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4Q3A

PylD cocrystallized with L-Lysine-Ne-3S-methyl-L-ornithine 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 Residues27
DetailsBINDING SITE FOR RESIDUE NAI A 901
ChainResidue
AALA2
AALA203
ATHR204
APRO205
ACYS206
ATHR209
APRO224
AILE226
AGLU245
APRO246
ALEU247
AASN121
AMG903
AHOH1001
AHOH1002
AHOH1040
AHOH1042
AHOH1045
AHOH1101
DALA207
ATHR125
AGLY150
ALYS151
AVAL152
ATYR170
AASP171
AALA172

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
ANAI901

site_idAC4
Number of Residues16
DetailsBINDING SITE FOR RESIDUE 2YC A 904
ChainResidue
ALEU3
ALEU4
AVAL53
AGLY58
AILE59
AILE60
APHE63
AALA103
AASN121
APRO246
AHOH1004
AHOH1006
AHOH1017
AHOH1044
AHOH1065
AHOH1080

site_idAC5
Number of Residues7
DetailsBINDING SITE FOR RESIDUE GOL A 905
ChainResidue
AGLU158
AGLN162
BLYS36
BGLY40
BTHR41
BPHE42
BHOH1029

site_idAC6
Number of Residues3
DetailsBINDING SITE FOR RESIDUE GOL A 906
ChainResidue
AASP85
BASP85
BMET102

site_idAC7
Number of Residues5
DetailsBINDING SITE FOR RESIDUE GOL A 907
ChainResidue
AALA37
AGLU131
AARG135
AHIS159
AEDO915

site_idAC8
Number of Residues4
DetailsBINDING SITE FOR RESIDUE GOL A 908
ChainResidue
AALA19
AARG235
ALEU242
AALA244

site_idAC9
Number of Residues6
DetailsBINDING SITE FOR RESIDUE GOL A 909
ChainResidue
ALEU9
AILE10
AASN11
AILE12
AALA65
AHOH1126

site_idBC1
Number of Residues8
DetailsBINDING SITE FOR RESIDUE GOL A 910
ChainResidue
ASER45
AGLN72
AGLY75
BLYS32
BGLN72
BTYR73
BGLY75
BSO4911

site_idBC2
Number of Residues6
DetailsBINDING SITE FOR RESIDUE GOL A 911
ChainResidue
AGLN72
AASP77
BASP20
BLYS32
BTYR73
BHOH1031

site_idBC3
Number of Residues4
DetailsBINDING SITE FOR RESIDUE PEG A 912
ChainResidue
ALYS117
AMET118
AALA119
ASER257

site_idBC4
Number of Residues3
DetailsBINDING SITE FOR RESIDUE EDO A 913
ChainResidue
APHE165
AVAL167
AGLY185

site_idBC5
Number of Residues4
DetailsBINDING SITE FOR RESIDUE EDO A 914
ChainResidue
ASER134
AARG135
ALYS163
APHE165

site_idBC6
Number of Residues4
DetailsBINDING SITE FOR RESIDUE EDO A 915
ChainResidue
ALEU38
AILE127
AGOL907
AHOH1114

site_idBC7
Number of Residues29
DetailsBINDING SITE FOR RESIDUE NAI B 901
ChainResidue
BALA2
BASN121
BGLN122
BTHR125
BGLY150
BLYS151
BVAL152
BASP171
BALA172
BASP173
BALA203
BTHR204
BPRO205
BCYS206
BTHR209
BPRO224
BILE226
BGLU245
BPRO246
BLEU247
BMG903
B2YC904
BHOH1001
BHOH1005
BHOH1032
BHOH1062
BHOH1108
CALA207
CHOH1015

site_idBC8
Number of Residues6
DetailsBINDING SITE FOR RESIDUE NA B 902
ChainResidue
BGLU202
BTHR204
BCYS206
BGLY225
BPRO227
BHOH1058

site_idBC9
Number of Residues6
DetailsBINDING SITE FOR RESIDUE MG B 903
ChainResidue
BTYR129
BGLU245
BLEU247
BILE249
BGLY250
BNAI901

site_idCC1
Number of Residues18
DetailsBINDING SITE FOR RESIDUE 2YC B 904
ChainResidue
BLEU3
BLEU4
BVAL53
BGLY58
BILE59
BILE60
BPHE63
BALA103
BASP104
BASN121
BPRO246
BNAI901
BHOH1002
BHOH1006
BHOH1036
BHOH1039
BHOH1041
BHOH1042

site_idCC2
Number of Residues5
DetailsBINDING SITE FOR RESIDUE GOL B 905
ChainResidue
ALYS142
ALYS163
BGLN24
BGLY28
BLEU29

site_idCC3
Number of Residues5
DetailsBINDING SITE FOR RESIDUE GOL B 906
ChainResidue
BTHR41
BPHE42
BLEU259
BHOH1019
BHOH1034

site_idCC4
Number of Residues6
DetailsBINDING SITE FOR RESIDUE GOL B 907
ChainResidue
BGLY61
BASN62
BPHE63
BSER64
BALA65
BHOH1055

site_idCC5
Number of Residues8
DetailsBINDING SITE FOR RESIDUE GOL B 908
ChainResidue
ALYS32
ATYR73
AHOH1035
AHOH1124
AHOH1125
BGLN72
BASP77
BSO4911

site_idCC6
Number of Residues5
DetailsBINDING SITE FOR RESIDUE GOL B 909
ChainResidue
BLEU9
BILE10
BASN11
BILE12
BALA65

