Structure of PDB 3myr Chain B

Receptor sequence

>3myrB (length=559) Species: 1049 (Allochromatium vinosum)

ERIVVDPITRIEGHLRIEAQMDGATIAQAYSSGTMVRGIETILKGRDPRD
AWAFVQRICGVCTLVHGIASVRAVEDALRIELPLNAQLIRNLMIGAQYIH
DHVMHFYHLHALDWVDVVSALSADPRATSELAQSISAWPKSSPGYFADTQ
KRIKTFVESGQLGIFANGYWGHPAYRLPPEANLMAVAHYLEALAWQRDTA
KFHAIFGGKNPHPNFVVGGVPSPIDLDSDSALNAKRLAEVRNLIQSMRTF
VDQVYVPDTLAIAGFYKDWGERGEGLGNFLCYGDLPTGASLDPATFLFPR
GAILDRDLSTIHEVDLEATGEIQEFVNHSWYEYSVGNDRGLHPYEGQTNL
EYDRRGGVAPPYKQLDVSDGYSWLKAPRWKGRSVEVGPLARVLMLYATGH
DQARELVDSTLSRLDLPVDALYSTLGRTAARALESKILVDAMQGWYDGLI
ANVKSGDTKTFNETLWEPSSWPSRAQGVGIMEAPRGALGHWIVIEDGRIA
NYQAVVPSTWNAGPRDGRGQAGAYEAALQDNHQLVDVKQPIEILRTIHSF
DPCIACAVH

3D structure

• PDB: 3myr The crystal structure of the [NiFe] hydrogenase from the photosynthetic bacterium Allochromatium vinosum: characterization of the oxidized enzyme (Ni-A state).
• Chain: B
• Resolution: 2.1 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): E1014 C1061 C1064 H1068 R1487 S1510 C1555 C1558
• Catalytic site (residue number reindexed from 1): E12 C59 C62 H66 R485 S508 C553 C556

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	SF4	B	R1059 H1214	R57 H212
BS02	NFV	B	C1061 C1064 V1067 H1068 A1485 P1486 R1487 V1508 P1509 S1510 C1555 C1558	C59 C62 V65 H66 A483 P484 R485 V506 P507 S508 C553 C556
BS03	MG	B	E1042 A1506 H1561	E40 A504 H559

Gene Ontology

Molecular Function

• GO:0008901 ferredoxin hydrogenase activity
• GO:0016151 nickel cation binding
• GO:0016491 oxidoreductase activity
• GO:0046872 metal ion binding

Cellular Component

• GO:0005886 plasma membrane

External links

• PDB: RCSB:3myr, PDBe:3myr, PDBj:3myr
• PDBsum: 3myr
• PubMed: 20673834
• UniProt: D3RV26