    Onrust, R.4    O'Donnell, M.E.5    Walker, J.R.6
  • 14
    • 0025354943 scopus 로고
    • Programmed ribosomal frameshifting generates the Escherichia coli DNA polymerase III gamma subunit from within the tau subunit reading frame
    • Blinkowa, A.L. and Walker, J.R. (1990) Programmed ribosomal frameshifting generates the Escherichia coli DNA polymerase III gamma subunit from within the tau subunit reading frame. Nucleic Acids Res., 18, 1725-1729.
    • (1990) Nucleic Acids Res , vol.18 , pp. 1725-1729
    • Blinkowa, A.L.1    Walker, J.R.2
  • 15
    • 0025303309 scopus 로고
    • The gamma subunit of DNA polymerase III holoenzyme of Escherichia coli is produced by ribosomal frameshifting
    • Flower, A.M. and McHenry, C.S. (1990) The gamma subunit of DNA polymerase III holoenzyme of Escherichia coli is produced by ribosomal frameshifting. Proc. Natl Acad. Sci. USA, 87, 3713-3717.
    • (1990) Proc. Natl Acad. Sci. USA , vol.87 , pp. 3713-3717
    • Flower, A.M.1    McHenry, C.S.2
  • 16
    • 0035943342 scopus 로고    scopus 로고
    • Crystal structure of the processivity clamp loader gamma (gamma) complex of E. coli DNA polymerase III
    • Jeruzalmi, D., O'Donnell, M. and Kuriyan, J. (2001) Crystal structure of the processivity clamp loader gamma (gamma) complex of E. coli DNA polymerase III. Cell, 106, 429-441.
    • (2001) Cell , vol.106 , pp. 429-441
    • Jeruzalmi, D.1    O'Donnell, M.2    Kuriyan, J.3
  • 17
    • 0027314532 scopus 로고
    • DNA polymerase III accessory proteins. IV. Characterization of chi and psi
    • Xiao, H., Dong, Z. and O'Donnell, M. (1993) DNA polymerase III accessory proteins. IV. Characterization of chi and psi. J. Biol. Chem., 268, 11779-11784.
    • (1993) J. Biol. Chem , vol.268 , pp. 11779-11784
    • Xiao, H.1    Dong, Z.2    O'Donnell, M.3
  • 18
    • 0035375105 scopus 로고    scopus 로고
    • Mechanism of beta clamp opening by the delta subunit of Escherichia coli DNA polymerase III holoenzyme
    • Stewart, J., Hingorani, M.M., Kelman, Z. and O'Donnell, M. (2001) Mechanism of beta clamp opening by the delta subunit of Escherichia coli DNA polymerase III holoenzyme. J. Biol. Chem., 276, 19182-19189.
    • (2001) J. Biol. Chem , vol.276 , pp. 19182-19189
    • Stewart, J.1    Hingorani, M.M.2    Kelman, Z.3    O'Donnell, M.4
  • 20
    • 0035949599 scopus 로고    scopus 로고
    • A universal protein-protein interaction motif in the eubacterial DNA replication and repair systems
    • Dalrymple, B.P., Kongsuwan, K., Wijffels, G., Dixon, N.E. and Jennings, P.A. (2001) A universal protein-protein interaction motif in the eubacterial DNA replication and repair systems. Proc. Natl Acad. Sci. USA, 98, 11627-11632.
    • (2001) Proc. Natl Acad. Sci. USA , vol.98 , pp. 11627-11632
    • Dalrymple, B.P.1    Kongsuwan, K.2    Wijffels, G.3    Dixon, N.E.4    Jennings, P.A.5
  • 21
    • 34447577855 scopus 로고    scopus 로고
    • Differential binding of Escherichia coli DNA polymerases to the beta-sliding clamp
    • Maul, R.W., Ponticelli, S.K., Duzen, J.M. and Sutton, M.D. (2007) Differential binding of Escherichia coli DNA polymerases to the beta-sliding clamp. Mol. Microbiol., 65, 811-827.
    • (2007) Mol. Microbiol , vol.65 , pp. 811-827
    • Maul, R.W.1    Ponticelli, S.K.2    Duzen, J.M.3    Sutton, M.D.4
  • 24
    • 4043084212 scopus 로고    scopus 로고
    • Increased dNTP binding affinity reveals a nonprocessive role for Escherichia coli beta clamp with DNA polymerase IV
    • Bertram, J.G., Bloom, L.B., O'Donnell, M. and Goodman, M.F. (2004) Increased dNTP binding affinity reveals a nonprocessive role for Escherichia coli beta clamp with DNA polymerase IV. J. Biol. Chem. 279, 33047-33050.
