Structure of PDB 6whv Chain C

Receptor sequence

>6whvC (length=800) Species: 10116 (Rattus norvegicus)

KIVNIGAVLSTRKHEQMFREAVNQANKRIQLQATSVTHKPNAIQMALSVC
EDLISSQVYAILVSHPPTPNDHFTPTPVSYTAGFYRIPVLGLTTRMSIYS
DKSIHLSFLRTVPPYSHQSSVWFEMMRVYNWNHIILLVSDDHEGRAAQKR
LETLLEERESKKRGPKAEKVLQFDPGTKNVTALLMEARELEARVIILSAS
EDDAATVYRAAAMLDMTGSGYVWLVGEREISGNALRYAPDGIIGLQLING
KNESAHISDAVGVVAQAVHELLEKENITDPPRGCVGNTNIWKTGPLFKRV
LMSSKYADGVTGRVEFNEDGDRKFAQYSIMNLQNRKLVQVGIYNGTHVIP
NDRKIIWPGGETEKPRGYQMSTRLKIVTIHQEPFVYVKPTMSDGTCKEEF
TVNGDPVKKVICTGPNDTSPGSPRHTVPQCCYGFCIDLLIKLARTMQFTY
EVHLVADGKFGTQERVQNSNKKEWNGMMGELLSGQADMIVAPLTINNERA
QYIEFSKPFKYQGLTILVKKEIPRSTLDSFMQPFQSTLWLLVGLSVHVVA
VMLYLLDRFSTLSSAMWFSWGVLLNSGIGEGAPRSFSARILGMVWAGFAM
IIVASYTANLAAFLVLDRPEERITGINDPRLRNPSDKFIYATVKQSSVDI
YFRRQVELSTMYRHMEKHNYESAAEAIQAVRDNKLHAFIWDSAVLEFEAS
QKCDLVTTGELFFRSGFGIGMRKDSPWKQQVSLSILKSHENGFMEDLDKT
WVRYQECDSRSNAPATLTCENMAGVFMLVAGGIVAGIFLIFIEIAYKRHK

3D structure

• PDB: 6whv Structural Basis of Functional Transitions in Mammalian NMDA Receptors.
• Chain: C
• Resolution: 4.05 Å

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	QGM	C	Q426 F505 P537 L538 T539 R544 K706 Q707 S708 S709 W752 D753	Q381 F460 P492 L493 T494 R499 K644 Q645 S646 S647 W690 D691	BindingDB: Ki=6.3nM

Gene Ontology

Molecular Function

• GO:0005216 monoatomic ion channel activity
• GO:0015276 ligand-gated monoatomic ion channel activity
• GO:0038023 signaling receptor activity

Biological Process

• GO:0006811 monoatomic ion transport

Cellular Component

• GO:0016020 membrane

External links

• PDB: RCSB:6whv, PDBe:6whv, PDBj:6whv
• PDBsum: 6whv
• PubMed: 32610085
• UniProt: P35439|NMDZ1_RAT Glutamate receptor ionotropic, NMDA 1 (Gene Name=Grin1)