4GK5

Crystal structure of human Rev3-Rev7-Rev1-Polkappa complex

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.21 Å
  • R-Value Free: 0.281 
  • R-Value Work: 0.232 
  • R-Value Observed: 0.234 

wwPDB Validation   3D Report Full Report



Literature

Structural insights into the assembly of human translesion polymerase complexes

Xie, W., Yang, X., Xu, M., Jiang, T.

(2012) Protein Cell 3: 864-874

  • DOI: 10.1007/s13238-012-2102-x
  • Primary Citation of Related Structures:  
    4GK0, 4GK5

  • PubMed Abstract: 

    • In addition to DNA repair pathways, cells utilize translesion DNA synthesis (TLS) to bypass DNA lesions during replication. During TLS, Y-family DNA polymerase (Polη, Polκ, Polı and Rev1) inserts specific nucleotide opposite preferred DNA lesions, and th ...

    In addition to DNA repair pathways, cells utilize translesion DNA synthesis (TLS) to bypass DNA lesions during replication. During TLS, Y-family DNA polymerase (Polη, Polκ, Polı and Rev1) inserts specific nucleotide opposite preferred DNA lesions, and then Polζ consisting of two subunits, Rev3 and Rev7, carries out primer extension. Here, we report the complex structures of Rev3-Rev7-Rev1(CTD) and Rev3-Rev7-Rev1(CTD)-Polκ(RIR). These two structures demonstrate that Rev1(CTD) contains separate binding sites for Polκ and Rev7. Our BIAcore experiments provide additional support for the notion that the interaction between Rev3 and Rev7 increases the affinity of Rev7 and Rev1. We also verified through FRET experiment that Rev1, Rev3, Rev7 and Polκ form a stable quaternary complex in vivo, thereby suggesting an efficient switching mechanism where the "inserter" polymerase can be immediately replaced by an "extender" polymerase within the same quaternary complex.

    Organizational Affiliation: 

    National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Chaoyang District, Beijing, China.



Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Mitotic spindle assembly checkpoint protein MAD2B A, B238Homo sapiensMutation(s): 1 
Gene Names: MAD2L2, MAD2B, REV7
Find proteins for Q9UI95 (Homo sapiens)
Explore Q9UI95 
Go to UniProtKB:  Q9UI95
NIH Common Fund Data Resources
PHAROS:  Q9UI95
GTEx:  ENSG00000116670
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
DNA polymerase zeta catalytic subunit C, D52Homo sapiensMutation(s): 0 
Gene Names: REV3L, POLZ, REV3
EC: 2.7.7.7
Find proteins for O60673 (Homo sapiens)
Explore O60673 
Go to UniProtKB:  O60673
NIH Common Fund Data Resources
PHAROS:  O60673
GTEx:  ENSG00000009413
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
DNA repair protein REV1 E, F136Homo sapiensMutation(s): 0 
Gene Names: REV1, REV1L
EC: 2.7.7
Find proteins for Q9UBZ9 (Homo sapiens)
Explore Q9UBZ9 
Go to UniProtKB:  Q9UBZ9
NIH Common Fund Data Resources
PHAROS:  Q9UBZ9
GTEx:  ENSG00000135945
Protein Feature View
Expand
  • Reference Sequence
  • Find similar proteins by:  Sequence   |   Structure
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
DNA polymerase kappa G10Homo sapiensMutation(s): 0 
Gene Names: POLK, DINB1
EC: 2.7.7.7
Find proteins for Q9UBT6 (Homo sapiens)
Explore Q9UBT6 
Go to UniProtKB:  Q9UBT6
NIH Common Fund Data Resources
PHAROS:  Q9UBT6
GTEx:  ENSG00000122008
Protein Feature View
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.21 Å
  • R-Value Free: 0.281 
  • R-Value Work: 0.232 
  • R-Value Observed: 0.234 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 119.998α = 90
b = 72.762β = 90
c = 104.653γ = 90
Software Package:
Software NamePurpose
ADSCdata collection
MOLREPphasing
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report


View more in-depth experimental data

Entry History 

Deposition Data

  • Deposited Date: 2012-08-10 
  • Released Date: 2013-03-13 
    • Deposition Author(s): Tao, J., Min, X., Wei, X.

Revision History 

  • Version 1.0: 2013-03-13
    Type: Initial release