    • (2004) J. Biol. Chem , vol.279 , pp. 33047-33050
    • Bertram, J.G.1    Bloom, L.B.2    O'Donnell, M.3    Goodman, M.F.4
  • 26
    • 0034705095 scopus 로고    scopus 로고
    • The many faces of DNA polymerases: Strategies for mutagenesis and for mutational avoidance
    • Friedberg, E.C., Feaver, W.J. and Gerlach, V.L. (2000) The many faces of DNA polymerases: Strategies for mutagenesis and for mutational avoidance. Proc. Natl Acad. Sci. USA, 97, 5681-5683.
    • (2000) Proc. Natl Acad. Sci. USA , vol.97 , pp. 5681-5683
    • Friedberg, E.C.1    Feaver, W.J.2    Gerlach, V.L.3
  • 27
    • 0037205001 scopus 로고    scopus 로고
    • Specialized DNA polymerases, cellular survival, and the genesis of mutations
    • Friedberg, E.C., Wagner, R. and Radman, M. (2002) Specialized DNA polymerases, cellular survival, and the genesis of mutations. Science 296, 1627-1630.
    • (2002) Science , vol.296 , pp. 1627-1630
    • Friedberg, E.C.1    Wagner, R.2    Radman, M.3
  • 28
    • 0035902615 scopus 로고    scopus 로고
    • Managing DNA polymerases: Coordinating DNA replication, DNA repair, and DNA recombination
    • Sutton, M.D. and Walker, G.C. (2001) Managing DNA polymerases: coordinating DNA replication, DNA repair, and DNA recombination. Proc. Natl Acad. Sci. USA, 98, 8342-8349.
    • (2001) Proc. Natl Acad. Sci. USA , vol.98 , pp. 8342-8349
    • Sutton, M.D.1    Walker, G.C.2
  • 29
    • 24944543952 scopus 로고    scopus 로고
    • A sliding-clamp toolbelt binds high- and low-fidelity DNA polymerases simultaneously
    • Indiani, C., McInerney, P., Georgescu, R., Goodman, M.F. and O'Donnell, M. (2005) A sliding-clamp toolbelt binds high- and low-fidelity DNA polymerases simultaneously. Mol. Cell, 19, 805-815.
    • (2005) Mol. Cell , vol.19 , pp. 805-815
    • Indiani, C.1    McInerney, P.2    Georgescu, R.3    Goodman, M.F.4    O'Donnell, M.5
  • 30
    • 9144264274 scopus 로고    scopus 로고
    • Defining the position of the switches between replicative and bypass DNA polymerases
    • Fujii, S. and Fuchs, R.P. (2004) Defining the position of the switches between replicative and bypass DNA polymerases. EMBO J., 23, 4342-4352.
    • (2004) EMBO J , vol.23 , pp. 4342-4352
    • Fujii, S.1    Fuchs, R.P.2
  • 31
    • 0842281648 scopus 로고    scopus 로고
    • Identification of specific amino acid residues in the E. coli beta processivity clamp involved in interactions with DNA polymerase III, UmuD and UmuD
    • Duzen, J.M., Walker, G.C. and Sutton, M.D. (2004) Identification of specific amino acid residues in the E. coli beta processivity clamp involved in interactions with DNA polymerase III, UmuD and UmuD'. DNA Repair, 3, 301-312.
    • (2004) DNA Repair , vol.3 , pp. 301-312
    • Duzen, J.M.1    Walker, G.C.2    Sutton, M.D.3
  • 32
    • 0034602163 scopus 로고    scopus 로고
    • The delta subunit of DNA polymerase III holoenzyme serves as a sliding clamp unloader in Escherichia coli
    • Leu, F.P., Hingorani, M.M., Turner, J. and O'Donnell, M. (2000) The delta subunit of DNA polymerase III holoenzyme serves as a sliding clamp unloader in Escherichia coli. J. Biol. Chem., 275, 34609-34618.
