The lactamase engineering database: A critical survey of TEM sequences in public databases

BMC Genomics

Volumn 10, Issue , 2009, Pages 390-

  Thai, Quan K ^a   Bös, Fabian ^a   Pleiss, Jürgen ^a  

^a UNIVERSITY OF STUTTGART   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL PROTEIN; BETA LACTAMASE; BETA LACTAMASE TEM; UNCLASSIFIED DRUG;

ACINETOBACTER BAUMANNII; AMINO ACID SEQUENCE; ARTICLE; ENTEROCOCCUS GALLINARUM; ENZYME STRUCTURE; ESCHERICHIA COLI; EXPRESSION VECTOR; GENE EXPRESSION; GENE FUNCTION; GENE MUTATION; KLEBSIELLA PNEUMONIAE; LACTAMASE ENGINEERING DATABASE; MOLECULAR CLONING; NEISSERIA GONORRHOEAE; NONHUMAN; ONLINE SYSTEM; PROTEIN DATABASE; PROTEUS MIRABILIS; PROVIDENCIA STUARTII; PSEUDOMONAS AERUGINOSA; SALMONELLA TYPHIMURIUM; SEQUENCE ANALYSIS; SERRATIA MARCESCENS; SHIGELLA FLEXNERI; STREPTOCOCCUS PNEUMONIAE; VIBRIO CHOLERAE; AMINO ACID SUBSTITUTION; CHEMICAL STRUCTURE; GENETICS; MUTATION; PROTEIN TERTIARY STRUCTURE; SEQUENCE ALIGNMENT;

AMINO ACID SUBSTITUTION; BETA-LACTAMASES; DATABASES, PROTEIN; MODELS, MOLECULAR; MUTATION; PROTEIN STRUCTURE, TERTIARY; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS, PROTEIN;

EID: 70349567532     PISSN: None     EISSN: 14712164     Source Type: Journal    
DOI: 10.1186/1471-2164-10-390     Document Type: Article

References (21)

1. Ghuysen JM. Serine Beta-Lactamases and Penicillin-Binding Proteins. Annual Review of Microbiology 1991, 45:37-67. 10.1146/annurev.mi.45.100191.000345, 1741619.
2. Medeiros AA. Beta-lactamases. Br Med Bull 1984, 40(1):18-27.
3. Ambler RP. The structure of beta-lactamases. Philos Trans R Soc Lond B Biol Sci 1980, 289(1036):321-331. 10.1098/rstb.1980.0049, 6109327.
4. Paterson DL, Hujer KM, Hujer AM, Yeiser B, Bonomo MD, Rice LB, Bonomo RA. Extended-spectrum beta-lactamases in Klebsiella pneumoniae bloodstream isolates from seven countries: dominance and widespread prevalence of SHV- and CTX-M-type beta-lactamases. Antimicrob Agents Chemother 2003, 47(11):3554-3560. 10.1128/AAC.47.11.3554-3560.2003, 253771, 14576117.
5. Paterson DL, Bonomo RA. Extended-spectrum beta-lactamases: a clinical update. Clin Microbiol Rev 2005, 18(4):657-686. 10.1128/CMR.18.4.657-686.2005, 1265908, 16223952.
6. Bush K, Jacoby G. Nomenclature of TEM beta-lactamases. J Antimicrob Chemother 1997, 39(1):1-3. 10.1093/jac/39.1.1, 9044020.
7. Datta N, Kontomichalou P. Penicillinase synthesis controlled by infectious R factors in Enterobacteriaceae. Nature 1965, 208(5007):239-241. 10.1038/208239a0, 5326330.
8. Samaha-Kfoury JN, Araj GF. Recent developments in beta lactamases and extended spectrum beta lactamases. Bmj 2003, 327(7425):1209-1213. 10.1136/bmj.327.7425.1209, 274061, 14630759.
9. Jacoby G, Bush K. TEM Extended-Spectrum and Inhibitor Resistant β-Lactamases. , http://www.lahey.org/Studies/temtable.asp
10. Ambler RP, Coulson AF, Frere JM, Ghuysen JM, Joris B, Forsman M, Levesque RC, Tiraby G, Waley SG. A standard numbering scheme for the class A beta-lactamases. Biochem J 1991, 276(Pt 1):269-270. 1151176, 2039479.
11. Fischer M, Thai QK, Grieb M, Pleiss J. DWARF - a data warehouse system for analyzing protein families. BMC Bioinformatics 2006, 7:495. 10.1186/1471-2105-7-495, 1647292, 17094801.
12. Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 1997, 25(17):3389-3402. 10.1093/nar/25.17.3389, 146917, 9254694.
13. Schwede T, Diemand A, Guex N, Peitsch MC. Protein structure computing in the genomic era. Res Microbiol 2000, 151(2):107-112. 10.1016/S0923-2508(00)00121-2, 10865955.
14. Thompson JD, Higgins DG, Gibson TJ. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 1994, 22(22):4673-4680. 10.1093/nar/22.22.4673, 308517, 7984417.
15. Kabsch W, Sander C. Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features. Biopolymers 1983, 22(12):2577-2637. 10.1002/bip.360221211, 6667333.
16. Morris D, O'Hare C, Glennon M, Maher M, Corbett-Feeney G, Cormican M. Extended-spectrum beta-lactamases in Ireland, including a novel enzyme, TEM-102. Antimicrob Agents Chemother 2003, 47(8):2572-2578. 10.1128/AAC.47.8.2572-2578.2003, 166109, 12878521.
17. Benson DA, Karsch-Mizrachi I, Lipman DJ, Ostell J, Wheeler DL. GenBank. Nucleic Acids Res 2008, (36 Database):D25-30. 2238942, 18073190.
18. Huang WZ, Petrosino J, Hirsch M, Shenkin PS, Palzkill T. Amino acid sequence determinants of beta-lactamase structure and activity. Journal of Molecular Biology 1996, 258(4):688-703. 10.1006/jmbi.1996.0279, 8637002.
19. Lenfant F, Labia R, Masson JM. Replacement of lysine 234 affects transition state stabilization in the active site of beta-lactamase TEM1. J Biol Chem 1991, 266(26):17187-17194.
20. Ding YF, Zhang JH, Mi ZH, Qin L, Tao YZ, Qi X. [Study on the molecular epidemiology of beta-lactamase TEM gene in isolated Streptococcus pneumoniae.]. Zhonghua Liu Xing Bing Xue Za Zhi 2004, 25(11):970-972.
21. Koncan R, Valverde A, Morosini MI, Garcia-Castillo M, Canton R, Cornaglia G, Baquero F, del Campo R. Learning from mistakes: Taq polymerase contaminated with beta-lactamase sequences results in false emergence of Streptococcus pneumoniae containing TEM. J Antimicrob Chemother 2007, 60(3):702-703. 10.1093/jac/dkm239, 17597059.