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Volumn 23, Issue 16, 2002, Pages 1559-1576

pKa, MM, and QM studies of mechanisms of β-lactamases and penicillin-binding proteins: Acylation step

Author keywords

lactamases; Acylation step; Catalytic mechanism; Penicillin binding proteins

Indexed keywords

ACYLATION; CATALYSIS; COMPUTER SIMULATION; ENZYMES; MOLECULAR DYNAMICS; PROTONS; TITRATION;

EID: 0036882101     PISSN: 01928651     EISSN: None     Source Type: Journal    
DOI: 10.1002/jcc.10129     Document Type: Article
Times cited : (34)

References (72)
  • 3
    • 15444338960 scopus 로고    scopus 로고
    • and Arg-276 in extended-spectrum Toho-1 from E. coli TUH12191
    • There are several alternative positions for Arg-244 in class A/Mactamases, such as Arg-220 in NMC-A from E. cloacae (Swarén, P.; Maveyraud, L.; Raquet, X.; Cabantous, S.; Duez, C.; Pédelacq, J.D.; Mariotte-Boyer, S.; Mourey, L.; Labia, R.; Nicolas-Chanoine, M.H.; Nordmann, P.; Frère J.M.; Samama, J.P. J Biol Chem 1998, 273, 26714), and Arg-276 in extended-spectrum Toho-1 from E. coli TUH12191 (Ibuka, A.; Tagucbi, A.; Ishiguro, M.; Fushinobu, S.; Ishii, Y.; Kamitori, S.: Okuyama, K.; Yamaguchi, K.; Konno, M.; Matsuzawa, H. J Mol Biol 1999, 285, 2079). Each arginine places its side-chain guanidinium group approximately in the same location of the active site of these class A β-lactamases.
    • (1998) J Biol Chem , vol.273 , pp. 26714
    • Swarén, P.1    Maveyraud, L.2    Raquet, X.3    Cabantous, S.4    Duez, C.5    Pédelacq, J.D.6    Mariotte-Boyer, S.7    Mourey, L.8    Labia, R.9    Nicolas-Chanoine, M.H.10    Nordmann, P.11    Frère, J.M.12    Samama, J.P.13
  • 4
    • 0033525223 scopus 로고    scopus 로고
    • Each arginine places its side-chain guanidinium group approximately in the same location of the active site of these class A β-lactamases
    • There are several alternative positions for Arg-244 in class A/Mactamases, such as Arg-220 in NMC-A from E. cloacae (Swarén, P.; Maveyraud, L.; Raquet, X.; Cabantous, S.; Duez, C.; Pédelacq, J.D.; Mariotte-Boyer, S.; Mourey, L.; Labia, R.; Nicolas-Chanoine, M.H.; Nordmann, P.; Frère J.M.; Samama, J.P. J Biol Chem 1998, 273, 26714), and Arg-276 in extended-spectrum Toho-1 from E. coli TUH12191 (Ibuka, A.; Tagucbi, A.; Ishiguro, M.; Fushinobu, S.; Ishii, Y.; Kamitori, S.; Okuyama, K.; Yamaguchi, K.; Konno, M.; Matsuzawa, H. J Mol Biol 1999, 285, 2079). Each arginine places its side-chain guanidinium group approximately in the same location of the active site of these class A β-lactamases.
    • (1999) J Mol Biol , vol.285 , pp. 2079
    • Ibuka, A.1    Tagucbi, A.2    Ishiguro, M.3    Fushinobu, S.4    Ishii, Y.5    Kamitori, S.6    Okuyama, K.7    Yamaguchi, K.8    Konno, M.9    Matsuzawa, H.10
  • 38
    • 0034724334 scopus 로고    scopus 로고
    • We should mention one more mechanism, suggested by Atanasov, B.P.; Mustafi, D.; Makinen, M.W. Proc Natl Acad Sci USA 2000, 97, 3160. According to this computational work, the enzymatic catalysis of β-lactams by β-lactamases starts with the protonation of the β-lactam ring nitrogen. This mechanism was not considered in this work because it contradicts the vast bulk of experimental data, which include researches of primary and secondary solvent isotope effects, kinetic studies, and numerous mutagenesis experiments. Experimental evidence clearly established that the acylation step of enzymatic catalysis of β-lactams by β-lactamases is a general base but not acid catalyzed reaction.
    • (2000) Proc Natl Acad Sci USA , vol.97 , pp. 3160
    • Atanasov, B.P.1    Mustafi, D.2    Makinen, M.W.3
  • 61
    • 0004030275 scopus 로고
    • Blackie Academic & Professional: London
    • Page, M.I. The chemistry of β-Lactams; Blackie Academic & Professional: London, 1992; p. 351.
    • (1992) The chemistry of β-Lactams , pp. 351
    • Page, M.I.1
  • 63
    • 0029016182 scopus 로고
    • and references herein
    • Honig, B.; Nicholls, A. Science 1995, 268, 1144, and references herein.
    • (1995) Science , vol.268 , pp. 1144
    • Honig, B.1    Nicholls, A.2
  • 67
    • 0033793334 scopus 로고    scopus 로고
    • Ref. 56 suggests that Hmw class C PBPs, which clustered with class D β-lactamases, has a Tyr at this position. However, recently solved structures of class D β-lactamase (Paetzel, M.; Danel, F.; de Castro, L.; Mosimann, S.C.; Page, M.G.; Strynadka, N.C. Nat Struct Biol 2000, 7, 918; and Maveyraud, L.; Golemi, D.; Kotra, L.P.; Trader, S.; Vakulenko, S.; Mobashery, S.; Samama, J.P. Struct Fold Des 2000, 8, 1289) revealed that there is a serine at this position. The β-lactambinding domain of Hmw class C PBPs is homologous to the class D β-lactamases. It is logical to assume, based on sequence alignment, that Hmw class C PBPs have a serine residue at this position too. Therefore, it could be predicted with certainty that all five classes of PBPs would have a serine residue at the position corresponding to Tyr-159 in R61 (a member of the Lmw class B PBPs).
    • (2000) Nat Struct Biol , vol.7 , pp. 918
    • Paetzel, M.1    Danel, F.2    De Castro, L.3    Mosimann, S.C.4    Page, M.G.5    Strynadka, N.C.6
  • 68
    • 0034476988 scopus 로고    scopus 로고
    • Ref. 56 suggests that Hmw class C PBPs, which clustered with class D β-lactamases, has a Tyr at this position. However, recently solved structures of class D β-lactamase (Paetzel, M.; Danel, F.; de Castro, L.; Mosimann, S.C.; Page, M.G.; Strynadka, N.C. Nat Struct Biol 2000, 7, 918; and Maveyraud, L.; Golemi, D.; Kotra, L.P.; Trader, S.; Vakulenko, S.; Mobashery, S.; Samama, J.P. Struct Fold Des 2000, 8, 1289) revealed that there is a serine at this position. The β-lactambinding domain of Hmw class C PBPs is homologous to the class D β-lactamases. It is logical to assume, based on sequence alignment, that Hmw class C PBPs have a serine residue at this position too. Therefore, it could be predicted with certainty that all five classes of PBPs would have a serine residue at the position corresponding to Tyr-159 in R61 (a member of the Lmw class B PBPs).
    • (2000) Struct Fold Des , vol.8 , pp. 1289
    • Maveyraud, L.1    Golemi, D.2    Kotra, L.P.3    Trader, S.4    Vakulenko, S.5    Mobashery, S.6    Samama, J.P.7


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.