    • (2000) J. Biol. Chem , vol.275 , pp. 34609-34618
    • Leu, F.P.1    Hingorani, M.M.2    Turner, J.3    O'Donnell, M.4
  • 33
    • 0030070111 scopus 로고    scopus 로고
    • A molecular switch in a replication machine defined by an internal competition for protein rings
    • Naktinis, V., Turner, J. and O'Donnell, M. (1996) A molecular switch in a replication machine defined by an internal competition for protein rings. Cell, 84, 137-145.
    • (1996) Cell , vol.84 , pp. 137-145
    • Naktinis, V.1    Turner, J.2    O'Donnell, M.3
  • 34
    • 0028093437 scopus 로고
    • An explanation for lagging strand replication: Polymerase hopping among DNA sliding clamps
    • Stukenberg, P.T., Turner, J. and O'Donnell, M. (1994) An explanation for lagging strand replication: Polymerase hopping among DNA sliding clamps. Cell, 78, 877-887.
    • (1994) Cell , vol.78 , pp. 877-887
    • Stukenberg, P.T.1    Turner, J.2    O'Donnell, M.3
  • 35
    • 15944400711 scopus 로고    scopus 로고
    • Mutant forms of the Escherichia coli beta sliding clamp that distinguish between its roles in replication and DNA polymerase V-dependent translesion DNA synthesis
    • Sutton, M.D., Duzen, J.M. and Maul, R.W. (2005) Mutant forms of the Escherichia coli beta sliding clamp that distinguish between its roles in replication and DNA polymerase V-dependent translesion DNA synthesis. Mol. Microbiol., 55, 1751-1766.
    • (2005) Mol. Microbiol , vol.55 , pp. 1751-1766
    • Sutton, M.D.1    Duzen, J.M.2    Maul, R.W.3
  • 36
    • 0034423473 scopus 로고    scopus 로고
    • A novel assembly mechanism for the DNA polymerase III holoenzyme DnaX complex: Association of deltadelta' with DnaX(4) forms DnaX(3)deltadelta'
    • Pritchard, A.E., Dallmann, H.G., Glover, B.P. and McHenry, C.S. (2000) A novel assembly mechanism for the DNA polymerase III holoenzyme DnaX complex: Association of deltadelta' with DnaX(4) forms DnaX(3)deltadelta'. EMBO J., 19, 6536-6545.
    • (2000) EMBO J , vol.19 , pp. 6536-6545
    • Pritchard, A.E.1    Dallmann, H.G.2    Glover, B.P.3    McHenry, C.S.4
  • 38
    • 0033081486 scopus 로고    scopus 로고
    • The internal workings of a DNA polymerase clamp-loading machine
    • Turner, J., Hingorani, M.M., Kelman, Z. and O'Donnell, M. (1999) The internal workings of a DNA polymerase clamp-loading machine. EMBO J. 18, 771-783.
    • (1999) EMBO J , vol.18 , pp. 771-783
    • Turner, J.1    Hingorani, M.M.2    Kelman, Z.3    O'Donnell, M.4
  • 39
    • 0035943399 scopus 로고    scopus 로고
    • Mechanism of processivity clamp opening by the delta subunit wrench of the clamp loader complex of E. coli DNA polymerase III
    • Jeruzalmi, D., Yurieva, O., Zhao, Y., Young, M., Stewart, J., Hingorani, M., O'Donnell, M. and Kuriyan, J. (2001) Mechanism of processivity clamp opening by the delta subunit wrench of the clamp loader complex of E. coli DNA polymerase III. Cell, 106, 417-428.
    • (2001) Cell , vol.106 , pp. 417-428
    • Jeruzalmi, D.1    Yurieva, O.2    Zhao, Y.3    Young, M.4    Stewart, J.5    Hingorani, M.6    O'Donnell, M.7    Kuriyan, J.8
  • 40
    • 0029019805 scopus 로고
    • Assembly of a chromosomal replication machine: Two DNA polymerases, a clamp loader, and sliding clamps in one holoenzyme particle. II. Intermediate complex between the clamp loader and its clamp
    • Naktinis, V., Onrust, R., Fang, L. and O'Donnell, M. (1995) Assembly of a chromosomal replication machine: Two DNA polymerases, a clamp loader, and sliding clamps in one holoenzyme particle. II. Intermediate complex between the clamp loader and its clamp. J. Biol. Chem., 270, 13358-13365.
