Structure of PDB 3tdt Chain A Binding Site BS02

Receptor Information
>3tdt Chain A (length=274) Species: 1765 (Mycobacterium tuberculosis variant bovis) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MQQLQNVIESAFERRADITPANVDTVTREAVNQVIGLLDSGALRVAEKID
GQWVTHQWLKKAVLLSFRINDNKVMDGAETRYYDKVPMKFADYDEARFQK
EGFRVVPPATVRQGAFIARNTVLMPSYVNIGAYVDEGTMVDTWATVGSCA
QIGKNVHLSGGVGIGGVLEPLQANPTIIEDNCFIGARSEVVEGVIVEEGS
VISMGVYLGQSTRIYDRETGEIHYGRVPAGSVVVSGNLPSKDGSYSLYCA
VIVKKVDAKTRGKVGINELLRTID
Ligand information
Ligand ID26P
InChIInChI=1S/C7H11NO5/c8-4(6(10)11)2-1-3-5(9)7(12)13/h4H,1-3,8H2,(H,10,11)(H,12,13)/t4-/m0/s1
InChIKeyUKCSFKLWNHUBDY-BYPYZUCNSA-N
SMILES
SoftwareSMILES
CACTVS 3.341N[C@@H](CCCC(=O)C(O)=O)C(O)=O
OpenEye OEToolkits 1.5.0C(C[C@@H](C(=O)O)N)CC(=O)C(=O)O
OpenEye OEToolkits 1.5.0C(CC(C(=O)O)N)CC(=O)C(=O)O
CACTVS 3.341N[CH](CCCC(=O)C(O)=O)C(O)=O
ACDLabs 10.04O=C(O)C(=O)CCCC(N)C(=O)O
FormulaC7 H11 N O5
Name2-AMINO-6-OXOPIMELIC ACID
ChEMBL
DrugBank
ZINC
PDB chain3tdt Chain A Residue 281 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB3tdt The conformational change and active site structure of tetrahydrodipicolinate N-succinyltransferase.
Resolution2.0 Å
Binding residue
(original residue number in PDB)		R104 M124 M139 D141
Binding residue
(residue number reindexed from 1)		R104 M124 M139 D141
Annotation score2
Enzymatic activity
Catalytic site (original residue number in PDB) D141 G166 E189
Catalytic site (residue number reindexed from 1) D141 G166 E189
Enzyme Commision number 2.3.1.117: 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase.
Gene Ontology
Molecular Function
GO:0008666 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase activity
GO:0016740 transferase activity
GO:0016746 acyltransferase activity
GO:0016779 nucleotidyltransferase activity
Biological Process
GO:0009085 lysine biosynthetic process
GO:0009089 lysine biosynthetic process via diaminopimelate
GO:0019877 diaminopimelate biosynthetic process
Cellular Component
GO:0005737 cytoplasm

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:3tdt, PDBe:3tdt, PDBj:3tdt
PDBsum3tdt
PubMed9671504
UniProtP56220|DAPD_UNKP 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase (Gene Name=dapD)

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