other units of protein structure Motifs Domains EF hand coiled coil
Other units of protein structure Motifs Domains EF hand coiled coil
Sequence determines structure How? Secondary structure preferences satisfy h bonds Hydrophobic/polar patterning Steric complementarity Electrostatics Interactions are both LOCAL and NoNloCAL in sequence
Sequence determines structure. How? • Secondary structure preferences (satisfy H bonds) • Hydrophobic/polar patterning • Steric complementarity • Electrostatics Interactions are both LOCAL and NONLOCAL in sequence Energy X
Where do protein structures live? Www.rCsb. org/pdb DEPoSIT data PDB 8? DOWNLOAD files PROTEIN DATA BANK RCSB Contact Help browse LINKs BETA TEST new features Welcome to the PDB, the single worldwide repository for the processing BETA XML files and distribution of 3-d biological macromolecular structure data Did you find what you wanted? Current Holdings 24785 Structures Search the Archive PDB Mirrors Last Update: 23-Mar- 2004 PDB Statistics Enter a PDB ID or keyword Query Tutorial"Please bookmark a mior site" San Diego Supercomputer Center, UCSD C PDB ID C Authors F Full Text Search v match exact word remove similar sequences center for Aavanced Research in Biotechnoloqy, NisI Cambridge Crystallographic Data Centre, UK nLite keyword search form with examples National University of Singapore h Fields customizable search form Search find entries awaiting release Max Delbruck Center for Molecular Medicine, Germany OCA/ PDB Lite MORE News Nemslete ews subs d Archive RCSB partner Molecule of the Month: 23-Mar-2004 DB Focus: XML Data Files All released PDB entries In citing the PDB please ref are available in XML format from the PDB beta FTP site.M.Berman,J.Westbrook,. Feng,GGilland,TNBhat XML data files have been created by software translation Bank, Nucleic Acids Research, 28 pp 235-242(2000) University of Califomia, San Diego: and the enter for Advanced Research in Biotechnolog of the mmciF data files as part of the PDB Data Uniformity Project. IMORE.I
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24,785 structures now in the pdb Compare: SwissProt 146, 193, TrEMBL 1,070, 786 30000 a Deposited structures for the year D Total available structures 15000 10000 nnnnnnndl 1372173174175 1389190191192189319941995199619971981992000200120022003200 Year Last updated: 01-Mar-2004
24,785 structures now in the PDB! Compare: SwissProt 146,193, TrEMBL 1,070,786
Finding structures in the PDb Query Result Browser 出pDHm next to their id, If you do not select any structures, certain options will default to all structures, To examine an individual structure select the Explore checkbox Your query found 39 structures in the current PDB release and you have selected 0 structures so far. You can select specific structures by clicking on the Pull down to select option: New Search 14“1-20pp KEY: D=Download compressed (GNU zipped) PDB file I=View PDB file =Structure viewing options I1A9U EDE Deposited: 10-Apr-1998 Exp Method: X-ray Diffraction Resolution: 250A I EXPLORE The Complex Structure Of The Map Kinase P38/Sb203580 Classification Transferase Compound Mol_ ld: 1: Molecule: Map Kinase P38: Chain: Null: Synonym: Mitogen Activated Protein Kinase: Ec: 2.7. 1: Engineered: Yes: Mutation: 19 Residues Inserted At N-Terminus; Other_ Details: Sb203580 Pyridinylimidazole I1BL6 Es Deposited:1I-Jul-1998 X-ray Diffraction resolution: 250 A ( EXPLORE The Complex Structure Of The Map Kinase P38/Sb216995 Classification Transferase C Mol_ld: 1: Molecule: Map Kinase P38: Chain: A: Synonym: Mitogen Activated Protein k rted AtN-Terminus GET MORE INFO 口1BL7 Eas Deposited: 23. Jul-1998 Exp. Method: X-ray Diffraction Resolution: 2.50 A DRE) The Complex Structure Of The Map Kinase P38/Sb220025 Classification Transferase Co Mol_ld: 1: Molecule: Map Kinase P38: Chain: A: Synonym: Mitogen Activated Protein Kinase; Engineered: Yes: Mutation: 19 Residues Inserted At N-Terminus 1BMK cEE Deposited: 23-Jul-1998 Exp Method x-ray Diffraction Fesoluifh: 2.40 A (EXPLORE) The Complex structure Of The map kin Classification、 Transferase Compound Mol_ Id: 1: Molecule: Map Kinase P38: Chain: A: Synony Mitogen Activated Protein Kinase: red: Yes: Mutation: 19 Residues Inserted AtN-Terminus. Other Details. Sh218655 Pvricinvlimidaze THE PDB CODE THE TECHNIQUE THE RESOLUTION
Finding structures in the PDB GET MORE INFO THE PDB CODE THE TECHNIQUE THE RESOLUTION