3L70

Cytochrome BC1 complex from chicken with trifloxystrobin bound


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.75 Å
  • R-Value Free: 0.297 
  • R-Value Work: 0.267 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Famoxadone and related inhibitors bind like methoxy acrylate inhibitors in the Qo site of the BC1 compl and fix the rieske iron-sulfur protein in a positio close to but distinct from that seen with stigmatellin and other "distal" Qo inhibitors.

Huang, L.Berry, E.A.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Mitochondrial ubiquinol-cytochrome-c reductase complex core protein i
A, N
446Gallus gallusMutation(s): 0 
EC: 1.10.2.2
Find proteins for D0VX31 (Gallus gallus)
Go to UniProtKB:  D0VX31
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Mitochondrial ubiquinol-cytochrome-c reductase complex core protein 2
B, O
441Gallus gallusMutation(s): 0 
EC: 1.10.2.2
Find proteins for D0VX29 (Gallus gallus)
Go to UniProtKB:  D0VX29
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Cytochrome b
C, P
380Gallus gallusMutation(s): 0 
Gene Names: MT-CYB (COB, CYTB, MTCYB)
Find proteins for P18946 (Gallus gallus)
Go to Gene View: MT-CYB
Go to UniProtKB:  P18946
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Mitochondrial cytochrome c1, heme protein
D, Q
241Gallus gallusMutation(s): 0 
EC: 1.10.2.2
Find proteins for D0VX26 (Gallus gallus)
Go to UniProtKB:  D0VX26
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
Cytochrome b-c1 complex subunit Rieske, mitochondrial
E, R
196Gallus gallusMutation(s): 0 
Gene Names: UQCRFS1
EC: 7.1.1.8
Find proteins for Q5ZLR5 (Gallus gallus)
Go to Gene View: UQCRFS1
Go to UniProtKB:  Q5ZLR5
Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
Mitochondrial ubiquinol-cytochrome c reductase 14 kda protein
F, S
110Gallus gallusMutation(s): 0 
Find proteins for D0VX30 (Gallus gallus)
Go to UniProtKB:  D0VX30
Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
Mitochondrial ubiquinol-cytochrome c reductase ubiquinone-binding protein qp-c
G, T
81Gallus gallusMutation(s): 0 
EC: 1.10.2.2
Find proteins for D0VX32 (Gallus gallus)
Go to UniProtKB:  D0VX32
Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
Mitochondrial ubiquinol-cytochrome c reductase 11 kda protein, complex iii subunit viii
H, U
77Gallus gallusMutation(s): 0 
Gene Names: UQCRH
Find proteins for D0VX28 (Gallus gallus)
Go to Gene View: UQCRH
Go to UniProtKB:  D0VX28
Entity ID: 9
MoleculeChainsSequence LengthOrganismDetails
Cytochrome b-c1 complex subunit Rieske, mitochondrial
I, V
47Gallus gallusMutation(s): 0 
Gene Names: UQCRFS1
EC: 7.1.1.8
Find proteins for Q5ZLR5 (Gallus gallus)
Go to Gene View: UQCRFS1
Go to UniProtKB:  Q5ZLR5
Entity ID: 10
MoleculeChainsSequence LengthOrganismDetails
Mitochondrial ubiquinol-cytochrome c reductase 7.2 kda protein
J, W
61Gallus gallusMutation(s): 0 
EC: 1.10.2.2
Find proteins for D0VX27 (Gallus gallus)
Go to UniProtKB:  D0VX27
Small Molecules
Ligands 9 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
JZV
Query on JZV

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Download CCD File 
C, P
methyl (2E)-(methoxyimino)(2-{[({(1Z)-1-[3-(trifluoromethyl)phenyl]ethylidene}amino)oxy]methyl}phenyl)ethanoate
C20 H19 F3 N2 O4
ONCZDRURRATYFI-KEEMFBDKSA-N
 Ligand Interaction
CDL
Query on CDL

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Download CCD File 
C, D, P, Q
CARDIOLIPIN
DIPHOSPHATIDYL GLYCEROL; BIS-(1,2-DIACYL-SN-GLYCERO-3-PHOSPHO)-1',3'-SN-GLYCEROL
C81 H156 O17 P2
XVTUQDWPJJBEHJ-KZCWQMDCSA-L
 Ligand Interaction
GOL
Query on GOL

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Download CCD File 
C, P
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
FES
Query on FES

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Download CCD File 
E, R
FE2/S2 (INORGANIC) CLUSTER
Fe2 S2
NIXDOXVAJZFRNF-UHFFFAOYSA-N
 Ligand Interaction
HEM
Query on HEM

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Download CCD File 
C, P
PROTOPORPHYRIN IX CONTAINING FE
HEME
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
 Ligand Interaction
HEC
Query on HEC

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Download CCD File 
D, Q
HEME C
C34 H34 Fe N4 O4
HXQIYSLZKNYNMH-LJNAALQVSA-N
 Ligand Interaction
UQ
Query on UQ

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Download CCD File 
C, P
Coenzyme Q10, (2Z,6E,10Z,14E,18E,22E,26Z)-isomer
C59 H90 O4
ACTIUHUUMQJHFO-RECDIHICSA-N
 Ligand Interaction
BOG
Query on BOG

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Download CCD File 
D, P, Q
B-OCTYLGLUCOSIDE
C14 H28 O6
HEGSGKPQLMEBJL-RKQHYHRCSA-N
 Ligand Interaction
PEE
Query on PEE

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Download CCD File 
A, C, E, N, P, R
1,2-Dioleoyl-sn-glycero-3-phosphoethanolamine
DOPE
C41 H83 N O8 P
LVNGJLRDBYCPGB-LDLOPFEMSA-O
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
UNK
Query on UNK
I, V
L-PEPTIDE LINKINGC4 H9 N O2

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Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.75 Å
  • R-Value Free: 0.297 
  • R-Value Work: 0.267 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 169.614α = 90.00
b = 181.993β = 90.00
c = 240.540γ = 90.00
Software Package:
Software NamePurpose
Blu-Icedata collection
SCALEPACKdata scaling
CNSrefinement
DENZOdata reduction
CNSphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2009-12-27 
  • Released Date: 2010-02-02 
  • Deposition Author(s): Huang, L., Berry, E.A.

Revision History 

  • Version 1.0: 2010-02-02
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2014-10-29
    Type: Non-polymer description
  • Version 1.3: 2017-11-01
    Type: Refinement description