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5E3Q

Crystal structure of DapD in complex with succinyl-CoA from Corynebacterium glutamicum

Functional Information from GO Data
ChainGOidnamespacecontents
A0000287molecular_functionmagnesium ion binding
A0005737cellular_componentcytoplasm
A0008652biological_processamino acid biosynthetic process
A0008666molecular_function2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase activity
A0009085biological_processlysine biosynthetic process
A0009089biological_processlysine biosynthetic process via diaminopimelate
A0016740molecular_functiontransferase activity
A0016746molecular_functionacyltransferase activity
A0019877biological_processdiaminopimelate biosynthetic process
A0046872molecular_functionmetal ion binding
Functional Information from PDB Data
site_idAC1
Number of Residues22
Detailsbinding site for residue SCA A 401
ChainResidue
AGLU181
AALA240
AGLY247
ALYS249
ALYS258
AARG271
AARG272
AASP273
ASER274
AHOH513
AHOH537
AARG183
AHOH580
AHOH614
AHOH620
ASER185
AGLY198
ASER201
AMET203
AGLY223
AALA224
AGLU239

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues1
DetailsActive site: {"description":"Acyl-anhydride intermediate","evidences":[{"source":"HAMAP-Rule","id":"MF_02122","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails

site_idSWS_FT_FI2
Number of Residues12
DetailsBinding site: {"evidences":[{"source":"HAMAP-Rule","id":"MF_02122","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails

238895

PDB entries from 2025-07-16

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