1P84 HDBT inhibited Yeast Cytochrome bc1 Complex date
authors Palsdottir, H., Lojero, C.G., Trumpower, B.L., Hunte, C.
compound source
symmetry
R_factor
R_Free 0.252
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.50
ligand 3PE, 3PH, CDL, DBT, FES, HEC, PC1, UMQ, UQ6 enzyme
related structures by homologous chain: 1EZV, 1KCS, 1KYO, 1NMC
Gene
Ontology
ChainFunctionProcessComponent
A
  • ubiquinol-cytochrome-c reduc...


    • B


    C


    D


    E


    F


    G


    H


    I


    Primary referenceStructure of the yeast cytochrome bc1 complex with a hydroxyquinone anion Qo site inhibitor bound., Palsdottir H, Lojero CG, Trumpower BL, Hunte C, J Biol Chem 2003 Aug 15;278(33):31303-11. Epub 2003 Jun 2. PMID:12782631
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (379 Kb) [Save to disk]
  • Biological Unit Coordinates (1p84.pdb1.gz) 642 Kb
  • Biological Unit Coordinates (1p84.pdb2.gz) 45 Kb
  • LPC: Ligand-Protein Contacts for 1P84
  • CSU: Contacts of Structural Units for 1P84
  • Likely Quarternary Molecular Structure file(s) for 1P84
  • Retrieve 1P84 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1P84 from S2C, [Save to disk]
    • View 1P84 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
    • Visual 3D analysis of 1P84
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1P84, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1p84a2, region A:240-457 [Jmol] [rasmolscript] [script source]
        - Domain d1p84a1, region A:27-239 [Jmol] [rasmolscript] [script source]
        - Domain d1p84b1, region B:17-218 [Jmol] [rasmolscript] [script source]
        - Domain d1p84b2, region B:219-368 [Jmol] [rasmolscript] [script source]
        - Domain d1p84c2, region C:1-261 [Jmol] [rasmolscript] [script source]
        - Domain d1p84c1, region C:262-385 [Jmol] [rasmolscript] [script source]
        - Domain d1p84d2, region D:261-307 [Jmol] [rasmolscript] [script source]
        - Domain d1p84d1, region D:62-260 [Jmol] [rasmolscript] [script source]
        - Domain d1p84e2, region E:31-86 [Jmol] [rasmolscript] [script source]
        - Domain d1p84e1, region E:87-215 [Jmol] [rasmolscript] [script source]
        - Domain d1p84f_, region F [Jmol] [rasmolscript] [script source]
        - Domain d1p84g_, region G [Jmol] [rasmolscript] [script source]
        - Domain d1p84h_, region H [Jmol] [rasmolscript] [script source]
        - Domain d1p84i_, region I [Jmol] [rasmolscript] [script source]
        - Domain d1p84j_, region J [Jmol] [rasmolscript] [script source]
        - Domain d1p84k_, region K [Jmol] [rasmolscript] [script source]
  • Fold representative 1p84 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1p84_B] [1p84_J] [1p84_F] [1p84_D] [1p84_C] [1p84_G] [1p84_H] [1p84_A] [1p84_K] [1p84_E] [1p84_I] [1p84]
  • SWISS-PROT database: [P07143] [P00163] [P07256] [P07257] [P00127] [P00128] [P08525] [P22289] [P08067]
  • Belongs to the proton-translocating quinol:cytochrome c reductase (qcr) superfamily according to TCDB.
  • Domain organization of [CY1_YEAST] [CYB_YEAST] [QCR1_YEAST] [QCR2_YEAST] [QCR6_YEAST] [QCR7_YEAST] [QCR8_YEAST] [QCR9_YEAST] [UCRI_YEAST] by SWISSPFAM
  • Domain found in 1P84: [IGv ] by SMART
    • Other resources with information on 1P84
  • Community annotation for 1P84 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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