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Structure of PDB 8xcr Chain A Binding Site BS02

Receptor Information
>8xcr Chain A (length=418) Species: 49899 (Thermococcus profundus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
VEIDPFEMAVKQLERAAQYMDISEEALEWLKKPMRIVEVSVPIEMDDGSV
KVFTGFRVQHNWARGPTKGGIRWHPAETLSTVKALATWMTWKVAVVDLPY
GGGKGGIIVNPKELSEREQERLARAYIRAVYDVIGPWTDIPAPDVYTNPK
IMGWMMDEYETIMRRKGPAFGVITGKPLSIGGSLGRGTATAQGAIFTIRE
AAKALGIDLKGKKIAVQGYGNAGYYTAKLAKEQLGMTVVAVSDSRGGIYN
PDGLDPDEVLKWKREHGSVKDFPGATNITNEELLELEVDVLAPAAIEEVI
TEKNADNIKAKIVAEVANGPVTPEADDILREKGILQIPDFLCNAGGVTVS
YFEWVQNINGYYWTEEEVREKLDKKMTKAFWEVYNTHKDKNIHMRDAAYV
VAVSRVYQAMKDRGWVKK
Ligand information
Ligand IDGGL
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 1.7.2C(CC(=O)O)C(C(=O)O)N
OpenEye OEToolkits 1.7.2C(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
NameGAMMA-L-GLUTAMIC ACID;
L-GLUTAMIC ACID
ChEMBLCHEMBL575060
DrugBankDB00142
ZINCZINC000001482113
PDB chain8xcr Chain A Residue 501 [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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PDB8xcr CryoEM-sampling of metastable conformations appearing in cofactor-ligand association and catalysis of glutamate dehydrogenase
Resolution2.6 Å
Binding residue
(original residue number in PDB)		K69 M90 K93 K105 A143 D145 S351
Binding residue
(residue number reindexed from 1)		K68 M89 K92 K104 A142 D144 S350
Annotation score5
Enzymatic activity
Enzyme Commision number 1.4.1.3: glutamate dehydrogenase [NAD(P)(+)].
Gene Ontology
Molecular Function
GO:0004352 glutamate dehydrogenase (NAD+) activity
GO:0004353 glutamate dehydrogenase [NAD(P)+] activity
GO:0004354 glutamate dehydrogenase (NADP+) activity
GO:0016491 oxidoreductase activity
GO:0016639 oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor
Biological Process
GO:0006520 amino acid metabolic process
GO:0006538 glutamate catabolic process

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Molecular Function
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Biological Process
External links
PDB RCSB:8xcr, PDBe:8xcr, PDBj:8xcr
PDBsum8xcr
PubMed38750092
UniProtO74024|DHE3_THEPR Glutamate dehydrogenase (Gene Name=gdhA)

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