5ODH: Heterodisulfide reductase / [NiFe]-hydrogenase complex from Methanothermococcus thermolithotrophicus soaked with heterodisulfide for 3.5 minutes

PDB ID: 5ODHDownload
MMDB ID: 154076
PDB Deposition Date: 2017/7/5
Updated in MMDB: 2024/10
Experimental Method:
x-ray diffraction
Resolution: 2.2  Å
Source Organism:
Similar Structures:
Biological Unit for 5ODH: dodecameric; determined by author and by software (PISA)
Molecular Components in 5ODH
Label Count Molecule
Proteins (12 molecules)
2
Heterodisulfide Reductase, Subunit a
Molecule annotation
2
Heterodisulfide Reductase, Subunit B
Molecule annotation
2
Heterodisulfide Reductase, Subunit C
Molecule annotation
2
Methyl-viologen Reducing Hydrogenase, Subunit D
Molecule annotation
2
Methyl-viologen Reducing Hydrogenase, Subunit G
Molecule annotation
2
Methyl-viologen Reducing Hydrogenase, Subunit a
Molecule annotation
Chemicals and Non-standard biopolymers (51 molecules)
1
22
IRON/SULFUR CLUSTERIRON/SULFUR CLUSTER
2
6
GLYCEROLGLYCEROL
3
4
3,6,9,12,15,18,21,24,27,30,33,36,39-TRIDECAOXAHENTETRACONTANE-1,41-DIOL3,6,9,12,15,18,21,24,27,30,33,36,39-TRIDECAOXAHENTETRACONTANE-1,41-DIOL
4
2
FLAVIN-ADENINE DINUCLEOTIDEFLAVIN-ADENINE DINUCLEOTIDE
5
4
Non-cubane [4Fe-4S]-clusterNon-cubane [4Fe-4S]-cluster
6
2
1-THIOETHANESULFONIC ACID1-THIOETHANESULFONIC ACID
7
2
FE2/S2 (INORGANIC) CLUSTERFE2/S2 (INORGANIC) CLUSTER
8
1
2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
9
2
formyl[bis(hydrocyanato-1kappaC)]ironnickel(Fe-Ni)formyl[bis(hydrocyanato-1kappaC)]ironnickel(Fe-Ni)
10
3
FE (III) IONFE (III) ION
11
2
ACETATE IONACETATE ION
12
1
Coenzyme BCoenzyme B
* Click molecule labels to explore molecular sequence information.
Citing MMDB
Madej T, Lanczycki CJ, Zhang D, Thiessen PA, Geer RC, Marchler-Bauer A, Bryant SH. " MMDB and VAST+: tracking structural similarities between macromolecular complexes. Nucleic Acids Res. 2014 Jan; 42(Database issue):D297-303