5T5I

TUNGSTEN-CONTAINING FORMYLMETHANOFURAN DEHYDROGENASE FROM METHANOTHERMOBACTER WOLFEII, ORTHORHOMBIC FORM AT 1.9 A

Structural Biology Knowledgebase: 5T5I SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.172
  • R-Value Work: 0.152

Literature

Macromolecules
Sequence Display for 5T5I

Classification: OXIDOREDUCTASE

Total Structure Weight: 416019.53

Macromolecule Entities
Molecule Chains Length Organism Details
Tungsten formylmethanofuran dehydrogenase subunit fwdA A, I 569 Methanothermobacter wolfeii Details: Native formylmethanofuran dehydrogenase subunit A containing the carboxylysine at position 178
Gene Name(s): fwdA
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Tungsten formylmethanofuran dehydrogenase subunit B B, J 432 Methanothermobacter sp. cat2 Gene Name(s): MTCT_1424
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Tungsten-containing formylmethanofuran dehydrogenase 2 subunit C C, K 270 Methanothermobacter wolfeii EC#: 1.2.99.5 IUBMB
Gene Name(s): fwdC
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Tungsten formylmethanofuran dehydrogenase subunit fwdD D, L 130 Methanothermobacter wolfeii Gene Name(s): fwdD
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Tungsten formylmethanofuran dehydrogenase subunit fwdF F, N 349 Methanothermobacter wolfeii Gene Name(s): fwdF
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Tungsten formylmethanofuran dehydrogenase subunit fwdG G, P 82 Methanothermobacter wolfeii Gene Name(s): fwdG
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

B, J 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

B, F, G, J, N, P IRON/SULFUR CLUSTER
Fe4 S4
LJBDFODJNLIPKO-VKOJMFJBAC
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
W
Query on W

B, J TUNGSTEN ION
W
FZFRVZDLZISPFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A, B, I, J, N GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A, I ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

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

A, B, F, G, I, J, N, P POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
H2S
Query on H2S

B, J HYDROSULFURIC ACID
HYDROGEN SULFIDE (Synonym)
H2 S
RWSOTUBLDIXVET-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, I MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

A, I, L SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
KCX
Query on KCX
A, I L-PEPTIDE LINKING C7 H14 N2 O4 LYS

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.172
  • R-Value Work: 0.152
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 121.64 α = 90.00
b = 174.58 β = 90.00
c = 205.43 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2016-08-31
  • Released Date: 2016-10-19
  • Deposition author(s): Wagner, T., Ermler, U., Shima, S.

Revision History

  • 2016-12-21
    Type: Citation | Details: Citation