Structure of PDB 6why Chain A Binding Site BS01

Receptor Information
>6why Chain A (length=790) Species: 10116 (Rattus norvegicus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
KIVNIGAVLSTRKHEQMFREAVNQANKRIQLQATSVTHKPNAIQMALSVC
EDLISSQVYAILVSHPPTPNDHFTPTPVSYTAGFYRIPVLGLTTRMSIYS
DKSIHLSFLRTVPPYSHQSSVWFEMMRVYNWNHIILLVSDDHEGRAAQKR
LETLLEEREGPKAEKVLQFDPGTKNVTALLMEARELEARVIILSASEDDA
ATVYRAAAMLDMTGSGYVWLVGEREISGNALRYAPDGIIGLQLINGKNES
AHISDAVGVVAQAVHELLEKENITDPPRGCVGNTNIWKTGPLFKRVLMSS
KYADGVTGRVEFNEDGDRKFAQYSIMNLQNRKLVQVGIYNGTHVIPNDRK
IIWPGGETEKPRGYQMSTRLKIVTIHQEPFVYVKPTMSDGTCKEEFTVNG
DPVKKVICTGPNDRHTVPQCCYGFCIDLLIKLARTMQFTYEVHLVADGKF
GTQERVQNSNKKEWNGMMGELLSGQADMIVAPLTINNERAQYIEFSKPFK
YQGLTILVKKEIPRSTLDSFMQPFQSTLWLLVGLSVHVVAVMLYLLDRFS
TLSSAMWFSWGVLLNSGIGEGAPRSFSARILGMVWAGFAMIIVASYTANL
AAFLVLDRPEERITGINDPRLRNPSDKFIYATVKQSSVDIYFRRQVELST
MYRHMEKHNYESAAEAIQAVRDNKLHAFIWDSAVLEFEASQKCDLVTTGE
LFFRSGFGIGMRKDSPWKQQVSLSILKSHENGFMEDLDKTWVRYQECDSR
SNAPATLTCENMAGVFMLVAGGIVAGIFLIFIEIAYKRHK
Ligand information
Ligand IDQGM
InChIInChI=1S/C17H15Cl2N3O3/c18-9-6-11(19)15-12(7-9)21-14(16(23)24)8-13(15)22-17(25)20-10-4-2-1-3-5-10/h1-7,13-14,21H,8H2,(H,23,24)(H2,20,22,25)/t13-,14+/m0/s1
InChIKeyUCKHICKHGAOGAP-UONOGXRCSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 2.0.7c1ccc(cc1)NC(=O)NC2CC(Nc3c2c(cc(c3)Cl)Cl)C(=O)O
CACTVS 3.385OC(=O)[C@H]1C[C@H](NC(=O)Nc2ccccc2)c3c(Cl)cc(Cl)cc3N1
OpenEye OEToolkits 2.0.7c1ccc(cc1)NC(=O)N[C@H]2C[C@@H](Nc3c2c(cc(c3)Cl)Cl)C(=O)O
ACDLabs 12.01N1c3c(C(CC1C(O)=O)NC(Nc2ccccc2)=O)c(cc(c3)Cl)Cl
CACTVS 3.385OC(=O)[CH]1C[CH](NC(=O)Nc2ccccc2)c3c(Cl)cc(Cl)cc3N1
FormulaC17 H15 Cl2 N3 O3
Name(2R,4S)-5,7-dichloro-4-[(phenylcarbamoyl)amino]-1,2,3,4-tetrahydroquinoline-2-carboxylic acid
ChEMBLCHEMBL287327
DrugBank
ZINCZINC000000597480
PDB chain6why Chain A Residue 1001 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB6why Structural Basis of Functional Transitions in Mammalian NMDA Receptors.
Resolution4.03 Å
Binding residue
(original residue number in PDB)		Q426 P537 L538 T539 V705 K706 Q707 S708 W752
Binding residue
(residue number reindexed from 1)		Q377 P482 L483 T484 V633 K634 Q635 S636 W680
Annotation score1
Binding affinityBindingDB: Ki=6.3nM
Enzymatic activity
Enzyme Commision number ?
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

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:6why, PDBe:6why, PDBj:6why
PDBsum6why
PubMed32610085
UniProtP35439|NMDZ1_RAT Glutamate receptor ionotropic, NMDA 1 (Gene Name=Grin1)

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