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4Q3C

PylD cocrystallized with L-Lysine-Ne-L-lysine and NAD+

Functional Information from GO Data
ChainGOidnamespacecontents
A0008652biological_processamino acid biosynthetic process
A0016491molecular_functionoxidoreductase activity
B0008652biological_processamino acid biosynthetic process
B0016491molecular_functionoxidoreductase activity
C0008652biological_processamino acid biosynthetic process
C0016491molecular_functionoxidoreductase activity
D0008652biological_processamino acid biosynthetic process
D0016491molecular_functionoxidoreductase activity
Functional Information from PDB Data
site_idAC1
Number of Residues24
DetailsBINDING SITE FOR RESIDUE NAD A 901
ChainResidue
AASN121
ATHR204
APRO205
ATHR209
APRO224
AILE226
AGLU245
APRO246
ALEU247
AMG903
A2YG904
ATHR125
AHOH1005
AHOH1014
AHOH1048
AHOH1049
AHOH1088
AGLY150
ALYS151
AVAL152
AASP171
AALA172
AASP173
AALA203

site_idAC2
Number of Residues4
DetailsBINDING SITE FOR RESIDUE NA A 902
ChainResidue
AGLU202
ATHR204
ACYS206
APRO227

site_idAC3
Number of Residues6
DetailsBINDING SITE FOR RESIDUE MG A 903
ChainResidue
ATYR129
AGLU245
ALEU247
AILE249
AGLY250
ANAD901

site_idAC4
Number of Residues15
DetailsBINDING SITE FOR RESIDUE 2YG A 904
ChainResidue
ALEU4
AVAL53
AGLY58
AILE59
AILE60
APHE63
AALA103
AASP104
AASN121
APRO246
ANAD901
AHOH1011
AHOH1057
AHOH1060
AHOH1071

site_idAC5
Number of Residues4
DetailsBINDING SITE FOR RESIDUE GOL A 905
ChainResidue
ALYS18
AALA19
ALEU242
AALA244

site_idAC6
Number of Residues5
DetailsBINDING SITE FOR RESIDUE GOL A 906
ChainResidue
ALEU38
ATYR39
AHOH1039
AHOH1084
BARG135

site_idAC7
Number of Residues6
DetailsBINDING SITE FOR RESIDUE GOL A 907
ChainResidue
AVAL161
APHE165
AVAL167
AGLY185
AHOH1033
BHOH1095

site_idAC8
Number of Residues6
DetailsBINDING SITE FOR RESIDUE EDO A 908
ChainResidue
ALEU9
AASN11
AILE12
AALA65
ASER66
AHOH1113

site_idAC9
Number of Residues7
DetailsBINDING SITE FOR RESIDUE EDO A 909
ChainResidue
AGLU131
ASER134
ALYS163
APHE165
AHOH1098
AHOH1106
AHOH1123

site_idBC1
Number of Residues3
DetailsBINDING SITE FOR RESIDUE EDO A 910
ChainResidue
ATHR27
AARG135
ALEU137

site_idBC2
Number of Residues27
DetailsBINDING SITE FOR RESIDUE NAD B 901
ChainResidue
BLEU247
BMG903
B2YG904
BHOH1017
BHOH1018
BHOH1037
BHOH1103
BHOH1111
BALA2
BASN121
BTHR125
BVAL147
BGLY150
BLYS151
BVAL152
BTYR170
BASP171
BALA172
BLEU176
BALA203
BTHR204
BPRO205
BTHR209
BPRO224
BILE226
BGLU245
BPRO246

site_idBC3
Number of Residues5
DetailsBINDING SITE FOR RESIDUE NA B 902
ChainResidue
BGLU202
BTHR204
BCYS206
BPRO227
BHOH1091

site_idBC4
Number of Residues6
DetailsBINDING SITE FOR RESIDUE MG B 903
ChainResidue
BTYR129
BGLU245
BLEU247
BILE249
BGLY250
BNAD901

