Structure of PDB 7yfl Chain D Binding Site BS01

Receptor Information
>7yfl Chain D (length=679) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
AAEAARLGPAVAAAVRSPGLDVRPVALVLNGSDPRSLVLQLCDLLSGLRV
HGVVFEDDSRAVAPILDFLSAQTLPIVAVHGAALVLTPKEKGSTFLQLGS
STEQQLQVIFEVLEEYDWTSFVAVTTRAPGHRAFLSYIEVLTDGSLVGWE
HRGALTLEAVLSAQLRSVSAQIRLLFCAREEAEPVFRAAEEAGLTGSGYV
WFMVGPQLAPLPAGLFAVRSAGWRDDLARRVAAGVAVVARGAQALLRDYG
FLPELGHDCRAQNRTHRGESLHRYFMNITWDNRDYSFNEDGFLVNPSLVV
ISLTRDRTWEVVGSWEQQTLRLKYPLWSRYGRDTQHLTVATLEERPFVIV
EPADPISGTCIRDSVPCRSQLNRPEKRCCKGFCIDILKRLAHTIGFSYDL
YLVTNGKHGKKIDGVWNGMIGEVFYQRADMAIGSLTINEERSEIVDFSVP
FVETGISVMVARPYSPAVWVMMFVMCWLLWALVFNNSVPVGTTSKIMVLV
WAFFAVIFLASYTANLAAFMIVDTVSGLSDRKFQRPQEQYPPLKFGTVPN
GSTEKNIRSNYPDMHSYMVRYNQPRVEEALTQLKAGKLDAFIYDAAVLNY
MARKDEGCKLVTIGSGKVFATTGYGIALHKGSRWKRPIDLALLQFLGDDE
IEMLERLWLSGICHKLDIDNMAGVFYMLL
Ligand information
Ligand IDGLU
InChIInChI=1S/C5H9NO4/c6-3(5(9)10)1-2-4(7)8/h3H,1-2,6H2,(H,7,8)(H,9,10)/t3-/m0/s1
InChIKeyWHUUTDBJXJRKMK-VKHMYHEASA-N
SMILES
SoftwareSMILES
ACDLabs 12.01O=C(O)C(N)CCC(=O)O
OpenEye OEToolkits 1.7.0C(CC(=O)O)C(C(=O)O)N
OpenEye OEToolkits 1.7.0C(CC(=O)O)[C@@H](C(=O)O)N
CACTVS 3.370N[C@@H](CCC(O)=O)C(O)=O
CACTVS 3.370N[CH](CCC(O)=O)C(O)=O
FormulaC5 H9 N O4
NameGLUTAMIC ACID
ChEMBLCHEMBL575060
DrugBankDB00142
ZINCZINC000001482113
PDB chain7yfl Chain D Residue 901 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB7yfl Distinct structure and gating mechanism in diverse NMDA receptors with GluN2C and GluN2D subunits.
Resolution3.9 Å
Binding residue
(original residue number in PDB)		H513 T541 G716 S717 Y758 D759
Binding residue
(residue number reindexed from 1)		H408 T436 G551 S552 Y593 D594
Annotation score4
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:7yfl, PDBe:7yfl, PDBj:7yfl
PDBsum7yfl
PubMed36959261
UniProtO15399|NMDE4_HUMAN Glutamate receptor ionotropic, NMDA 2D (Gene Name=GRIN2D)

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