3UQY

H2-reduced structure of E. coli hydrogenase-1

Structural Biology Knowledgebase: 3UQY SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.47 Å
  • R-Value Free: 0.160
  • R-Value Work: 0.122

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3UQY

Classification: OXIDOREDUCTASE

Total Structure Weight: 207368.73

Macromolecule Entities
Molecule Chains Length Organism Details
Hydrogenase-1 small chain S, T 335 Escherichia coli EC#: 1.12.99.6 IUBMB
Gene Name(s): hyaA b0972 JW0954
Hydrogenase-1 large chain L, M 582 Escherichia coli EC#: 1.12.99.6 IUBMB
Gene Name(s): hyaB b0973 JW0955

Membrane Protein

Source: mpstruc | Group: ALPHA-HELICAL

Subgroup Name: Oxidoreductases

Protein Name: O2-tolerant Hydrogenase-1 in complex with cytochrome b


Small Molecules
Ligands 10 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
CL
Query on CL

L, M, S, T CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer
 
JSmol
F3S
Query on F3S

S, T FE3-S4 CLUSTER
Fe3 S4
FCXHZBQOKRZXKS-MZMDZPPWAW
Ligand Explorer
 
JSmol
F4S
Query on F4S

S, T FE4-S3 CLUSTER
T-CLUSTER (Synonym)
Fe4 S3
QQACTBFBZNWJMV-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
FCO
Query on FCO

L, M CARBONMONOXIDE-(DICYANO) IRON
C3 Fe N2 O
VBQUCMTXYFMTTE-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
GOL
Query on GOL

L GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
LMT
Query on LMT

S, T DODECYL-BETA-D-MALTOSIDE
C24 H46 O11
NLEBIOOXCVAHBD-QKMCSOCLSA-N
Ligand Explorer
 
JSmol
MG
Query on MG

L, M MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
NI
Query on NI

L, M NICKEL (II) ION
Ni
VEQPNABPJHWNSG-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
SF4
Query on SF4

S, T IRON/SULFUR CLUSTER
Fe4 S4
LJBDFODJNLIPKO-VKOJMFJBAC
Ligand Explorer
 
JSmol
SO4
Query on SO4

L, S, T SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
JSmol

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.47 Å
  • R-Value Free: 0.160
  • R-Value Work: 0.122
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 93.71 α = 90.00
b = 97.40 β = 90.00
c = 183.73 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-11-21
  • Released Date: 2012-03-28
  • Deposition author(s): Volbeda, A., Fontecilla-Camps, J.C., Darnault, C.

Revision History

  • 2012-04-18
    Type: Citation | Details: Citation update