1HFE

1.6 A RESOLUTION STRUCTURE OF THE FE-ONLY HYDROGENASE FROM DESULFOVIBRIO DESULFURICANS

Structural Biology Knowledgebase: 1HFE SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.182
  • R-Value Work: 0.158

Literature

Macromolecules
Sequence Display for 1HFE

Classification: HYDROGENASE

Total Structure Weight: 122390.21

Macromolecule Entities
Molecule Chains Length Organism Details
PROTEIN (FE-ONLY HYDROGENASE (E.C.1.18.99.1) (SMALLER SUBUNIT)) S, T 123 Desulfovibrio vulgaris EC#: 1.12.7.2 IUBMB
Details: THE FE-ONLY HYDROGENASE FROM DESULFOVIBRIO DESULFURICANS HAS EXACTLY THE SAME SEQUENCE AS THE FE-ONLY HYDROGENASE FROM DESULFOVIBRIO VULGARIS (STRAIN HILDENBOROUGH)
Gene Name(s): hydB DVU_1770
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
PROTEIN (FE-ONLY HYDROGENASE (E.C.1.18.99.1) (LARGER SUBUNIT)) L, M 421 Desulfovibrio vulgaris EC#: 1.12.7.2 IUBMB
Details: THE FE-ONLY HYDROGENASE FROM DESULFOVIBRIO DESULFURICANS HAS EXACTLY THE SAME SEQUENCE AS THE FE-ONLY HYDROGENASE FROM DESULFOVIBRIO VULGARIS (STRAIN HILDENBOROUGH)
Gene Name(s): hydA DVU_1769
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 7 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
SF4
Query on SF4

L, M IRON/SULFUR CLUSTER
Fe4 S4
LJBDFODJNLIPKO-VKOJMFJBAC
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CYS
Query on CYS

L, M CYSTEINE
C3 H7 N O2 S
XUJNEKJLAYXESH-REOHCLBHSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PDT
Query on PDT

L, M 1,3-PROPANEDITHIOL
C3 H8 S2
ZJLMKPKYJBQJNH-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

S ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FE2
Query on FE2

L, M FE (II) ION
Fe
CWYNVVGOOAEACU-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CMO
Query on CMO

L, M CARBON MONOXIDE
C O
UGFAIRIUMAVXCW-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CYN
Query on CYN

L, M CYANIDE ION
C N
XFXPMWWXUTWYJX-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.182
  • R-Value Work: 0.158
  • Space Group: P 21 21 2

Unit Cell:

Length (Å) Angle (°)
a = 128.97 α = 90.00
b = 123.07 β = 90.00
c = 65.07 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1998-11-11
  • Released Date: 1999-04-20
  • Deposition author(s): Nicolet, Y., Piras, C., Legrand, P., Hatchikian, E.C., Fontecilla-Camps, J.C.

Revision History

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