Insights into the substrate specificity of a thioesterase rv0098 of mycobacterium tuberculosis through x-ray crystallographic and molecular dynamics studies

Journal of Biomolecular Structure and Dynamics

Volumn 29, Issue 5, 2012, Pages 973-983

  Maity, Koustav ^a   Bajaj, Preeti ^a   Surolia, Namita ^b   Surolia, Avadhesha ^a,c   Suguna, Kaza ^a  

^a INDIAN INSTITUTE OF SCIENCE   (India)

^b JAWAHARLAL NEHRU CENTRE FOR ADVANCED SCIENTIFIC RESEARCH   (India)

^c NATIONAL INSTITUTE OF IMMUNOLOGY   (India)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL ENZYME; GLUTAMIC ACID; LONG CHAIN FATTY ACID; SERINE; THIOL ESTER HYDROLASE; THREONINE; VALINE;

ALPHA HELIX; AMINO TERMINAL SEQUENCE; ARTICLE; BETA SHEET; CONTROLLED STUDY; DIMERIZATION; ENZYME MECHANISM; ENZYME SPECIFICITY; ENZYME SUBSTRATE COMPLEX; LIGAND BINDING; MOLECULAR DYNAMICS; MYCOBACTERIUM TUBERCULOSIS; NONHUMAN; PRIORITY JOURNAL; PROTEIN EXPRESSION; PROTEIN LOCALIZATION; PROTEIN TRANSPORT; RESIDUE ANALYSIS; STRUCTURAL HOMOLOGY; STRUCTURE ANALYSIS; X RAY CRYSTALLOGRAPHY; X RAY DIFFRACTION;

MYCOBACTERIUM TUBERCULOSIS;

EID: 84859369214     PISSN: 07391102     EISSN: 15380254     Source Type: Journal    
DOI: 10.1080/07391102.2012.10507417     Document Type: Article

References (39)

