4GD3: Structure of E. coli hydrogenase-1 in complex with cytochrome b

PDB ID: 4GD3Download
MMDB ID: 106312
PDB Deposition Date: 2012/7/31
Updated in MMDB: 2023/09
Experimental Method:
x-ray diffraction
Resolution: 3.3  Å
Source Organism:
Similar Structures:
Biological Unit for 4GD3: pentameric; determined by author and by software (PISA)
Molecular Components in 4GD3
Label Count Molecule
Proteins (5 molecules)
2
Hydrogenase-1 Small Chain
(Gene symbol: hyaA)
Molecule annotation
2
Hydrogenase-1 Large Chain
(Gene symbol: hyaB)
Molecule annotation
1
Ni/fe-hydrogenase 1 B-type Cytochrome Subunit
(Gene symbol: hyaC)
Molecule annotation
Chemicals and Non-standard biopolymers (21 molecules)
1
4
IRON/SULFUR CLUSTERIRON/SULFUR CLUSTER
2
2
FE4-S3 CLUSTERFE4-S3 CLUSTER
3
5
CHLORIDE IONCHLORIDE ION
4
2
CARBONMONOXIDE-(DICYANO) IRONCARBONMONOXIDE-(DICYANO) IRON
5
2
NICKEL (II) IONNICKEL (II) ION
6
2
MAGNESIUM IONMAGNESIUM ION
7
3
DODECYL-BETA-D-MALTOSIDEDODECYL-BETA-D-MALTOSIDE
8
1
PROTOPORPHYRIN IX CONTAINING FEPROTOPORPHYRIN IX CONTAINING FE
* 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