site_idCC7
Number of Residues5
DetailsBINDING SITE FOR RESIDUE GOL B 910
ChainResidue
BLYS18
BALA19
BLEU242
BALA244
BHOH1050

site_idCC8
Number of Residues8
DetailsBINDING SITE FOR RESIDUE SO4 B 911
ChainResidue
ALYS32
ATYR73
AGLY75
AGOL910
BSER45
BGLN72
BPHE76
BGOL908

site_idCC9
Number of Residues6
DetailsBINDING SITE FOR RESIDUE SO4 B 912
ChainResidue
BALA37
BLEU38
BGLU131
BARG135
BLYS163
BHOH1094

site_idDC1
Number of Residues4
DetailsBINDING SITE FOR RESIDUE PEG B 913
ChainResidue
BMET118
BCYS124
BSER257
BHOH1053

site_idDC2
Number of Residues4
DetailsBINDING SITE FOR RESIDUE PEG B 914
ChainResidue
ALEU113
ALYS114
BLEU113
BLYS114

site_idDC3
Number of Residues3
DetailsBINDING SITE FOR RESIDUE EDO B 915
ChainResidue
BPHE165
BVAL167
BGLY185

site_idDC4
Number of Residues6
DetailsBINDING SITE FOR RESIDUE EDO B 916
ChainResidue
AGLN17
ASER21
AHOH1060
AHOH1087
AHOH1099
BLYS47

site_idDC5
Number of Residues2
DetailsBINDING SITE FOR RESIDUE EDO B 917
ChainResidue
BPRO52
BASP82

site_idDC6
Number of Residues4
DetailsBINDING SITE FOR RESIDUE EDO B 918
ChainResidue
AVAL80
AGLU91
AASN95
BGLN17

site_idDC7
Number of Residues4
DetailsBINDING SITE FOR RESIDUE EDO B 919
ChainResidue
BLEU149
BGLY150
BLEU176
BARG179

site_idDC8
Number of Residues3
DetailsBINDING SITE FOR RESIDUE EDO B 920
ChainResidue
BSER44
BGLU98
BLYS114

site_idDC9
Number of Residues1
DetailsBINDING SITE FOR RESIDUE EDO B 921
ChainResidue
BLEU38

site_idEC1
Number of Residues27
DetailsBINDING SITE FOR RESIDUE NAI C 901
ChainResidue
BALA207
CALA2
CASN121
CGLN122
CTHR125
CGLY150
CLYS151
CVAL152
CTYR170
CASP171
CALA172
CASP173
CALA203
CTHR204
CPRO205
CPRO224
CILE226
CGLU245
CPRO246
CLEU247
CMG903
C2YC904
CHOH1002
CHOH1003
CHOH1009
CHOH1018
CHOH1030

site_idEC2
Number of Residues5
DetailsBINDING SITE FOR RESIDUE NA C 902
ChainResidue
CGLU202
CTHR204
CCYS206
CPRO227
CHOH1039

site_idEC3
Number of Residues6
DetailsBINDING SITE FOR RESIDUE MG C 903
ChainResidue
CTYR129
CGLU245
CLEU247
CILE249
CGLY250
CNAI901

site_idEC4
Number of Residues14
DetailsBINDING SITE FOR RESIDUE 2YC C 904
ChainResidue
CLEU3
CLEU4
CPRO52
CVAL53
CGLY58
CILE59
CILE60
CALA103
CASN121
CNAI901
CHOH1001
CHOH1005
CHOH1007
CHOH1044

site_idEC5
Number of Residues3
DetailsBINDING SITE FOR RESIDUE GOL C 905
ChainResidue
CASP85
DASP85
DMET102

site_idEC6
Number of Residues3
DetailsBINDING SITE FOR RESIDUE EDO C 906
ChainResidue
CMET1
CALA2
CPRO205

site_idEC7
Number of Residues3
DetailsBINDING SITE FOR RESIDUE EDO C 907
ChainResidue
CILE59
CILE60
CGLY61

site_idEC8
Number of Residues3
DetailsBINDING SITE FOR RESIDUE EDO C 908
ChainResidue
CLEU242
CILE243
CALA244

site_idEC9
Number of Residues25
DetailsBINDING SITE FOR RESIDUE NAI D 901
ChainResidue
AHOH1059
DALA2
DASN121
DGLN122
DTHR125
DVAL147
DGLY150
DLYS151
DVAL152
DTYR170
DASP171
DALA172
DALA203
DTHR204
DPRO205
DTHR209
DPRO224
DILE226
DGLU245
DPRO246
DLEU247
DMG903
DHOH1002
DHOH1004
DHOH1011

site_idFC1
Number of Residues5
DetailsBINDING SITE FOR RESIDUE NA D 902
ChainResidue
DGLU202
DTHR204
DCYS206
DPRO227
DHOH1007

site_idFC2
Number of Residues6
DetailsBINDING SITE FOR RESIDUE MG D 903
ChainResidue
DTYR129
DGLU245
DLEU247
DILE249
DGLY250
DNAI901

site_idFC3
Number of Residues13
DetailsBINDING SITE FOR RESIDUE 2YC D 904
ChainResidue
DLEU3
DLEU4
DPRO52
DVAL53
DGLY58
DILE59
DILE60
DPHE63
DALA103
DASN121
DHOH1001
DHOH1005
DHOH1017

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

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PDB entries from 2024-10-30

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