ISDA: 9U5U

Deposition Date 2025-03-21

Release Date 2026-01-14

Last Version Date 2026-01-14

Entry Detail

PDB ID:

9U5U

Keywords:

NUCLEAR PROTEIN/DNA

Title:

The 1:1 cryo-EM structure of BAP1/ASXL1-K351Ub in complex with H2AK119Ub nucleosome

Biological Source:

Source Organism(s):

Homo sapiens (Taxon ID: 9606)

Expression System(s):

Escherichia coli

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

3.12 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

Download Validation Report

Macromolecular Entities

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Histone H3.2
Gene (Uniprot):H3C15, H3C14, H3C13
Chain IDs:A, E
Chain Length:135
Number of Molecules:2
Biological Source:Homo sapiens

UniProt ID:Q71DI3 Pfam ID:PF00125

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Histone H4
Gene (Uniprot):H4C1, H4C2, H4C3, H4C4, H4C5, H4C6, H4C8, H4C9, H4C11, H4C12, H4C13, H4C14, H4C15, H4C16
Chain IDs:B, F
Chain Length:102
Number of Molecules:2
Biological Source:Homo sapiens

UniProt ID:P62805 Pfam ID:PF15511

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Histone H2A type 1-B/E
Gene (Uniprot):H2AC4, H2AC8
Chain IDs:C, G
Chain Length:129
Number of Molecules:2
Biological Source:Homo sapiens

UniProt ID:P04908 Pfam ID:PF00125, PF16211

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Histone H2B type 1-K
Gene (Uniprot):H2BC12
Chain IDs:D, H
Chain Length:125
Number of Molecules:2
Biological Source:Homo sapiens

UniProt ID:O60814 Pfam ID:PF00125

Polymer Type:polydeoxyribonucleotide
Molecule:DNA (147-MER)
Chain IDs:I
Chain Length:147
Number of Molecules:1
Biological Source:Homo sapiens

Polymer Type:polydeoxyribonucleotide
Molecule:DNA (147-MER)
Chain IDs:J
Chain Length:147
Number of Molecules:1
Biological Source:Homo sapiens

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ubiquitin carboxyl-terminal h
Gene (Uniprot):BAP1
Chain IDs:K (auth: L)
Chain Length:711
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:Q92560 Pfam ID:PF01088, PF18031 EC:3.4.19.12

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ubiquitin
Gene (Uniprot):RPS27A
Chain IDs:L (auth: M), N (auth: O)
Chain Length:76
Number of Molecules:2
Biological Source:Homo sapiens

UniProt ID:P62979 Pfam ID:PF00240

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Polycomb group protein ASXL1
Gene (Uniprot):ASXL1
Chain IDs:M (auth: N)
Chain Length:159
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:Q8IXJ9 Pfam ID:PF13919

Ligand Molecules

Primary Citation

Unique Gluing Effect of ASXL1 K351 Monoubiquitination Stimulates PR-DUB-Mediated Nucleosomal H2AK119Ub Deubiquitination

Zhang, T, Zheng, J, Tong, Z, Deng, Z, He, Z, Wu, X, Wang, M, Du, Y, Xu, Z, Tao, S, Tian, X, Deng, H, Pan, M, Ai, H, Liu, L.Show

Biorxiv ? ? ? (2025)

DOI: 10.1101/2025.04.25.650627

Primary Citation of related structures

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