8GRQ

Cryo-EM structure of BRCA1/BARD1 bound to H2AK127-UbcH5c-Ub nucleosome


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.87 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Synthetic E2-Ub-nucleosome conjugates for studying nucleosome ubiquitination.

Ai, H.S.Tong, Z.Deng, Z.Tian, J.Zhang, L.Sun, M.Du, Y.Xu, Z.Shi, Q.Liang, L.Zheng, Q.Li, J.B.Pan, M.Liu, L.

(2023) Chem 


Macromolecules

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Histone H3
A, E
98Homo sapiensMutation(s): 0 
Gene Names: CALMAC_LOCUS17614
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PHAROS:  Q71DI3
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UniProt GroupQ71DI3
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Histone H4
B, F
80Homo sapiensMutation(s): 0 
Gene Names: Dana\GF27365Dana_GF27365GF27365
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Histone H2A type 1-H
C, G
110Homo sapiensMutation(s): 0 
Gene Names: H2ac12Hist1h2ah
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
H2B
D, H
188Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000197903 
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
Breast cancer type 1 susceptibility protein92Homo sapiensMutation(s): 0 
Gene Names: BRCA1RNF53
EC: 2.3.2.27
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GTEx:  ENSG00000012048 
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
BRCA1-associated RING domain protein 1L [auth M]92Homo sapiensMutation(s): 0 
Gene Names: BARD1
EC: 2.3.2.27
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GTEx:  ENSG00000138376 
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
Ubiquitin-conjugating enzyme E2D 3 (UBC4/5 homolog, yeast), isoform CRA_aM [auth N]147Homo sapiensMutation(s): 0 
Gene Names: UBE2D3hCG_2028213
EC: 2.3.2.24 (UniProt), 2.3.2.23 (UniProt)
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GTEx:  ENSG00000109332 
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Entity ID: 5
MoleculeChains LengthOrganismImage
DNA (147-MER)147Homo sapiens
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Entity ID: 6
MoleculeChains LengthOrganismImage
DNA (147-MER)147Homo sapiens
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.87 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, 81621002 and 21977090

Revision History  (Full details and data files)

  • Version 1.0: 2023-04-12
    Type: Initial release
  • Version 1.1: 2024-07-03
    Changes: Data collection