3S33

Structure of Thermus thermophilus cytochrome ba3 oxidase 10s after Xe depressurization


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.45 Å
  • R-Value Free: 0.350
  • R-Value Work: 0.305

Literature

Macromolecules
Sequence Display for 3S33

Classification: OXIDOREDUCTASE

Total Structure Weight: 87775.92

Macromolecule Entities
Molecule Chains Length Organism Details
Cytochrome c oxidase subunit 1 A 568 Thermus thermophilus EC#: 1.9.3.1 IUBMB
Gene Name(s): cbaA TTHA1135
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Cytochrome c oxidase subunit 2 B 166 Thermus thermophilus EC#: 1.9.3.1 IUBMB
Gene Name(s): cbaB ctaC TTHA1134
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Cytochrome c oxidase polypeptide 2A C 33 Thermus thermophilus EC#: 1.9.3.1 IUBMB
Gene Name(s): cbaD TTHA1133
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Membrane Protein

Source: inferred by homology | Group: ALPHA-HELICAL

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

Protein Name: Cytochrome ba3


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

A HEME-AS
C54 H64 Fe N4 O6
PDYODZVCODUKFH-QIHJKJTBDH
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
HEM
Query on HEM

A PROTOPORPHYRIN IX CONTAINING FE
HEME (Synonym)
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
XE
Query on XE

A XENON
Xe
FHNFHKCVQCLJFQ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CUA
Query on CUA

B DINUCLEAR COPPER ION
Cu2
ALKZAGKDWUSJED-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CU
Query on CU

A COPPER (II) ION
Cu
JPVYNHNXODAKFH-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.45 Å
  • R-Value Free: 0.350
  • R-Value Work: 0.305
  • Space Group: P 43 21 2

Unit Cell:

Length (Å) Angle (°)
a = 108.25 α = 90.00
b = 108.25 β = 90.00
c = 162.64 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-05-17
  • Released Date: 2012-05-23
  • Deposition author(s): Luna, V.M., Fee, J.A., Deniz, A.A., Stout, C.D.

Revision History

  • 2012-05-30
    Type: Database references
  • 2012-09-12
    Type: Database references