7AE3

Cryo-EM structure of human RNA Polymerase III elongation complex 3


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.10 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

Cryo-EM structures of human RNA polymerase III in its unbound and transcribing states.

Girbig, M.Misiaszek, A.D.Vorlander, M.K.Lafita, A.Grotsch, H.Baudin, F.Bateman, A.Muller, C.W.

(2021) Nat Struct Mol Biol 28: 210-219

  • DOI: https://doi.org/10.1038/s41594-020-00555-5
  • Primary Citation of Related Structures:  
    7A6H, 7AE1, 7AE3, 7AEA

  • PubMed Abstract: 

    RNA polymerase III (Pol III) synthesizes transfer RNAs and other short, essential RNAs. Human Pol III misregulation is linked to tumor transformation, neurodegenerative and developmental disorders, and increased sensitivity to viral infections. Here, we present cryo-electron microscopy structures at 2.8 to 3.3 Å resolution of transcribing and unbound human Pol III. We observe insertion of the TFIIS-like subunit RPC10 into the polymerase funnel, providing insights into how RPC10 triggers transcription termination. Our structures resolve elements absent from Saccharomyces cerevisiae Pol III such as the winged-helix domains of RPC5 and an iron-sulfur cluster, which tethers the heterotrimer subcomplex to the core. The cancer-associated RPC7α isoform binds the polymerase clamp, potentially interfering with Pol III inhibition by tumor suppressor MAF1, which may explain why overexpressed RPC7α enhances tumor transformation. Finally, the human Pol III structure allows mapping of disease-related mutations and may contribute to the development of inhibitors that selectively target Pol III for therapeutic interventions.


  • Organizational Affiliation

    European Molecular Biology Laboratory (EMBL), Structural and Computational Biology Unit, Heidelberg, Germany.


Macromolecules

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase III subunit RPC11,390Homo sapiensMutation(s): 0 
EC: 2.7.7.6
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PHAROS:  O14802
GTEx:  ENSG00000148606 
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase III subunit RPC21,133Homo sapiensMutation(s): 0 
EC: 2.7.7.6
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PHAROS:  Q9NW08
GTEx:  ENSG00000013503 
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerases I and III subunit RPAC1346Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000171453 
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase III subunit RPC9148Homo sapiensMutation(s): 0 
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PHAROS:  O75575
GTEx:  ENSG00000241258 
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerases I, II, and III subunit RPABC1210Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000099817 
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerases I, II, and III subunit RPABC2127Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000100142 
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase III subunit RPC8204Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000100413 
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerases I, II, and III subunit RPABC3150Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000163882 
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase III subunit RPC10108Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000161980 
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerases I, II, and III subunit RPABC567Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000177700 
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerases I and III subunit RPAC2133Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000186184 
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerases I, II, and III subunit RPABC458Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000147669 
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase III subunit RPC5708Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000058600 
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase III subunit RPC4398Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000168495 
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase III subunit RPC3534Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000186141 
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase III subunit RPC6316Homo sapiensMutation(s): 0 
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PHAROS:  Q9H1D9
GTEx:  ENSG00000132664 
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
DNA-directed RNA polymerase III subunit RPC7223Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000113356 
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  • Reference Sequence

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Entity ID: 18
MoleculeChains LengthOrganismImage
RNA19synthetic construct
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Entity ID: 19
MoleculeChains LengthOrganismImage
Non-template DNA46synthetic construct
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Entity ID: 20
MoleculeChains LengthOrganismImage
Template DNA46synthetic construct
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Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
SF4 (Subject of Investigation/LOI)
Query on SF4

Download Ideal Coordinates CCD File 
BA [auth P]IRON/SULFUR CLUSTER
Fe4 S4
LJBDFODJNLIPKO-UHFFFAOYSA-N
ZN
Query on ZN

Download Ideal Coordinates CCD File 
AA [auth L]
U [auth A]
V [auth A]
W [auth B]
X [auth I]
AA [auth L],
U [auth A],
V [auth A],
W [auth B],
X [auth I],
Y [auth I],
Z [auth J]
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
MG
Query on MG

Download Ideal Coordinates CCD File 
CA [auth R]MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONRELION3.1
MODEL REFINEMENTPHENIX1.13

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2021-02-03
    Type: Initial release
  • Version 1.1: 2021-02-17
    Changes: Database references