5NMI Membrane Protein date Apr 05, 2017
title Cytochrome Bc1 Bound To The Inhibitor Mjm170
authors N.J.Capper, S.V.Antonyuk, S.S.Hasnain
compound source
Molecule: Cytochrome B-C1 Complex Subunit 1, Mitochondrial
Chain: A, N
Synonym: Complex III Subunit 1,Core Protein I,Ubiquinol-Cyt Reductase Complex Core Protein 1;
 Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913
Organ: Heart

Molecule: Cytochrome B-C1 Complex Subunit 2, Mitochondrial
Chain: B, O
Synonym: Complex III Subunit 2,Core Protein II,Ubiquinol-Cy Reductase Complex Core Protein 2;
Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Cytochrome B
Chain: C, P
Synonym: Complex III Subunit 3,Complex III Subunit III,Cyto C1 Complex Subunit 3,Ubiquinol-Cytochrome-C Reductase Compl Cytochrome B Subunit;
Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Cytochrome C1, Heme Protein, Mitochondrial
Chain: D, Q
Synonym: Complex III Subunit 4,Complex III Subunit Iv,Cytoc Complex Subunit 4,Ubiquinol-Cytochrome-C Reductase Complex C1 Subunit,Cytochrome C-1;
Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Cytochrome B-C1 Complex Subunit Rieske, Mitochond
Chain: E, I, R, V
Synonym: Complex III Subunit 5,Cytochrome B-C1 Complex Subu Rieske Iron-Sulfur Protein,Risp,Ubiquinol-Cytochrome C Redu Iron-Sulfur Subunit;
Ec: 1.10.2.2
Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Cytochrome B-C1 Complex Subunit 7
Chain: F, S
Synonym: Complex III Subunit 7,Complex III Subunit Vii,Qp-C Ubiquinol-Cytochrome C Reductase Complex 14 Kda Protein;
Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913
Organ: Heart
Tissue: Heart

Molecule: Cytochrome B-C1 Complex Subunit 8
Chain: G, T
Synonym: Complex III Subunit 8,Complex III Subunit Viii,Ubi Cytochrome C Reductase Complex 9.5 Kda Protein,Ubiquinol-Cy Reductase Complex Ubiquinone-Binding Protein Qp-C;
Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Cytochrome B-C1 Complex Subunit 6, Mitochondrial
Chain: H, U
Synonym: Complex III Subunit 6,Complex III Subunit Viii,Cyt Non-Heme 11 Kda Protein,Mitochondrial Hinge Protein,Ubiquin Cytochrome C Reductase Complex 11 Kda Protein;
Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Cytochrome B-C1 Complex Subunit 9
Chain: J, W
Synonym: Complex III Subunit 9,Complex III Subunit X,Cytoch Non-Heme 7 Kda Protein,Ubiquinol-Cytochrome C Reductase Com Kda Protein;
Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Arg-Asn-Trp-Val-Pro-Thr-Ala-Gln-Leu-Trp-Gly-Ala-V Ala-Val-Gly-Leu-Val-Ser-Ala-Thr;
Chain: K, X
Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913
symmetry Space Group: P 65
R_factor 0.248 R_Free 0.268
crystal
cell
length a length b length c angle alpha angle beta angle gamma
129.477 129.477 720.294 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.50 Å
ligand CDL, FES, HEC, HEM, MJM, PEE enzyme Oxidoreductase E.C.1.10.2.2 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
C, P


E, V, I, R


H, U


J, W


K, X


N, A


O, B


Q, D


S, F


T, G


Primary referenceNew paradigms for understanding and step changes in treating active and chronic, persistent apicomplexan infections., McPhillie M, Zhou Y, El Bissati K, Dubey J, Lorenzi H, Capper M, Lukens AK, Hickman M, Muench S, Verma SK, Weber CR, Wheeler K, Gordon J, Sanders J, Moulton H, Wang K, Kim TK, He Y, Santos T, Woods S, Lee P, Donkin D, Kim E, Fraczek L, Lykins J, Esaa F, Alibana-Clouser F, Dovgin S, Weiss L, Brasseur G, Wirth D, Kent M, Hood L, Meunieur B, Roberts CW, Hasnain SS, Antonyuk SV, Fishwick C, McLeod R, Sci Rep. 2016 Jul 14;6:29179. doi: 10.1038/srep29179. PMID:27412848
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (666 Kb) [Save to disk]
  • Biological Unit Coordinates (5nmi.pdb1.gz) 648 Kb
  • LPC: Ligand-Protein Contacts for 5NMI
  • CSU: Contacts of Structural Units for 5NMI
  • Structure Factors (3967 Kb)
  • Retrieve 5NMI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5NMI from S2C, [Save to disk]
  • Re-refined 5nmi structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5NMI 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 5NMI
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5nmi_K] [5nmi_U] [5nmi_N] [5nmi_G] [5nmi_C] [5nmi_R] [5nmi_S] [5nmi_P] [5nmi_X] [5nmi_H] [5nmi_W] [5nmi_J] [5nmi_D] [5nmi_O] [5nmi_I] [5nmi_T] [5nmi_A] [5nmi_Q] [5nmi_F] [5nmi_B] [5nmi_E] [5nmi_V]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5NMI
  • Community annotation for 5NMI at PDBWiki (http://pdbwiki.org)

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