Loading
PDBj
MenuPDBj@FacebookPDBj@TwitterPDBj@YouTubewwPDB FoundationwwPDB
RCSB PDBPDBeBMRBAdv. SearchSearch help

4HON

Crystal structure of human JMJD2D/KDM4D in complex with an H3K9me3 peptide and 2-oxoglutarate

Functional Information from PDB Data
site_idAC1
Number of Residues14
DetailsBINDING SITE FOR RESIDUE AKG A 401
ChainResidue
ATYR136
ANI402
APDO415
AHOH507
FM3L9
FHOH101
APHE189
AHIS192
AGLU194
ASER200
AASN202
ALYS210
ATRP212
AHIS280

site_idAC2
Number of Residues5
DetailsBINDING SITE FOR RESIDUE NI A 402
ChainResidue
AHIS192
AGLU194
AHIS280
AAKG401
AHOH507

site_idAC3
Number of Residues4
DetailsBINDING SITE FOR RESIDUE ZN A 403
ChainResidue
ACYS238
AHIS244
ACYS310
ACYS312

site_idAC4
Number of Residues3
DetailsBINDING SITE FOR RESIDUE SCN A 404
ChainResidue
ALYS150
AGLN151
ASCN406

site_idAC5
Number of Residues1
DetailsBINDING SITE FOR RESIDUE SCN A 405
ChainResidue
AGLU27

site_idAC6
Number of Residues3
DetailsBINDING SITE FOR RESIDUE SCN A 406
ChainResidue
ALYS58
ATHR149
ASCN404

site_idAC7
Number of Residues6
DetailsBINDING SITE FOR RESIDUE NO3 A 407
ChainResidue
AGLU224
AALA240
APHE241
ALEU242
AHOH664
AHOH683

site_idAC8
Number of Residues7
DetailsBINDING SITE FOR RESIDUE NO3 A 408
ChainResidue
ALYS305
AARG332
ALEU335
ATRP336
AHOH549
BASP302
BMET306

site_idAC9
Number of Residues6
DetailsBINDING SITE FOR RESIDUE NO3 A 409
ChainResidue
ALYS305
AMET321
ATRP336
AGLN340
AHOH630
AHOH652

site_idBC1
Number of Residues8
DetailsBINDING SITE FOR RESIDUE NO3 A 410
ChainResidue
AASP302
AMET306
AHOH602
AHOH697
BLYS305
BARG332
BLEU335
BTRP336

site_idBC2
Number of Residues6
DetailsBINDING SITE FOR RESIDUE NO3 A 411
ChainResidue
AGLU314
AALA315
AARG316
AVAL317
FALA7
FARG8

site_idBC3
Number of Residues6
DetailsBINDING SITE FOR RESIDUE NO3 A 412
ChainResidue
APRO113
ALYS124
AASN128
ATRP185
ALYS186
AHOH510

site_idBC4
Number of Residues1
DetailsBINDING SITE FOR RESIDUE NO3 A 413
ChainResidue
AHOH720

site_idBC5
Number of Residues4
DetailsBINDING SITE FOR RESIDUE NO3 A 414
ChainResidue
ASER67
AVAL98
AGLY99
AARG102

site_idBC6
Number of Residues10
DetailsBINDING SITE FOR RESIDUE PDO A 415
ChainResidue
APHE189
AALA190
AHIS192
ALYS245
AAKG401
AHOH507
AHOH537
FSER10
FTHR11
FHOH101

site_idBC7
Number of Residues6
DetailsBINDING SITE FOR RESIDUE PDO A 416
ChainResidue
ATHR87
ATYR89
APHE231
APRO232
AHOH536
AHOH561

site_idBC8
Number of Residues2
DetailsBINDING SITE FOR RESIDUE PDO A 417
ChainResidue
AGLY142
ASER143

site_idBC9
Number of Residues7
DetailsBINDING SITE FOR RESIDUE PDO A 418
ChainResidue
AMET19
AILE20
BILE20
BPHE21
BHIS22
BTYR34
BHOH570

site_idCC1
Number of Residues14
DetailsBINDING SITE FOR RESIDUE AKG B 401
ChainResidue
BTYR136
BPHE189
BHIS192
BGLU194
BSER200
BASN202
BLYS210
BTRP212
BHIS280
BALA292
BNI402
BHOH508
BHOH524
GM3L9

