8HQY

Cryo-EM structure of SSX1 bound to the H2AK119Ub nucleosome at a resolution of 3.05 angstrom

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.05 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history. 


Literature

A Cryptic Basic Groove formed by Ubiquitin and Histone H3 Mediates Selective Recognition of H2AK119Ub Nucleosomes by Synovial Sarcoma X Breakpoint 1 Protein.

Zebin, T., Ai, H.S., Ziyu, X., Guo-Chao, C., Man, P., Liu, L.

(2023) Nat Struct Mol Biol 


Macromolecules

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Histone H3
A, E
97Homo sapiensMutation(s): 0 
Gene Names: CALMAC_LOCUS17614
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UniProt GroupA0A653DHJ5
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Histone H4 (Fragment)83Homo sapiensMutation(s): 0 
Gene Names: N305_08114
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Histone H2A type 1-B/E107Homo sapiensMutation(s): 0 
Gene Names: H2AC4, H2AFM, HIST1H2AB, H2AC8, H2AFA, HIST1H2AE
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PHAROS:  P04908
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UniProt GroupP04908
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Histone H2B type 1-K
D, H
91Homo sapiensMutation(s): 0 
Gene Names: H2BC12, H2BFT, HIRIP1, HIST1H2BK
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Histone H481Homo sapiensMutation(s): 0 
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Histone H2A type 1-B/E106Homo sapiensMutation(s): 0 
Gene Names: HIST1H2AB, H2AFM, HIST1H2AE, H2AFA, H2AC4, H2AC8
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
Protein SSX2I [auth S]23Homo sapiensMutation(s): 0 
Gene Names: SSX2, SSX2A, SSX2B
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
Polyubiquitin-B (Fragment)J [auth U]74Homo sapiensMutation(s): 0 
Gene Names: UBB
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Entity ID: 9
MoleculeChains LengthOrganismImage
DNA (137-MER)K [auth I]136Homo sapiens
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Entity ID: 10
MoleculeChains LengthOrganismImage
DNA (136-MER)L [auth J]136Homo sapiens
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.05 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China22137005, 92253302
Other governmentChina2022TQ0170,2022M720075

Revision History  (Full details and data files)

  • Version 1.0: 2023-09-27
    Type: Initial release