3CF4

Structure of the CODH component of the M. barkeri ACDS complex

Structural Biology Knowledgebase: 3CF4 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.248
  • R-Value Work: 0.209

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3CF4

Classification: OXIDOREDUCTASE

Total Structure Weight: 110019.93

Macromolecule Entities
Molecule Chains Length Organism Details
Acetyl-CoA decarboxylase/synthase alpha subunit A 807 Methanosarcina barkeri EC#: 1.2.99.2 IUBMB
Gene Name(s): cdhA Mbar_A0204
Acetyl-CoA decarboxylase/synthase epsilon subunit G 170 Methanosarcina barkeri EC#: 1.2.99.2 IUBMB
Gene Name(s): cdhB Mbar_A0203

Small Molecules
Ligands 7 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
WCC
Query on WCC

A FE(3)-NI(1)-S(4) CLUSTER
C CLUSTER CUBANE (Synonym)
Fe3 Ni S4
SEEZYPKDPRYISB-KUBGLCDSAO
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SF4
Query on SF4

A IRON/SULFUR CLUSTER
Fe4 S4
LJBDFODJNLIPKO-VKOJMFJBAC
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PEG
Query on PEG

G DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A, G GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ACY
Query on ACY

A, G ACETIC ACID
C2 H4 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FE
Query on FE

A FE (III) ION
Fe
VTLYFUHAOXGGBS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CMO
Query on CMO

A CARBON MONOXIDE
C O
UGFAIRIUMAVXCW-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.248
  • R-Value Work: 0.209
  • Space Group: P 21 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 133.29 α = 90.00
b = 81.68 β = 90.00
c = 101.12 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-03-01
  • Released Date: 2008-07-22
  • Deposition author(s): Gong, W., Hao, B., Wei, Z., Ferguson Jr., D.J., Tallant, T., Krzycki, J.A., Chan, M.K.

Revision History

  • 2012-03-07
    Type: Atom nomenclature | Details: --
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update