9A8W | pdb_00009a8w

Integrative structure of human SNAPc-DNA


Integrative Structure Snapshot

  • Multi-Scale: Yes 
  • Multi-State: No 
  • Ordered-State: No 
  • Deposited Models: 1 
  • Representative Model: 1 

This is version 1.0 of the entry. See complete history


Literature

Structural insights into distinct mechanisms of RNA polymerase II and III recruitment to snRNA promoters

Shah, S.Z.Perry, T.N.Graziadei, A.Cecatiello, V.Kaliyappan, T.Misiaszek, A.D.Muller, C.W.Ramsay, E.P.Vannini, A.

(2025) Nat Commun 

  • DOI: https://doi.org/10.1038/s41467-024-55553-8
  • Primary Citation of Related Structures:  
    9A8W, 9FSO, 9FSP, 9FSQ, 9FSR, 9FSS

  • PubMed Abstract: 

    RNA polymerase III (Pol III) transcribes short, essential RNAs, including the U6 small nuclear RNA (snRNA). At U6 snRNA genes, Pol III is recruited by the snRNA Activating Protein Complex (SNAPc) and a Brf2-containing TFIIIB complex, forming a pre-initiation complex (PIC). Uniquely, SNAPc also recruits Pol II at the remaining splicesosomal snRNA genes (U1, 2, 4 and 5). The mechanism of SNAPc cross-polymerase engagement and the role of the SNAPC2 and SNAPC5 subunits remain poorly defined. Here, we present cryo-EM structures of the full-length SNAPc-containing Pol III PIC assembled on the U6 snRNA promoter in the open and melting states at 3.2-4.2 Å resolution. The structural comparison revealed differences with the Saccharomyces cerevisiae Pol III PIC and the basis of selective SNAPc engagement within Pol III and Pol II PICs. Additionally, crosslinking mass spectrometry localizes SNAPC2 and SNAPC5 near the promoter DNA, expanding upon existing descriptions of snRNA Pol III PIC structure.


  • Organizational Affiliation
    • Human Technopole, Milan, Italy.

Macromolecules

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
snRNA-activating protein complex subunit 2334Homo sapiensMutation(s): 0 
Gene Names: SNAPC2
UniProt & NIH Common Fund Data Resources
Find proteins for Q13487 (Homo sapiens)
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Go to UniProtKB:  Q13487
PHAROS:  Q13487
GTEx:  ENSG00000104976 
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UniProt GroupQ13487
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
snRNA-activating protein complex subunit 3411Homo sapiensMutation(s): 0 
Gene Names: SNAPC3
UniProt & NIH Common Fund Data Resources
Find proteins for Q92966 (Homo sapiens)
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Go to UniProtKB:  Q92966
PHAROS:  Q92966
GTEx:  ENSG00000164975 
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UniProt GroupQ92966
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
snRNA-activating protein complex subunit 598Homo sapiensMutation(s): 0 
Gene Names: SNAPC5
UniProt & NIH Common Fund Data Resources
Find proteins for O75971 (Homo sapiens)
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Go to UniProtKB:  O75971
PHAROS:  O75971
GTEx:  ENSG00000174446 
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UniProt GroupO75971
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
snRNA-activating protein complex subunit 1368Homo sapiensMutation(s): 0 
Gene Names: SNAPC1
UniProt & NIH Common Fund Data Resources
Find proteins for Q16533 (Homo sapiens)
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PHAROS:  Q16533
GTEx:  ENSG00000023608 
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UniProt GroupQ16533
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
snRNA-activating protein complex subunit 41,519Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for Q5SXM2 (Homo sapiens)
Explore Q5SXM2 
Go to UniProtKB:  Q5SXM2
PHAROS:  Q5SXM2
GTEx:  ENSG00000165684 
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UniProt GroupQ5SXM2
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  • Reference Sequence

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Entity ID: 6
MoleculeChains LengthOrganismImage
T strand20N/A
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Entity ID: 7
MoleculeChains LengthOrganismImage
NT strand20N/A
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Experimental Data & Validation

Integrative Structure Snapshot

  • Multi-Scale: Yes 
  • Multi-State: No 
  • Ordered-State: No 
  • Deposited Models: 1 
  • Representative Model: 1 

Structure Validation

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View Summary Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2025-01-15
    Type: Initial release