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4D6S

crystal structure of human JMJD2D in complex with N-OXALYLGLYCINE and bound 5,6-Dimethylbenzimidazole

Functional Information from PDB Data
site_idAC1
Number of Residues4
DetailsBINDING SITE FOR RESIDUE ZN A 1338
ChainResidue
ACYS238
AHIS244
ACYS310
ACYS312

site_idAC2
Number of Residues5
DetailsBINDING SITE FOR RESIDUE NI A 1339
ChainResidue
AHIS192
AGLU194
AHIS280
AOGA1341
AHOH2273

site_idAC3
Number of Residues4
DetailsBINDING SITE FOR RESIDUE DMD A 1340
ChainResidue
ATYR277
AMET306
AHOH2282
AHOH2304

site_idAC4
Number of Residues13
DetailsBINDING SITE FOR RESIDUE OGA A 1341
ChainResidue
ATYR136
APHE189
AHIS192
AGLU194
ASER200
AASN202
ALYS210
AHIS280
AALA292
ANI1339
AEDO1343
AHOH2273
AHOH2384

site_idAC5
Number of Residues2
DetailsBINDING SITE FOR RESIDUE EDO A 1342
ChainResidue
AASN106
AHOH2108

site_idAC6
Number of Residues7
DetailsBINDING SITE FOR RESIDUE EDO A 1343
ChainResidue
ATYR179
ATYR181
AGLU194
AALA292
AASN294
AOGA1341
AHOH2273

site_idAC7
Number of Residues7
DetailsBINDING SITE FOR RESIDUE EDO A 1344
ChainResidue
ALYS150
AGLN151
ATRP152
AASN153
AHIS156
AHOH2049
AHOH2050

site_idAC8
Number of Residues6
DetailsBINDING SITE FOR RESIDUE EDO A 1345
ChainResidue
AGLU39
ATHR297
APRO298
AARG299
AHOH2061
AHOH2385

site_idAC9
Number of Residues6
DetailsBINDING SITE FOR RESIDUE EDO A 1346
ChainResidue
ASER80
ATHR87
APHE231
ALYS305
AHOH2265
AHOH2314

site_idBC1
Number of Residues4
DetailsBINDING SITE FOR RESIDUE EDO A 1347
ChainResidue
AMET19
AILE20
AHOH2021
AHOH2386

site_idBC2
Number of Residues8
DetailsBINDING SITE FOR RESIDUE EDO A 1348
ChainResidue
ASER143
ATHR159
AGLN161
AASP162
AGLY174
AVAL175
AEDO1350
AHOH2233

site_idBC3
Number of Residues6
DetailsBINDING SITE FOR RESIDUE EDO A 1349
ChainResidue
AGLY84
ATRP126
ASER250
AHOH2218
AHOH2333
AHOH2388

site_idBC4
Number of Residues8
DetailsBINDING SITE FOR RESIDUE EDO A 1350
ChainResidue
APHE145
AASP146
AGLU147
AASN153
AHIS156
AASP162
AEDO1348
AHOH2257

site_idBC5
Number of Residues6
DetailsBINDING SITE FOR RESIDUE EDO A 1351
ChainResidue
APHE118
AGLU122
AARG263
AILE264
ATHR265
AHOH2389

site_idBC6
Number of Residues5
DetailsBINDING SITE FOR RESIDUE DMS A 1352
ChainResidue
APRO113
ALYS124
AASN128
ATRP185
ALYS186

site_idBC7
Number of Residues3
DetailsBINDING SITE FOR RESIDUE SO4 A 1353
ChainResidue
ALYS124
ALYS127
AASN128

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues4
DetailsBINDING: BINDING => ECO:0000250|UniProtKB:B2RXH2
ChainResidueDetails
ATYR136
AASN202
ALYS210
ALYS245

site_idSWS_FT_FI2
Number of Residues3
DetailsBINDING: BINDING => ECO:0000255|PROSITE-ProRule:PRU00538, ECO:0000305|PubMed:26741168
ChainResidueDetails
AHIS192
AGLU194
AHIS280

site_idSWS_FT_FI3
Number of Residues4
DetailsBINDING: BINDING => ECO:0007744|PDB:5F5A, ECO:0007744|PDB:5F5C
ChainResidueDetails
ACYS238
AHIS244
ACYS310
ACYS312

site_idSWS_FT_FI4
Number of Residues2
DetailsMOD_RES: PolyADP-ribosyl glutamic acid => ECO:0000269|PubMed:23102699
ChainResidueDetails
AGLU26
AGLU27

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PDB entries from 2024-07-24

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