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1Y7M

Crystal Structure of the B. subtilis YkuD protein at 2 A resolution

Functional Information from GO Data
ChainGOidnamespacecontents
A0009252biological_processpeptidoglycan biosynthetic process
A0016740molecular_functiontransferase activity
A0018104biological_processpeptidoglycan-protein cross-linking
A0031160cellular_componentspore wall
A0071972molecular_functionpeptidoglycan L,D-transpeptidase activity
B0009252biological_processpeptidoglycan biosynthetic process
B0016740molecular_functiontransferase activity
B0018104biological_processpeptidoglycan-protein cross-linking
B0031160cellular_componentspore wall
B0071972molecular_functionpeptidoglycan L,D-transpeptidase activity
Functional Information from PDB Data
site_idAC1
Number of Residues4
DetailsBINDING SITE FOR RESIDUE CD A 201
ChainResidue
ACYS139
ASO4203
AHOH204
BHIS119

site_idAC2
Number of Residues4
DetailsBINDING SITE FOR RESIDUE CD B 202
ChainResidue
AHIS119
BCYS139
BSO4204
BHOH207

site_idAC3
Number of Residues8
DetailsBINDING SITE FOR RESIDUE SO4 A 203
ChainResidue
ASER136
ALYS137
AGLY138
ACYS139
AARG141
ACD201
BHIS119
AHIS123

site_idAC4
Number of Residues8
DetailsBINDING SITE FOR RESIDUE SO4 B 204
ChainResidue
AHIS119
BHIS123
BSER136
BLYS137
BGLY138
BCYS139
BARG141
BCD202

site_idAC5
Number of Residues4
DetailsBINDING SITE FOR RESIDUE SO4 B 205
ChainResidue
AARG159
AHOH238
BTYR96
BARG159

site_idAC6
Number of Residues4
DetailsBINDING SITE FOR RESIDUE SO4 B 206
ChainResidue
AASN144
BLYS145
BHOH211
BHOH225

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues86
DetailsDomain: {"description":"LysM","evidences":[{"source":"PROSITE-ProRule","id":"PRU01118","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails

site_idSWS_FT_FI2
Number of Residues2
DetailsActive site: {"description":"Proton donor/acceptor","evidences":[{"source":"PROSITE-ProRule","id":"PRU01373","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails

site_idSWS_FT_FI3
Number of Residues2
DetailsActive site: {"description":"Nucleophile","evidences":[{"source":"PROSITE-ProRule","id":"PRU01373","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails

251174

PDB entries from 2026-03-25

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