Structure of PDB 5koh Chain D

Receptor sequence

>5kohD (length=510) Species: 272568 (Gluconacetobacter diazotrophicus PA1 5)

PQNVDKILDHAPLFREPEYQEMLAGKAKLENMPPADKVVEIADWTKSWEY
REKNFARESLSVNPAKACQPLGAVFVASGFERTMSFVHGSQGCVAYYRSH
LSRHFKEPSSAVSSSMTEDAAVFGGLNNMVDGLANTYKLYDPKMIAVSTT
CMAEVIGDDLHAFIQTAKGKGSVPEEFDVPFAHTPAFVGSHVTGYDNMLK
GILEHFWKGRTPVPNRSVNIIPGFDGFAVGNNRELKRILGMMGVQYTILS
DVSDQFDTPSDGEYRMYDGGTKIEAARDAVNADYTISLQEYCTPKTLEYC
QSFGQKTASFHYPLGIGATDDLLQKLSEISGKPVPQELEMERGRLVDALA
DSQAYLHGKTYAIYGDPDFVYGMARFILETGGEPKHCLATNGSKAWEAQM
QELFDSSPFGVGCKAWGGKDLWHMRSLLATEKVDLLIGNSYGKYLERDTD
TPLIRLMFPIFDRHHHHRFPVWGYQGALRVLVTLLDKIFDKLDDDTIQAG
VTDYSFDLTR

3D structure

• PDB: 5koh Tyrosine-Coordinated P-Cluster in G. diazotrophicus Nitrogenase: Evidence for the Importance of O-Based Ligands in Conformationally Gated Electron Transfer.
• Chain: D
• Resolution: 1.83 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): C152 V156
• Catalytic site (residue number reindexed from 1): C151 V155
• Enzyme Commision number: 1.18.6.1: nitrogenase.

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	FE	D	K107 E108	K106 E107
BS02	FE	D	D348 D352	D347 D351
BS03	CLF	D	C69 G93 C94 Y97 Y98 T151 C152 A187	C68 G92 C93 Y96 Y97 T150 C151 A186

Gene Ontology

Molecular Function

• GO:0005524 ATP binding
• GO:0016163 nitrogenase activity
• GO:0016491 oxidoreductase activity
• GO:0046872 metal ion binding
• GO:0051536 iron-sulfur cluster binding

Biological Process

• GO:0009399 nitrogen fixation

Cellular Component

• GO:0016612 molybdenum-iron nitrogenase complex

External links

• PDB: RCSB:5koh, PDBe:5koh, PDBj:5koh
• PDBsum: 5koh
• PubMed: 27487256
• UniProt: A9H5W8