1. Lederer, E., Adam, A., Ciorbaru, R., Petit, J. F., and Wietzerbin, J., 1975. Mol Cell Biochem, 7:87–104.
2. McNeil, M., Daffe, M., and Brennan, P. J., 1991. J Biol Chem, 266:13217–13223.
3. Noll, H., and Bloch, H., 1955. J Biol Chem, 214:251–265.
4. Noll, H., Bloch, H., Asselineau, J., and Lederer, E., 1956. Biochim Biophys Acta, 20:299–309.
5. Asselineau, J., and Lederer, E., 1950. Nature, 166:782–783.
6. Bloch, K., 1977. Adv Enzymol Relat Areas Mol Biol, 45:1–84.
7. Kinsella, R. J., Fitzpatrick, D. A., Creevey, C. J., and McInerney, J. O., 2003. Proc Natl Acad Sci U S A, 100:10320–10325.
8. Kass, L. R., and Bloch, K., 1967. Proc Natl Acad Sci U S A, 58:1168–1173.
9. Kass, L. R., Brock, D. J., and Bloch, K., 1967. J Biol Chem, 242:4418–4431.
10. Brock, D. J., Kass, L. R., and Bloch, K., 1967. J Biol Chem, 242:4432–4440.
11. Heath, R. J., and Rock, C. O., 1996. J Biol Chem, 271:27795–27801.
12. Barry, C. E., Lee, R. E., Mdluli, K., Sampson, A. E., Schroeder, B. G., Slayden, R. A., and Yuan, Y., 1998. Prog Lipid Res, 37:143–179.
13. Cole, S. T., Brosch, R., Parkhill, J., Garnier, T., Churcher, C., Harris, D., Gordon, S. V., Eiglmeier, K., Gas, S., Barry, C. E., Tekaia, F., Badcock, K., Basham, D., Brown, D., Chillingworth, T., Connor, R., Davies, R., Devlin, K., Feltwell, T., Gentles, S., Hamlin, N., Holroyd, S., Hornsby, T., Jagels, K., Krogh, A., McLean, J., Moule, S., Murphy, L., Oliver, K., Osborne, J., Quail, M. A., Rajandream, M. A., Rogers, J., Rutter, S., Seeger, K., Skelton, J., Squares, R., Squares, S., Sulston, J. E., Taylor, K., Whitehead, S., and Barrell, B. G., 1998. Nature, 393:537–544.
14. Takayama, K., Wang, C., and Besra, G. S., 2005. Clin Microbiol Rev, 18:81–101.
15. Sassetti, C. M., and Rubin, E. J., 2003. Proc Natl Acad Sci U S A, 100:12989–12994.
16. Sharma, S. K., Kapoor, M., Ramya, T. N., Kumar, S., Kumar, G., Modak, R., Sharma, S., Surolia, N., and Surolia, A., 2003. J Biol Chem, 278:45661–45671.
17. Swarnamukhi, P. L., Sharma, S. K., Bajaj, P., Surolia, N., Surolia, A., and Suguna, K., 2006. FEBS Lett, 580:2653–2660.
18. Wang, F., Langley, R., Gulten, G., Wang, L., and Sacchettini, J. C., 2007. Chem Biol, 14:543–551.
19. Leslie, A. G. W., 1992. Jnt CCP4/ESF-EACMB Newslett Protein Crystallogr, 26
20. Collaborative Computational Project. 1994. Acta Crystallogr D Biol Crystallogr, 50:760–763. Number 4
21. Storoni, L. C., McCoy, A. J., and Read, R. J., 2004. Acta Crystallogr D Biol Crystallogr, 60:432–438.
22. Murshudov, G. N., Vagin, A. A., and Dodson, E. J., 1997. Acta Crystallogr D Biol Crystallogr, 53:240–255.
23. Emsley, P., Lohkamp, B., Scott, W. G., and Cowtan, K., 2010. Acta Crystallogr D Biol Crystallogr, 66:486–501.
24. Hess, B., Kutzner, C., van der Spoel, D., and Lindahl, E., 2008. Journal of Chemical Theory and Computation, 4:435–447.
25. Jorgensen, W. L., Maxwell, D. S., and Tirado-Rives, J., 1996. J Am Chem Soc, 118:11225–11236.
26. Darden, T., York, D., and Pedersen, L., 1993. The Journal of Chemical Physics, 98:10089–10092.
27. Hess, B., Bekker, H., Berendsen, H. J. C., and Fraaije, J. G.E. M., 1997. J Comp Chem, 18:1463–1472.
28. Cohen, G. E., 1997. Journal of Applied Crystallography, 30:1160–1161.
29. Leesong, M., Henderson, B. S., Gillig, J. R., Schwab, J. M., and Smith, J. L., 1996. Structure, 4:253–264.
30. Dillon, S. C., and Bateman, A., 2004. BMC Bioinformatics, 5:109
31. Pidugu, L. S., Maity, K., Ramaswamy, K., Surolia, N., and Suguna, K., 2009. BMC Struct Biol, 9:37
32. Scarsdale, J. N., Kazanina, G., He, X., Reynolds, K. A., and Wright, H. T., 2001. J Biol Chem, 276:20516–20522.
33. Pasquato, N., Berni, R., Folli, C., Folloni, S., Cianci, M., Pantano, S., Helliwell, J. R., and Zanotti, G., 2006. J Mol Biol, 356:684–694.
34. Read, R. J., 1986. Acta Crystallogr A, 42:140–149.
35. Brunger, A. T., Adams, P. D., Clore, G. M., DeLano, W. L., Gros, P., Grosse-Kunstleve, R. W., Jiang, J. S., Kuszewski, J., Nilges, M., Pannu, N. S., Read, R. J., Rice, L. M., Simonson, T., and Warren, G. L., 1998. Acta Crystallogr D Biol Crystallogr, 54:905–921.
36. Kirkby, B., Roman, N., Kobe, B., Kellie, S., and Forwood, J. K., 2010. Prog Lipid Res, 49:366–377.
37. Li, J., Derewenda, U., Dauter, Z., Smith, S., and Derewenda, Z. S., 2000. Nat Struct Biol, 7:555–559.
38. Kostrewa, D., Winkler, F. K., Folkers, G., Scapozza, L., and Perozzo, R., 2005. Protein Sci, 14:1570–1580.
39. Maity, K., Venkata, B. S., Kapoor, N., Surolia, N., Surolia, A., and Suguna, K., 2011. J Struct Biol, 176:238–249.