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5EES

Crystal structure of DapB in complex with NADP+ from Corynebacterium glutamicum

Functional Information from GO Data
ChainGOidnamespacecontents
A0005737cellular_componentcytoplasm
A0005829cellular_componentcytosol
A0008652biological_processamino acid biosynthetic process
A0008839molecular_function4-hydroxy-tetrahydrodipicolinate reductase
A0009085biological_processlysine biosynthetic process
A0009089biological_processlysine biosynthetic process via diaminopimelate
A0016491molecular_functionoxidoreductase activity
A0016726molecular_functionoxidoreductase activity, acting on CH or CH2 groups, NAD or NADP as acceptor
A0019877biological_processdiaminopimelate biosynthetic process
A0050661molecular_functionNADP binding
A0051287molecular_functionNAD binding
Functional Information from PDB Data
site_idAC1
Number of Residues9
Detailsbinding site for residue GOL A 301
ChainResidue
AASN58
AARG85
AGLN88
APRO142
AGLN171
AHOH416
AHOH431
AHOH449
AHOH484

site_idAC2
Number of Residues24
Detailsbinding site for residue NAP A 302
ChainResidue
AGLY9
ALYS11
AGLY12
AARG13
AVAL14
AILE34
AGLY35
AVAL36
APHE54
ATHR55
AALA59
AGLY77
ATHR79
AALA104
APRO105
AASN106
APHE107
APHE221
AHOH401
AHOH407
AHOH413
AHOH414
AHOH465
AHOH470

site_idAC3
Number of Residues5
Detailsbinding site for residue SO4 A 303
ChainResidue
ALYS138
AASP140
ASER143
AGLY144
ATHR145

site_idAC4
Number of Residues2
Detailsbinding site for residue SO4 A 304
ChainResidue
AHIS135
ALYS138

Functional Information from PROSITE/UniProt
site_idPS01298
Number of Residues18
DetailsDAPB Dihydrodipicolinate reductase signature. EViElHhpnKlDapSGTA
ChainResidueDetails
AGLU129-ALA146

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues1
DetailsActive site: {"description":"Proton donor/acceptor","evidences":[{"source":"HAMAP-Rule","id":"MF_00102","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails

site_idSWS_FT_FI2
Number of Residues1
DetailsActive site: {"description":"Proton donor","evidences":[{"source":"HAMAP-Rule","id":"MF_00102","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails

site_idSWS_FT_FI3
Number of Residues12
DetailsBinding site: {"evidences":[{"source":"HAMAP-Rule","id":"MF_00102","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails

246333

PDB entries from 2025-12-17

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