7APD

Bovine Papillomavirus E1 DNA helicase-replication fork complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.90 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

Unwinding of a DNA replication fork by a hexameric viral helicase.

Javed, A.Major, B.Stead, J.A.Sanders, C.M.Orlova, E.V.

(2021) Nat Commun 12: 5535-5535

  • DOI: https://doi.org/10.1038/s41467-021-25843-6
  • Primary Citation of Related Structures:  
    7APD

  • PubMed Abstract: 

    Hexameric helicases are motor proteins that unwind double-stranded DNA (dsDNA) during DNA replication but how they are optimised for strand separation is unclear. Here we present the cryo-EM structure of the full-length E1 helicase from papillomavirus, revealing all arms of a bound DNA replication fork and their interactions with the helicase. The replication fork junction is located at the entrance to the helicase collar ring, that sits above the AAA + motor assembly. dsDNA is escorted to and the 5´ single-stranded DNA (ssDNA) away from the unwinding point by the E1 dsDNA origin binding domains. The 3´ ssDNA interacts with six spirally-arranged β-hairpins and their cyclical top-to-bottom movement pulls the ssDNA through the helicase. Pulling of the RF against the collar ring separates the base-pairs, while modelling of the conformational cycle suggest an accompanying movement of the collar ring has an auxiliary role, helping to make efficient use of ATP in duplex unwinding.


  • Organizational Affiliation

    Department of Biological Sciences, Birkbeck College, Institute of Structural and Molecular Biology, Malet Street, London, WC1E 7HX, UK.


Macromolecules

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Replication protein E1A [auth G],
H
152Bovine papillomavirusMutation(s): 0 
Gene Names: E1
EC: 3.6.4.12
UniProt
Find proteins for P03116 (Bovine papillomavirus type 1)
Explore P03116 
Go to UniProtKB:  P03116
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP03116
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Replication protein E1
B,
C,
D,
E,
F,
G [auth A]
298Bovine papillomavirusMutation(s): 0 
Gene Names: E1
EC: 3.6.4.12
UniProt
Find proteins for P03116 (Bovine papillomavirus type 1)
Explore P03116 
Go to UniProtKB:  P03116
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP03116
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains LengthOrganismImage
DNA (40-MER)I [auth P]40Bovine papillomavirus
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by:  (by identity cutoff)  |  3D Structure
Entity ID: 4
MoleculeChains LengthOrganismImage
DNA (36-MER)J [auth T]36Bovine papillomavirus
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC2.9
MODEL REFINEMENTCoot
MODEL REFINEMENTPHENIX

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Biotechnology and Biological Sciences Research Council (BBSRC)United KingdomBB/R002622/1
Biotechnology and Biological Sciences Research Council (BBSRC)United KingdomBB/R001685/1

Revision History  (Full details and data files)

  • Version 1.0: 2021-11-17
    Type: Initial release