site_idCC2
Number of Residues5
DetailsBINDING SITE FOR RESIDUE NI B 402
ChainResidue
BHIS192
BGLU194
BHIS280
BAKG401
BHOH508

site_idCC3
Number of Residues4
DetailsBINDING SITE FOR RESIDUE ZN B 403
ChainResidue
BCYS238
BHIS244
BCYS310
BCYS312

site_idCC4
Number of Residues2
DetailsBINDING SITE FOR RESIDUE SCN B 404
ChainResidue
BARG60
BASN65

site_idCC5
Number of Residues3
DetailsBINDING SITE FOR RESIDUE SCN B 405
ChainResidue
BLYS58
BTHR149
BHOH655

site_idCC6
Number of Residues4
DetailsBINDING SITE FOR RESIDUE SCN B 406
ChainResidue
AGLU68
BLYS124
BASN128
BHOH576

site_idCC7
Number of Residues4
DetailsBINDING SITE FOR RESIDUE NO3 B 407
ChainResidue
BGLU224
BALA240
BPHE241
BLEU242

site_idCC8
Number of Residues8
DetailsBINDING SITE FOR RESIDUE NO3 B 408
ChainResidue
APRO217
AGLU218
ATYR277
ATYR303
AHOH625
BASP334
BLEU335
BARG338

site_idCC9
Number of Residues8
DetailsBINDING SITE FOR RESIDUE NO3 B 409
ChainResidue
AASP334
ALEU335
AARG338
BPRO217
BGLU218
BTYR277
BTYR303
BHOH594

site_idDC1
Number of Residues6
DetailsBINDING SITE FOR RESIDUE NO3 B 410
ChainResidue
BLYS124
BASN128
BTRP185
BLYS186
BHOH521
BHOH584

site_idDC2
Number of Residues2
DetailsBINDING SITE FOR RESIDUE PDO B 411
ChainResidue
BILE140
BSER143

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues2
DetailsMOD_RES: Phosphothreonine; by PKC => ECO:0000269|PubMed:20228790
ChainResidueDetails
FTHR6
GTHR6
ALYS210
ALYS245
BTYR136
BASN202
BLYS210
BLYS245

site_idSWS_FT_FI2
Number of Residues2
DetailsMOD_RES: Symmetric dimethylarginine; by PRMT5; alternate => ECO:0000250|UniProtKB:P68433
ChainResidueDetails
FARG8
GARG8
AHIS280
BHIS192
BGLU194
BHIS280

site_idSWS_FT_FI3
Number of Residues2
DetailsMOD_RES: N6-methyllysine; alternate => ECO:0000269|PubMed:11242053, ECO:0000269|PubMed:16185088, ECO:0000269|PubMed:16267050, ECO:0000269|PubMed:16457588, ECO:0000269|PubMed:17194708
ChainResidueDetails
FM3L9
GM3L9
ACYS310
ACYS312
BCYS238
BHIS244
BCYS310
BCYS312

site_idSWS_FT_FI4
Number of Residues2
DetailsMOD_RES: Phosphoserine; alternate; by AURKB, AURKC, RPS6KA3, RPS6KA4 and RPS6KA5 => ECO:0000269|PubMed:10464286, ECO:0000269|PubMed:11856369, ECO:0000269|PubMed:12560483, ECO:0000269|PubMed:15681610, ECO:0000269|PubMed:16185088, ECO:0000269|PubMed:16457588
ChainResidueDetails
FSER10
GSER10
BGLU26
BGLU27

site_idSWS_FT_FI5
Number of Residues2
DetailsMOD_RES: Phosphothreonine; by PKC and CHEK1 => ECO:0000269|PubMed:12560483, ECO:0000269|PubMed:18066052, ECO:0000269|PubMed:18243098, ECO:0000269|PubMed:22901803
ChainResidueDetails
FTHR11
GTHR11

site_idSWS_FT_FI6
Number of Residues2
DetailsMOD_RES: N6-succinyllysine; alternate => ECO:0000269|PubMed:22389435
ChainResidueDetails
FLYS14
GLYS14

222926

PDB entries from 2024-07-24

PDB statisticsPDBj update infoContact PDBjnumon