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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

2LY4

HMGB1-facilitated p53 DNA binding occurs via HMG-box/p53 transactivation domain interaction and is regulated by the acidic tail

Functional Information from GO Data
ChainGOidnamespacecontents
A0003677molecular_functionDNA binding
A0005634cellular_componentnucleus
Functional Information from PROSITE/UniProt
site_idPS00353
Number of Residues12
DetailsHMG_BOX_1 HMG box A DNA-binding domain signature. FSKKCsERWKTM
ChainResidueDetails
APHE40-MET51
Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues70
DetailsDNA binding: {"description":"HMG box 1","evidences":[{"source":"PROSITE-ProRule","id":"PRU00267","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI2
Number of Residues12
DetailsRegion: {"description":"LPS binding (delipidated)","evidences":[{"source":"PubMed","id":"21660935","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI3
Number of Residues16
DetailsMotif: {"description":"Nuclear localization signal (NLS) 1","evidences":[{"source":"UniProtKB","id":"P63159","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI4
Number of Residues1
DetailsSite: {"description":"Cleavage; by thrombin:thrombomodulin","evidences":[{"source":"UniProtKB","id":"P10103","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI5
Number of Residues1
DetailsSite: {"description":"Cleavage; by CASP1","evidences":[{"source":"PubMed","id":"24474694","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI6
Number of Residues6
DetailsModified residue: {"description":"N6-acetyllysine","evidences":[{"source":"UniProtKB","id":"P10103","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI7
Number of Residues2
DetailsModified residue: {"description":"Cysteine sulfonic acid (-SO3H); alternate","evidences":[{"source":"UniProtKB","id":"P63159","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI8
Number of Residues1
DetailsModified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"19608861","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI9
Number of Residues1
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"18669648","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"20068231","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"21406692","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI10
Number of Residues1
DetailsModified residue: {"description":"N6-acetyllysine","evidences":[{"source":"UniProtKB","id":"P63158","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI11
Number of Residues5
DetailsCross-link: {"description":"Isoglutamyl lysine isopeptide (Lys-Gln) (interchain with Q-?)","evidences":[{"source":"PubMed","id":"29618516","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI12
Number of Residues8
DetailsMotif: {"description":"TADI"}
ChainResidueDetails
site_idSWS_FT_FI13
Number of Residues8
DetailsMotif: {"description":"TADII"}
ChainResidueDetails
site_idSWS_FT_FI14
Number of Residues1
DetailsModified residue: {"description":"Phosphoserine; by CDK5, PRPK, AMPK, NUAK1 and ATM","evidences":[{"source":"PubMed","id":"10570149","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"11554766","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"15866171","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"17108107","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"17591690","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"17967874","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"21317932","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"28842590","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI15
Number of Residues1
DetailsModified residue: {"description":"Phosphothreonine; by CK1, VRK1 and VRK2","evidences":[{"source":"PubMed","id":"10606744","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"10951572","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"16704422","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"31527692","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI16
Number of Residues1
DetailsModified residue: {"description":"Phosphoserine; by CHEK2, CK1 and PLK3","evidences":[{"source":"PubMed","id":"10570149","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"11447225","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"11551930","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"12810724","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"20041275","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI17
Number of Residues1
DetailsModified residue: {"description":"Phosphoserine; by CDK5 and CDK7","evidences":[{"source":"PubMed","id":"17591690","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"9372954","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI18
Number of Residues1
DetailsModified residue: {"description":"Phosphoserine; by MAPKAPK5","evidences":[{"source":"PubMed","id":"17254968","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI19
Number of Residues1
DetailsModified residue: {"description":"Phosphoserine; by CDK5, DYRK2, HIPK2 and PKC/PRKCG","evidences":[{"source":"PubMed","id":"11740489","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"11780126","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"16377624","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"17349958","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"17591690","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI20
Number of Residues1
DetailsModified residue: {"description":"Phosphothreonine; by TAF1 and GRK5","evidences":[{"source":"PubMed","id":"15053879","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"20124405","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI21
Number of Residues2
DetailsCross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)","evidences":[{"source":"PubMed","id":"21597459","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails

240971

PDB entries from 2025-08-27

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