Conventions and workflows for using Situs

Acta Crystallographica Section D: Biological Crystallography

Volumn 68, Issue 4, 2012, Pages 344-351

  Wriggers, Willy ^a,b  

^a WEILL CORNELL MEDICAL COLLEGE   (United States)

^b D E SHAW RESEARCH   (United States)

Author keywords

multi resolution data Model building, refinement and validation; Situs

Indexed keywords

ARTICLE; CHEMICAL STRUCTURE; COMPUTER PROGRAM; X RAY CRYSTALLOGRAPHY;

CRYSTALLOGRAPHY, X-RAY; MODELS, MOLECULAR; SOFTWARE;

EID: 84860290256     PISSN: 09074449     EISSN: 13990047     Source Type: Journal    
DOI: 10.1107/S0907444911049791     Document Type: Article

References (32)

1. Alamo, L., Wriggers,W., Pinto, A., Bártoli, F., Salazar, L., Zhao, F.-Q., Craig, R. & Padrón, R. (2008). J. Mol. Biol. 384, 780-797.
2. Alvarado, D., Klein, D. E. & Lemmon, M. A. (2009). Nature (London), 461, 287-291.
3. Birmanns, S., Rusu, M. & Wriggers, W. (2011). J. Struct. Biol. 173, 428-435.
4. Birmanns, S. & Wriggers, W. (2007). J. Struct. Biol. 157, 271-280.
5. Chacón, P., Díaz, J. F., Morán, F. & Andreu, J. M. 2000). J. Mol. Biol. 299 1289-1302.
6. Chacón, P. & Wriggers, W. (2002). J. Mol. Biol. 317, 375-384.
7. Darst, S., Opalka, N., Chacón, P., Polyakov, A., Richter, C., Zhang, G. & Wriggers, W. (2002). Proc. Natl. Acad. Sci. USA, 99, 4296-4301.
8. Fagan, R. P., Albesa-Jové, D., Qazi, O., Svergun, D. I., Brown, K. A. & Fairweather, N. F. (2009). Mol. Microbiol. 71, 1308-1322.
9. Frank, J. (2006). Three-Dimensional Electron Microscopy of Macromolecular Assemblies. Oxford University Press.
10. Harpaz, Y., Gerstein, M. & Chothia, C. (1994). Structure, 2, 641-649.
11. Heymann, J. B., Chagoyen, M. & Belnap, D. M. (2005). J. Struct. Biol. 151, 196-207.
12. Humphrey, W. F., Dalke, A. & Schulten, K. (1996). J. Mol. Graph. 14, 33-38.
13. Kobe, B. & Deisenhofer, J. (1996). J. Mol. Biol. 264, 1028-1043.
14. Lindert, S., Stewart, P. L. & Meiler, J. (2009). Curr. Opin. Struct. Biol. 19, 218-225.
15. Lipfert, J., Das, R., Chu, V. B., Kudaravalli, M., Boyd, N., Herschlag, D. & Doniach, S. (2007). J. Mol. Biol. 365, 1393-1406.
16. Ludtke, S. J., Baldwin, P. R. & Chiu, W. (1999). J. Struct. Biol. 128, 82-97.
17. Mendelson, R. & Morris, E. P. (1997). Proc. Natl. Acad. Sci. USA, 94, 8533-8538.
18. Pettersen, E. F., Goddard, T. D., Huang, C. C., Couch, G. S., Greenblatt, D. M., Meng, E. C. & Ferrin, T. E. (2004). J. Comput. Chem. 25, 1605-1612.
19. Radermacher, M. (1988). J. Electron Microsc. Tech. 9, 359-394.
20. Rusu, M. & Birmanns, S. (2010). J. Struct. Biol. 170, 164-171.
21. Rusu, M., Birmanns, S. & Wriggers, W. (2008). Bioinformatics, 24, 2460-2466.
22. Stenkamp, R. E. & Jensen, L. H. (1984). Acta Cryst. A40, 251-254.
23. Tagari, M., Newman, R., Chagoyen, M., Carazo, J. M. & Henrick, K. (2002). Trends Biochem. Sci. 27, 589.
24. Wriggers, W. (2010). Biophys. Rev. 2, 21-27.
25. Wriggers,W., Alamo, L. & Padrón, R. (2011). J. Struct. Biol. 173, 445-450.
26. Wriggers, W. & Birmanns, S. (2001). J. Struct. Biol. 133, 193-202.
27. Wriggers, W. & Chacón, P. (2001a). Structure, 9, 779-788.
28. Wriggers, W. & Chacón, P. (2001b). J. Appl. Cryst. 34, 773-776.
29. Wriggers, W., Chacón, P., Kovacs, J., Tama, F. & Birmanns, S. (2004). Neurocomputing, 56, 365-379.
30. Wriggers, W., Milligan, R. A. & McCammon, J. A. (1999). J. Struct. Biol. 125, 185-195.
31. Wriggers, W., Milligan, R. A., Schulten, K. & McCammon, J. A. (1998). J. Mol. Biol. 284, 1247-1254.
32. Yu, X. & Egelman, E. H. (1997). Nature Struct. Biol. 4, 101-104.