    • (1995) J. Biol. Chem , vol.270 , pp. 13358-13365
    • Naktinis, V.1    Onrust, R.2    Fang, L.3    O'Donnell, M.4
  • 41
    • 20444420519 scopus 로고    scopus 로고
    • A bipartite polymerase-processivity factor interaction: Only the internal beta binding site of the alpha subunit is required for processive replication by the DNA polymerase III holoenzyme
    • Dohrmann, P.R. and McHenry, C.S. (2005) A bipartite polymerase-processivity factor interaction: Only the internal beta binding site of the alpha subunit is required for processive replication by the DNA polymerase III holoenzyme. J. Mol. Biol., 350, 228-239.
    • (2005) J. Mol. Biol , vol.350 , pp. 228-239
    • Dohrmann, P.R.1    McHenry, C.S.2
  • 42
    • 0348134870 scopus 로고    scopus 로고
    • Competitive processivity-clamp usage by DNA polymerases during DNA replication and repair
    • Lopez de Saro, F.J., Georgescu, R.E., Goodman, M.F. and O'Donnell, M. (2003) Competitive processivity-clamp usage by DNA polymerases during DNA replication and repair. EMBO J., 22, 6408-6418.
    • (2003) EMBO J , vol.22 , pp. 6408-6418
    • Lopez de Saro, F.J.1    Georgescu, R.E.2    Goodman, M.F.3    O'Donnell, M.4
  • 43
    • 0000210315 scopus 로고    scopus 로고
    • Identification of the beta-binding domain of the alpha subunit of Escherichia coli polymerase III holoenzyme
    • Kim, D.R. and McHenry, C.S. (1996) Identification of the beta-binding domain of the alpha subunit of Escherichia coli polymerase III holoenzyme. J. Biol. Chem., 271, 20699-20704.
    • (1996) J. Biol. Chem , vol.271 , pp. 20699-20704
    • Kim, D.R.1    McHenry, C.S.2
  • 44
    • 0242389787 scopus 로고    scopus 로고
    • Structural basis for recruitment of translesion DNA polymerase Pol IV/DinB to the beta-clamp
    • Bunting, K.A., Roe, S.M. and Pearl, L.H. (2003) Structural basis for recruitment of translesion DNA polymerase Pol IV/DinB to the beta-clamp. EMBO J., 22, 5883-5892.
    • (2003) EMBO J , vol.22 , pp. 5883-5892
    • Bunting, K.A.1    Roe, S.M.2    Pearl, L.H.3
  • 45
    • 0029678248 scopus 로고    scopus 로고
    • Clamp loading, unloading and intrinsic stability of the PCNA, beta and gp45 sliding clamps of human, E. coli and T4 replicases
    • Yao, N., Turner, J., Kelman, Z., Stukenberg, P.T., Dean, F., Shechter, D., Pan, Z.Q., Hurwitz, J. and O'Donnell, M. (1996) Clamp loading, unloading and intrinsic stability of the PCNA, beta and gp45 sliding clamps of human, E. coli and T4 replicases. Genes Cells, 1, 101-113.
    • (1996) Genes Cells , vol.1 , pp. 101-113
    • Yao, N.1    Turner, J.2    Kelman, Z.3    Stukenberg, P.T.4    Dean, F.5    Shechter, D.6    Pan, Z.Q.7    Hurwitz, J.8    O'Donnell, M.9
  • 46
    • 0024364302 scopus 로고
    • Regulation of proliferating cell nuclear antigen during the cell cycle
    • Morris, G.F. and Mathews, M.B. (1989) Regulation of proliferating cell nuclear antigen during the cell cycle. J. Biol. Chem., 264, 13856-13864.
    • (1989) J. Biol. Chem , vol.264 , pp. 13856-13864
    • Morris, G.F.1    Mathews, M.B.2
  • 47
    • 0030746217 scopus 로고    scopus 로고
    • A complex consisting of human replication factor C p40, p37, and p36 subunits is a DNA-dependent ATPase and an intermediate in the assembly of the holoenzyme
    • Cai, J., Gibbs, E., Uhlmann, F., Phillips, B., Yao, N., O'Donnell, M. and Hurwitz, J. (1997) A complex consisting of human replication factor C p40, p37, and p36 subunits is a DNA-dependent ATPase and an intermediate in the assembly of the holoenzyme. J. Biol. Chem., 272, 18974-18981.
    • (1997) J. Biol. Chem , vol.272 , pp. 18974-18981
    • Cai, J.1    Gibbs, E.2    Uhlmann, F.3    Phillips, B.4    Yao, N.5    O'Donnell, M.6    Hurwitz, J.7


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.