1H0H

Tungsten containing Formate Dehydrogenase from Desulfovibrio Gigas

Structural Biology Knowledgebase: 1H0H SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.201
  • R-Value Work: 0.167

Literature

Macromolecules
Sequence Display for 1H0H

Classification: ELECTRON TRANSPORT

Total Structure Weight: 274269.16

Macromolecule Entities
Molecule Chains Length Organism Details
FORMATE DEHYDROGENASE SUBUNIT ALPHA A, K 977 Desulfovibrio gigas EC#: 1.2.1.2 IUBMB
Mutation: D959N
Gene Name(s): fdhA
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
FORMATE DEHYDROGENASE SUBUNIT BETA B, L 214 Desulfovibrio gigas Gene Name(s): fdhB
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, K GUANYLATE-O'-PHOSPHORIC ACID MONO-(2-AMINO- 5,6-DIMERCAPTO-4-OXO-3,5,6,7,8A,9,10,10A- OCTAHYDRO-4H-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN- 7-YLMETHYL) ESTER
MOLYBDENUM COFACTOR,BIS (MOLYBDOPTERIN GUANINE DINUCLEOTIDE) (Synonym)
C20 H28 N10 O13 P2 S2
YDYCAANTTOPADF-JKOCJXFLSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MGD
Query on MGD

A, K 2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9- TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN- 4-ONE GUANOSINE DINUCLEOTIDE
MOLYBDOPTERIN GUANOSINE DINUCLEOTIDE (Synonym)
C20 H26 N10 O13 P2 S2
VQAGYJCYOLHZDH-ILXWUORBSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SF4
Query on SF4

A, B, K, L IRON/SULFUR CLUSTER
Fe4 S4
LJBDFODJNLIPKO-VKOJMFJBAC
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
EPE
Query on EPE

A, K 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
HEPES (Synonym)
C8 H18 N2 O4 S
JKMHFZQWWAIEOD-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
W
Query on W

A, K TUNGSTEN ION
W
FZFRVZDLZISPFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

A, K CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
UNX
Query on UNX

A, K UNKNOWN ATOM OR ION
X
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
SEC
Query on SEC
L-PEPTIDE LINKING C3 H7 N O2 Se --

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.201
  • R-Value Work: 0.167
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 73.41 α = 90.00
b = 110.40 β = 93.53
c = 156.18 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-06-19
  • Released Date: 2003-02-20
  • Deposition author(s): Raaijmakers, H.C.A.

Revision History

  • 2014-01-29
    Type: Function and keywords | Details: KEYWDS
  • 2014-01-29
    Type: Other | Details: ANISOU,REMARK 700,MODRES,HEADER,REMARK 525,REMARK 480
  • 2014-01-29
    Type: Atom nomenclature | Details: ATOM,HETATM
  • 2014-01-29
    Type: Biological assembly | Details: REMARK 300,REMARK 350
  • 2014-01-29
    Type: Linkage | Details: CONECT,LINK
  • 2014-01-29
    Type: Polymer description | Details: COMPND,SEQRES
  • 2014-01-29
    Type: Sequence database correspondence | Details: DBREF,SEQADV
  • 2014-01-29
    Type: Binding sites and description | Details: SITE
  • 2014-01-29
    Type: Non-polymer description | Details: HETSYN,FORMUL,REMARK 620,HETNAM,HET
  • 2014-01-29
    Type: Geometry validation | Details: REMARK 500
  • 2014-01-29
    Type: Version format compliance | Details: REMARK 4