Structure of PDB 8bj8 Chain A

Receptor sequence

>8bj8A (length=394) Species: 876 (Desulfovibrio desulfuricans)

SRTVMERIEYEMHTPDPKADPDKLHFVQIDEAKCIGCDTCSQYCPTAAIF
GEMGEPHSIPHIEACINCGQCLTHCPENAIYEAQSWVPEVEKKLKDGKVK
CIAMPAPAVRYALGDAFGMPVGSVTTGKMLAALQKLGFAHCWDTEFTADV
TIWEEGSEFVERLTKKSDMPLPQFTSACPGWQKYAETYYPELLPHFSTCK
SPIGMNGALAKTYGAERMKYDPKQVYTVSIMPCIAKKYEGLRPELKSSGM
RDIDATLTTRELAYMIKKAGIDFAKLPDGKRDSLMGESTGGATIFGVTGG
VMEAALRFAYEAVTGKKPDSWDFKAVRGLDGIKEATVNVGGTDVKVAVVH
GAKRFKQVCDDVKAGKSPYHFIEYMACPGGCVCGGGQPVMPGVL

3D structure

• PDB: 8bj8 Binding of exogenous cyanide reveals new active-site states in [FeFe] hydrogenases
• Chain: A
• Resolution: 1.01 Å

Enzymatic activity

• Enzyme Commision number: 1.12.7.2: ferredoxin hydrogenase.

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	VHR	A	A107 P108 A109 A178 P203 I204 M232 P233 K237 F296 M376 C382	A106 P107 A108 A177 P202 I203 M231 P232 K236 F295 M375 C381
BS02	SF4	A	C179 C234 M376 A377 C378 C382	C178 C233 M375 A376 C377 C381
BS03	SF4	A	C45 P46 I50 I60 C66 I67 N68 C69 G70 C72	C44 P45 I49 I59 C65 I66 N67 C68 G69 C71
BS04	SF4	A	C35 I36 G37 C38 D39 C41 H58 C76 E78 I81	C34 I35 G36 C37 D38 C40 H57 C75 E77 I80

Gene Ontology

Molecular Function

• GO:0005506 iron ion binding
• GO:0008901 ferredoxin hydrogenase activity
• GO:0016491 oxidoreductase activity
• GO:0046872 metal ion binding
• GO:0051536 iron-sulfur cluster binding
• GO:0051539 4 iron, 4 sulfur cluster binding

Cellular Component

• GO:0042597 periplasmic space

External links

• PDB: RCSB:8bj8, PDBe:8bj8, PDBj:8bj8
• PDBsum: 8bj8
• PubMed: 36937599
• UniProt: P07598|PHFL_NITV2 Periplasmic [Fe] hydrogenase large subunit (Gene Name=hydA)