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4V2W

JMJD2A COMPLEXED WITH NI(II), NOG AND HISTONE H3K27me3 PEPTIDE (16-35)

Functional Information from GO Data
ChainGOidnamespacecontents
C0000786cellular_componentnucleosome
C0003677molecular_functionDNA binding
C0030527molecular_functionstructural constituent of chromatin
Functional Information from PDB Data
site_idAC1
Number of Residues5
DetailsBINDING SITE FOR RESIDUE NI A 501
ChainResidue
AHIS188
AGLU190
AHIS276
AOGA601
AHOH2152

site_idAC2
Number of Residues4
DetailsBINDING SITE FOR RESIDUE ZN A 502
ChainResidue
ACYS234
AHIS240
ACYS306
ACYS308

site_idAC3
Number of Residues3
DetailsBINDING SITE FOR RESIDUE CL A 503
ChainResidue
APHE227
AGLY229
ASER230

site_idAC4
Number of Residues11
DetailsBINDING SITE FOR RESIDUE OGA A 601
ChainResidue
ATYR132
APHE185
AHIS188
AGLU190
ASER196
AASN198
ALYS206
ATRP208
AHIS276
ANI501
AHOH2253

site_idAC5
Number of Residues6
DetailsBINDING SITE FOR RESIDUE GOL A 702
ChainResidue
ATYR59
AASP60
AARG98
APHE283
AHOH2045
AHOH2093

site_idAC6
Number of Residues5
DetailsBINDING SITE FOR RESIDUE NI B 501
ChainResidue
BHIS188
BGLU190
BHIS276
BOGA601
BHOH2137

site_idAC7
Number of Residues4
DetailsBINDING SITE FOR RESIDUE ZN B 502
ChainResidue
BCYS234
BHIS240
BCYS306
BCYS308

site_idAC8
Number of Residues2
DetailsBINDING SITE FOR RESIDUE CL B 503
ChainResidue
BPHE227
BGLY229

site_idAC9
Number of Residues12
DetailsBINDING SITE FOR RESIDUE OGA B 601
ChainResidue
BTYR132
BPHE185
BHIS188
BGLU190
BSER196
BASN198
BLYS206
BTRP208
BHIS276
BNI501
BHOH2136
BHOH2247

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues1
DetailsMOD_RES: Citrulline; alternate => ECO:0000250|UniProtKB:P84243
ChainResidueDetails
CARG17
AASN198
ALYS206
BTYR132
BASN198
BLYS206

site_idSWS_FT_FI2
Number of Residues2
DetailsMOD_RES: N6-methyllysine; alternate => ECO:0000250|UniProtKB:P68431
ChainResidueDetails
CLYS18
CLYS23
BHIS188
BHIS276

site_idSWS_FT_FI3
Number of Residues1
DetailsMOD_RES: Citrulline => ECO:0000250|UniProtKB:P84243
ChainResidueDetails
CARG26
BGLU190

site_idSWS_FT_FI4
Number of Residues1
DetailsMOD_RES: N6-methyllysine; alternate => ECO:0000250|UniProtKB:P68432
ChainResidueDetails
CM3L27
AHIS240
ACYS306
ACYS308
BCYS234
BHIS240
BCYS306
BCYS308

site_idSWS_FT_FI5
Number of Residues1
DetailsMOD_RES: Phosphoserine; alternate; by AURKB, AURKC and RPS6KA5 => ECO:0007744|PubMed:18691976
ChainResidueDetails
CSER28
BLYS241

site_idSWS_FT_FI6
Number of Residues2
DetailsMOD_RES: N-acetylalanine => ECO:0007744|PubMed:19413330
ChainResidueDetails
AALA2
BALA2

Catalytic Information from CSA
site_idMCSA1
Number of Residues6
DetailsM-CSA 370
ChainResidueDetails
AGLY170hydrogen bond acceptor, steric role
ATYR177hydrogen bond donor, steric role
AHIS188metal ligand
AGLU190attractive charge-charge interaction, hydrogen bond acceptor, metal ligand, steric role
AHIS276metal ligand
ASER288hydrogen bond donor, steric role

site_idMCSA2
Number of Residues6
DetailsM-CSA 370
ChainResidueDetails
BGLY170hydrogen bond acceptor, steric role
BTYR177hydrogen bond donor, steric role
BHIS188metal ligand
BGLU190attractive charge-charge interaction, hydrogen bond acceptor, metal ligand, steric role
BHIS276metal ligand
BSER288hydrogen bond donor, steric role

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PDB entries from 2025-06-11

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