1AR1

Structure at 2.7 Angstrom Resolution of the Paracoccus Denitrificans two-subunit Cytochrome C Oxidase Complexed with an Antibody Fv Fragment

Structural Biology Knowledgebase: 1AR1 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.261
  • R-Value Work: 0.207

Literature

Macromolecules
Sequence Display for 1AR1

Classification: COMPLEX (OXIDOREDUCTASE / ANTIBODY)

Total Structure Weight: 126662.48

Macromolecule Entities
Molecule Chains Length Organism Details
CYTOCHROME C OXIDASE A 558 Paracoccus denitrificans EC#: 1.9.3.1 IUBMB
Gene Name(s): ctaDII
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
CYTOCHROME C OXIDASE B 298 Paracoccus denitrificans EC#: 1.9.3.1 IUBMB
Gene Name(s): ctaC coiI ctaB
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
ANTIBODY FV FRAGMENT C 127 Mus musculus Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
ANTIBODY FV FRAGMENT D 120 Mus musculus Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Membrane Protein

Source: mpstruc | Group: ALPHA-HELICAL

Subgroup Name: Electron Transport Chain Complexes: Complex IV (Cytochrome C Oxidase)

Protein Name: Cytochrome C Oxidase, aa3


Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
HEA
Query on HEA

A HEME-A
C49 H56 Fe N4 O6
ZGGYGTCPXNDTRV-PRYGPKJJSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
LDA
Query on LDA

A, B LAURYL DIMETHYLAMINE-N-OXIDE
C14 H31 N O
SYELZBGXAIXKHU-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CU
Query on CU

A, B COPPER (II) ION
Cu
JPVYNHNXODAKFH-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

A CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.261
  • R-Value Work: 0.207
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 93.50 α = 90.00
b = 151.00 β = 90.00
c = 156.70 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1997-08-08
  • Released Date: 1998-02-11
  • Deposition author(s): Ostermeier, C., Harrenga, A., Ermler, U., Michel, H.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4