5YRQ

Crystal structure of Rad5 and Rev1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.246 
  • R-Value Work: 0.205 
  • R-Value Observed: 0.207 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Involvement of budding yeast Rad5 in translesion DNA synthesis through physical interaction with Rev1.

Xu, X.Lin, A.Y.Zhou, C.Y.Blackwell, S.R.Zhang, Y.R.Wang, Z.H.Feng, Q.Q.Guan, R.F.Hanna, M.D.Chen, Z.C.Xiao, W.

(2016) Nucleic Acids Res 44: 5231-5245

  • DOI: https://doi.org/10.1093/nar/gkw183
  • Primary Citation of Related Structures:  
    5YRQ

  • PubMed Abstract: 

    DNA damage tolerance (DDT) is responsible for genomic stability and cell viability by bypassing the replication block. In Saccharomyces cerevisiae DDT employs two parallel branch pathways to bypass the DNA lesion, namely translesion DNA synthesis (TLS) and error-free lesion bypass, which are mediated by sequential modifications of PCNA. Rad5 has been placed in the error-free branch of DDT because it contains an E3 ligase domain required for PCNA polyubiquitination. Rad5 is a multi-functional protein and may also play a role in TLS, since it interacts with the TLS polymerase Rev1. In this study we mapped the Rev1-interaction domain in Rad5 to the amino acid resolution and demonstrated that Rad5 is indeed involved in TLS possibly through recruitment of Rev1. Genetic analyses show that the dual functions of Rad5 can be separated and reconstituted. Crystal structure analysis of the Rad5-Rev1 interaction reveals a consensus RFF motif in the Rad5 N-terminus that binds to a hydrophobic pocket within the C-terminal domain of Rev1 that is highly conserved in eukaryotes. This study indicates that Rad5 plays a critical role in pathway choice between TLS and error-free DDT.


  • Organizational Affiliation

    College of Life Sciences, Capital Normal University, Beijing 100048, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
DNA repair protein RAD5,DNA repair protein REV1A,
B,
C [auth D],
D [auth E]
148Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: RAD5REV2SNM2YLR032WREV1YOR346WO6339
EC: 3.6.4 (PDB Primary Data), 2.7.7 (PDB Primary Data)
UniProt
Find proteins for P32849 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P32849 
Go to UniProtKB:  P32849
Find proteins for P12689 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P12689 
Go to UniProtKB:  P12689
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupsP12689P32849
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.246 
  • R-Value Work: 0.205 
  • R-Value Observed: 0.207 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 58.589α = 90
b = 49.28β = 92.2
c = 103.074γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2019-03-20
    Type: Initial release
  • Version 1.1: 2024-03-27
    Changes: Data collection, Database references