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5FYS

Crystal structure of the catalytic domain of human JARID1B in complex with D-2-hydroxyglutarate

Functional Information from PDB Data
site_idAC1
Number of Residues4
DetailsBINDING SITE FOR RESIDUE ZN A 1754
ChainResidue
ACYS692
ACYS695
ACYS715
AHIS718

site_idAC2
Number of Residues4
DetailsBINDING SITE FOR RESIDUE ZN A 1755
ChainResidue
ACYS706
ACYS708
ACYS723
ACYS725

site_idAC3
Number of Residues5
DetailsBINDING SITE FOR RESIDUE MN A 1756
ChainResidue
AGLU501
AHIS587
A2HG1773
AHOH2089
AHIS499

site_idAC4
Number of Residues1
DetailsBINDING SITE FOR RESIDUE MN A 1757
ChainResidue
AHIS718

site_idAC5
Number of Residues13
DetailsBINDING SITE FOR RESIDUE EPE A 1758
ChainResidue
ATRP504
AMET534
ALEU541
ALEU552
AARG584
ATYR586
AHIS617
ATYR618
ALEU621
AARG623
AHOH2170
AHOH2175
AHOH2324

site_idAC6
Number of Residues6
DetailsBINDING SITE FOR RESIDUE EDO A 1759
ChainResidue
AASP630
ACYS699
APHE700
AMET701
ASER702
AHOH2244

site_idAC7
Number of Residues7
DetailsBINDING SITE FOR RESIDUE EDO A 1760
ChainResidue
AGLY426
AALA427
AASP428
APHE434
ALEU487
ATYR488
AVAL489

site_idAC8
Number of Residues4
DetailsBINDING SITE FOR RESIDUE EDO A 1761
ChainResidue
AARG666
ATYR734
ATHR737
AHOH2326

site_idAC9
Number of Residues5
DetailsBINDING SITE FOR RESIDUE EDO A 1762
ChainResidue
AARG612
AASP630
AMET658
AGLU662
AHOH2229

site_idBC1
Number of Residues2
DetailsBINDING SITE FOR RESIDUE EDO A 1763
ChainResidue
APRO30
AVAL568

site_idBC2
Number of Residues8
DetailsBINDING SITE FOR RESIDUE EDO A 1764
ChainResidue
AASP688
AGLU689
AARG690
AGLN691
AVAL693
AGLY711
ALEU712
ALEU713

site_idBC3
Number of Residues4
DetailsBINDING SITE FOR RESIDUE EDO A 1765
ChainResidue
AGLY524
ATYR525
AHOH2195
AHOH2327

site_idBC4
Number of Residues5
DetailsBINDING SITE FOR RESIDUE EDO A 1766
ChainResidue
AARG670
AVAL674
AILE675
AHOH2134
AHOH2267

site_idBC5
Number of Residues7
DetailsBINDING SITE FOR RESIDUE EDO A 1767
ChainResidue
ATYR425
ASER494
ASER495
AASN591
A2HG1773
AHOH2138
AHOH2189

site_idBC6
Number of Residues1
DetailsBINDING SITE FOR RESIDUE EDO A 1768
ChainResidue
AHIS564

site_idBC7
Number of Residues6
DetailsBINDING SITE FOR RESIDUE EDO A 1769
ChainResidue
ATRP486
ATYR488
AALA599
AASN601
A2HG1773
AHOH2089

site_idBC8
Number of Residues1
DetailsBINDING SITE FOR RESIDUE EDO A 1770
ChainResidue
AASP376

site_idBC9
Number of Residues6
DetailsBINDING SITE FOR RESIDUE EDO A 1771
ChainResidue
AGLU36
AGLU36
AARG65
AARG65
APRO66
APRO68

site_idCC1
Number of Residues1
DetailsBINDING SITE FOR RESIDUE EDO A 1772
ChainResidue
AHIS50

site_idCC2
Number of Residues14
DetailsBINDING SITE FOR RESIDUE 2HG A 1773
ChainResidue
AMN1756
AEDO1767
AEDO1769
AHOH2087
AHOH2089
ATYR488
APHE496
AHIS499
AGLU501
ASER507
AASN509
ATRP519
AHIS587
AALA599

site_idCC3
Number of Residues6
DetailsBINDING SITE FOR RESIDUE CL A 1774
ChainResidue
ALEU90
AASN91
ALEU413
ATHR416
AGLU419
AHOH2072

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues52
DetailsZN_FING: C5HC2 => ECO:0000269|PubMed:26741168, ECO:0000269|PubMed:27214403, ECO:0000269|PubMed:28262558
ChainResidueDetails
ACYS692-MET744

site_idSWS_FT_FI2
Number of Residues4
DetailsBINDING: BINDING => ECO:0000250|UniProtKB:P29375
ChainResidueDetails
ATYR425
ASER507
AASN509
ALYS517

site_idSWS_FT_FI3
Number of Residues3
DetailsBINDING: BINDING => ECO:0000305|PubMed:26741168, ECO:0000305|PubMed:27214403, ECO:0000305|PubMed:28262558
ChainResidueDetails
AHIS499
AGLU501
AHIS587

site_idSWS_FT_FI4
Number of Residues2
DetailsCROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) => ECO:0007744|PubMed:25755297, ECO:0007744|PubMed:28112733
ChainResidueDetails
ALYS769

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PDB entries from 2024-05-01

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