7VBB

Structure of the post state human RNA Polymerase I Elongation Complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.81 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

Structure of the human RNA polymerase I elongation complex.

Zhao, D.Liu, W.Chen, K.Wu, Z.Yang, H.Xu, Y.

(2021) Cell Discov 7: 97-97

  • DOI: https://doi.org/10.1038/s41421-021-00335-5
  • Primary Citation of Related Structures:  
    7VBA, 7VBB, 7VBC

  • PubMed Abstract: 

    Eukaryotic RNA polymerase I (Pol I) transcribes ribosomal DNA and generates RNA for ribosome synthesis. Pol I accounts for the majority of cellular transcription activity and dysregulation of Pol I transcription leads to cancers and ribosomopathies. Despite extensive structural studies of yeast Pol I, structure of human Pol I remains unsolved. Here we determined the structures of the human Pol I in the pre-translocation, post-translocation, and backtracked states at near-atomic resolution. The single-subunit peripheral stalk lacks contacts with the DNA-binding clamp and is more flexible than the two-subunit stalk in yeast Pol I. Compared to yeast Pol I, human Pol I possesses a more closed clamp, which makes more contacts with DNA. The Pol I structure in the post-cleavage backtracked state shows that the C-terminal zinc ribbon of RPA12 inserts into an open funnel and facilitates "dinucleotide cleavage" on mismatched DNA-RNA hybrid. Critical disease-associated mutations are mapped on Pol I regions that are involved in catalysis and complex organization. In summary, the structures provide new sights into human Pol I complex organization and efficient proofreading.


  • Organizational Affiliation

    Fudan University Shanghai Cancer Center, Institutes of Biomedical Sciences, State Key Laboratory of Genetic Engineering, Shanghai Key Laboratory of Radiation Oncology, and Shanghai Key Laboratory of Medical Epigenetics, Shanghai Medical College of Fudan University, Shanghai, China.


Macromolecules

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase I subunit RPA11,719Homo sapiensMutation(s): 0 
Gene Names: POLR1A
EC: 2.7.7.6
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PHAROS:  O95602
GTEx:  ENSG00000068654 
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase I subunit RPA21,135Homo sapiensMutation(s): 0 
Gene Names: POLR1B
EC: 2.7.7.6
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PHAROS:  Q9H9Y6
GTEx:  ENSG00000125630 
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerases I and III subunit RPAC1346Homo sapiensMutation(s): 0 
Gene Names: POLR1CPOLR1E
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PHAROS:  O15160
GTEx:  ENSG00000171453 
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerases I, II, and III subunit RPABC1D [auth E]210Homo sapiensMutation(s): 0 
Gene Names: POLR2E
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GTEx:  ENSG00000099817 
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerases I, II, and III subunit RPABC2E [auth F]127Homo sapiensMutation(s): 0 
Gene Names: POLR2FPOLRF
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GTEx:  ENSG00000100142 
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerases I, II, and III subunit RPABC3F [auth H]150Homo sapiensMutation(s): 0 
Gene Names: POLR2H
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GTEx:  ENSG00000163882 
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase I subunit RPA12G [auth I]126Homo sapiensMutation(s): 0 
Gene Names: POLR1HRPA12ZNRD1
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GTEx:  ENSG00000066379 
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerases I, II, and III subunit RPABC5H [auth J]67Homo sapiensMutation(s): 0 
Gene Names: POLR2L
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GTEx:  ENSG00000177700 
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerases I and III subunit RPAC2I [auth K]133Homo sapiensMutation(s): 0 
Gene Names: POLR1D
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GTEx:  ENSG00000186184 
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerases I, II, and III subunit RPABC4J [auth L]58Homo sapiensMutation(s): 0 
Gene Names: POLR2K
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GTEx:  ENSG00000147669 
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase I subunit RPA34K [auth N]510Homo sapiensMutation(s): 0 
Gene Names: POLR1GASE1CASTCD3EAPPAF49
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GTEx:  ENSG00000117877 
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase I subunit RPA43L [auth G]338Homo sapiensMutation(s): 0 
Gene Names: POLR1FTWISTNB
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GTEx:  ENSG00000105849 
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase I subunit RPA49419Homo sapiensMutation(s): 0 
Gene Names: POLR1EPAF53PRAF1
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GTEx:  ENSG00000137054 
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Entity ID: 14
MoleculeChains LengthOrganismImage
RNA (5'-R(P*UP*GP*CP*UP*GP*AP*CP*U)-3')N [auth R]8Homo sapiens
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Entity ID: 15
MoleculeChains LengthOrganismImage
DNA (25-MER)O [auth T]25Homo sapiens
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Entity ID: 16
MoleculeChains LengthOrganismImage
DNA (5'-D(*CP*TP*GP*TP*CP*CP*TP*CP*TP*GP*GP*CP*GP*A)-3')P [auth U]14Homo sapiens
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.81 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2022-03-02
    Type: Initial release
  • Version 1.1: 2024-06-19
    Changes: Data collection