Protein Data Bank Tutorial Matthew Lang 20.310Google search “protein Data Bank” www.rcsb.orgPDB structures… • http://www.rcsb.org/pdb/ • Viewers: Rasmol, Swiss-Pdb Viewer, • Find your favorite protein, save as a text file or save with a .pdb extensionCan search for structuresCrystal file .pdb reference code species Authors, look up the papers resolutionCoordinate information available x y z ATOM 1334 N CYS 168 31.690 17.042 22.831 1.00 24.35 N ATOM 1335 CA CYS 168 30.949 17.421 24.027 1.00 23.50 C ATOM 1336 C CYS 168 31.590 18.646 24.666 1.00 21.29 C ATOM 1337 O CYS 168 32.812 18.714 24.849 1.00 20.60 O ATOM 1338 CB CYS 168 30.878 16.279 25.047 1.00 18.87 C ATOM 1339 SG CYS 168 29.632 16.551 26.342 1.00 21.22 S CYS #168 You can do math (distances, angles etc.) directly with this Coordinate infoRibbon display, and many othersSwiss PDB viewer Many other viewers, Rasmol, VIPER (virus structures)MT binding to kinesin Turn on 3d rendering Highlight residues of interestAlign structures Compare
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