1NTK Crystal Structure of Mitochondrial Cytochrome bc1 in Complex with Antimycin A1 date
authors Gao, X., Wen, X., Esser, L., Quinn, B., Yu, L., Yu, C.A., Xia, D.
compound source
symmetry
R_factor
R_Free 0.27049
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.60
ligand AY1, FES, HEM enzyme
related structures by homologous chain: 1NTM, 1NTZ
Gene
Ontology
ChainFunctionProcessComponent
A


B


C


D


E


F


G


H


I


J


K
  • ubiquinol-cytochrome-c reduc...


    • Primary referenceStructural basis for the quinone reduction in the bc1 complex: a comparative analysis of crystal structures of mitochondrial cytochrome bc1 with bound substrate and inhibitors at the Qi site., Gao X, Wen X, Esser L, Quinn B, Yu L, Yu CA, Xia D, Biochemistry 2003 Aug 5;42(30):9067-80. PMID:12885240
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (358 Kb) [Save to disk]
  • Biological Unit Coordinates (1ntk.pdb1.gz) 682 Kb
  • LPC: Ligand-Protein Contacts for 1NTK
  • CSU: Contacts of Structural Units for 1NTK
  • Likely Quarternary Molecular Structure file(s) for 1NTK
  • Retrieve 1NTK in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1NTK from S2C, [Save to disk]
    • View 1NTK 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 1NTK
  • 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 1NTK, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1ntka1, region A:1-233 [Jmol] [rasmolscript] [script source]
        - Domain d1ntka2, region A:234-446 [Jmol] [rasmolscript] [script source]
        - Domain d1ntkb1, region B:17-235 [Jmol] [rasmolscript] [script source]
        - Domain d1ntkb2, region B:236-439 [Jmol] [rasmolscript] [script source]
        - Domain d1ntkc2, region C:2-260 [Jmol] [rasmolscript] [script source]
        - Domain d1ntkc1, region C:261-379 [Jmol] [rasmolscript] [script source]
        - Domain d1ntkd1, region D:1-195 [Jmol] [rasmolscript] [script source]
        - Domain d1ntkd2, region D:196-241 [Jmol] [rasmolscript] [script source]
        - Domain d1ntke2, region E:1-69 [Jmol] [rasmolscript] [script source]
        - Domain d1ntke1, region E:70-196 [Jmol] [rasmolscript] [script source]
        - Domain d1ntkf_, region F [Jmol] [rasmolscript] [script source]
        - Domain d1ntkg_, region G [Jmol] [rasmolscript] [script source]
        - Domain d1ntkh_, region H [Jmol] [rasmolscript] [script source]
        - Domain d1ntki_, region I [Jmol] [rasmolscript] [script source]
        - Domain d1ntkj_, region J [Jmol] [rasmolscript] [script source]
        - Domain d1ntkk_, region K [Jmol] [rasmolscript] [script source]
  • Fold representative 1ntk 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: [1ntk_G] [1ntk_I] [1ntk_A] [1ntk_J] [1ntk_B] [1ntk_F] [1ntk_K] [1ntk] [1ntk_H] [1ntk_E] [1ntk_D] [1ntk_C]
  • SWISS-PROT database: [P00125] [P00157] [P07552] [P31800] [P23004] [P00126] [P00129] [P13271] [P00130] [P13272]
  • Belongs to the proton-translocating quinol:cytochrome c reductase (qcr) superfamily according to TCDB.
  • Domain organization of [CY1_BOVIN] [CYB_BOVIN] [QCR10_BOVIN] [QCR1_BOVIN] [QCR2_BOVIN] [QCR6_BOVIN] [QCR7_BOVIN] [QCR8_BOVIN] [QCR9_BOVIN] [UCRI_BOVIN] by SWISSPFAM
    • Other resources with information on 1NTK
  • Community annotation for 1NTK 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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