site_idBC5
Number of Residues17
DetailsBINDING SITE FOR RESIDUE 2YG B 904
ChainResidue
BLEU3
BLEU4
BVAL53
BGLY58
BILE59
BILE60
BPHE63
BALA103
BASP104
BASN121
BPRO246
BLEU247
BNAD901
BHOH1003
BHOH1023
BHOH1080
BHOH1108

site_idBC6
Number of Residues6
DetailsBINDING SITE FOR RESIDUE GOL B 905
ChainResidue
ALYS32
ATYR73
AHOH1003
BGLN72
BASP77
BSER78

site_idBC7
Number of Residues4
DetailsBINDING SITE FOR RESIDUE PEG B 906
ChainResidue
ASER55
AASP85
BASP85
BMET102

site_idBC8
Number of Residues21
DetailsBINDING SITE FOR RESIDUE NAD C 901
ChainResidue
CALA2
CASN121
CGLY150
CLYS151
CVAL152
CASP171
CALA172
CASP173
CLEU176
CTHR204
CPRO205
CTHR209
CPRO224
CILE226
CGLU245
CPRO246
CLEU247
CMG903
CHOH1003
CHOH1010
CHOH1013

site_idBC9
Number of Residues5
DetailsBINDING SITE FOR RESIDUE NA C 902
ChainResidue
CGLU202
CTHR204
CCYS206
CGLY225
CPRO227

site_idCC1
Number of Residues6
DetailsBINDING SITE FOR RESIDUE MG C 903
ChainResidue
CTYR129
CGLU245
CLEU247
CILE249
CGLY250
CNAD901

site_idCC2
Number of Residues12
DetailsBINDING SITE FOR RESIDUE 2YG C 904
ChainResidue
CLEU3
CLEU4
CPRO52
CVAL53
CGLY58
CILE59
CILE60
CPHE63
CALA103
CHOH1004
CHOH1006
CHOH1014

site_idCC3
Number of Residues23
DetailsBINDING SITE FOR RESIDUE NAD D 901
ChainResidue
AHOH1091
DASN121
DVAL147
DGLY150
DLYS151
DVAL152
DTYR170
DASP171
DALA172
DALA203
DTHR204
DPRO205
DTHR209
DPRO224
DILE226
DGLU245
DPRO246
DMG903
D2YG904
DHOH1002
DHOH1003
DHOH1005
DHOH1011

site_idCC4
Number of Residues4
DetailsBINDING SITE FOR RESIDUE NA D 902
ChainResidue
DGLU202
DTHR204
DCYS206
DPRO227

site_idCC5
Number of Residues8
DetailsBINDING SITE FOR RESIDUE MG D 903
ChainResidue
DTYR129
DGLU245
DPRO246
DLEU247
DGLY248
DILE249
DGLY250
DNAD901

site_idCC6
Number of Residues13
DetailsBINDING SITE FOR RESIDUE 2YG D 904
ChainResidue
DLEU3
DLEU4
DPRO52
DVAL53
DGLY58
DILE59
DILE60
DPHE63
DALA103
DNAD901
DHOH1001
DHOH1004
DHOH1010

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues16
DetailsBINDING: BINDING => ECO:0000269|PubMed:24916332, ECO:0007744|PDB:4Q39
ChainResidueDetails
ALEU4
CVAL53
CILE60
CALA103
DLEU4
DVAL53
DILE60
DALA103
AVAL53
AILE60
AALA103
BLEU4
BVAL53
BILE60
BALA103
CLEU4

site_idSWS_FT_FI2
Number of Residues28
DetailsBINDING: BINDING => ECO:0000269|PubMed:23720358, ECO:0000269|PubMed:24916332, ECO:0007744|PDB:4JK3, ECO:0007744|PDB:4Q3D
ChainResidueDetails
ALYS151
BASP171
BCYS206
BPRO224
BILE226
BGLU245
CLYS151
CVAL152
CASP171
CCYS206
CPRO224
AVAL152
CILE226
CGLU245
DLYS151
DVAL152
DASP171
DCYS206
DPRO224
DILE226
DGLU245
AASP171
ACYS206
APRO224
AILE226
AGLU245
BLYS151
BVAL152

237992

PDB entries from 2025-06-25

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