3SX6

Crystal structure of sulfide:quinone oxidoreductase Cys356Ala variant from Acidithiobacillus ferrooxidans complexed with decylubiquinone

Structural Biology Knowledgebase: 3SX6 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.220
  • R-Value Work: 0.179

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3SX6

Classification: OXIDOREDUCTASE

Total Structure Weight: 49681.39

Macromolecule Entities
Molecule Chains Length Organism Details
Sulfide-quinone reductase, putative A 437 Acidithiobacillus ferrooxidans EC#: 1.8.5.4 IUBMB
Mutation: C356A
Gene Name(s): AFE_1792

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

A FLAVIN-ADENINE DINUCLEOTIDE
C27 H33 N9 O15 P2
VWWQXMAJTJZDQX-UYBVJOGSSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
LMT
Query on LMT

A DODECYL-BETA-D-MALTOSIDE
C24 H46 O11
NLEBIOOXCVAHBD-QKMCSOCLSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
DCQ
Query on DCQ

A 2-decyl-5,6-dimethoxy-3-methylcyclohexa-2,5- diene-1,4-dione
decylubiquinone (Synonym)
C19 H30 O4
VMEGFMNVSYVVOM-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
H2S
Query on H2S

A HYDROSULFURIC ACID
HYDROGEN SULFIDE (Synonym)
H2 S
RWSOTUBLDIXVET-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.220
  • R-Value Work: 0.179
  • Space Group: P 62 2 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 149.83 α = 90.00
b = 149.83 β = 90.00
c = 81.51 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-07-14
  • Released Date: 2012-05-16
  • Deposition author(s): Cherney, M.M., Zhang, Y., James, M.N.G., Weiner, J.H.

Revision History

  • 2012-06-13
    Type: Citation | Details: Citation update