6J8Y

Crystal structure of the human RAD9-HUS1-RAD1-RHINO complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.258 
  • R-Value Work: 0.218 
  • R-Value Observed: 0.221 

Starting Model: experimental
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This is version 1.3 of the entry. See complete history


Literature

Structure of the RAD9-RAD1-HUS1 checkpoint clamp bound to RHINO sheds light on the other side of the DNA clamp.

Hara, K.Iida, N.Tamafune, R.Ohashi, E.Sakurai, H.Ishikawa, Y.Hishiki, A.Hashimoto, H.

(2020) J Biol Chem 295: 899-904

  • DOI: https://doi.org/10.1074/jbc.AC119.011816
  • Primary Citation of Related Structures:  
    6J8Y

  • PubMed Abstract: 

    DNA clamp, a highly conserved ring-shaped protein, binds dsDNA within its central pore. Also, DNA clamp interacts with various nuclear proteins on its front, thereby stimulating their enzymatic activities and biological functions. It has been assumed that the DNA clamp is a functionally single-faced ring from bacteria to humans. Here, we report the crystal structure of the heterotrimeric RAD9-RAD1-HUS1 (9-1-1) checkpoint clamp bound to a peptide of RHINO, a recently identified cancer-related protein that interacts with 9-1-1 and promotes activation of the DNA damage checkpoint. This is the first structure of 9-1-1 bound to its partner. The structure reveals that RHINO is unexpectedly bound to the edge and around the back of the 9-1-1 ring through specific interactions with the RAD1 subunit of 9-1-1. Our finding indicates that 9-1-1 is a functionally double-faced DNA clamp.


  • Organizational Affiliation

    School of Pharmaceutical Sciences, University of Shizuoka, Yada 52-1, Suruga-ku, Shizuoka, Shizuoka 422-8002, Japan.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Cell cycle checkpoint control protein RAD9A270Homo sapiensMutation(s): 0 
Gene Names: RAD9A
EC: 3.1.11.2
UniProt & NIH Common Fund Data Resources
Find proteins for Q99638 (Homo sapiens)
Explore Q99638 
Go to UniProtKB:  Q99638
PHAROS:  Q99638
GTEx:  ENSG00000172613 
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UniProt GroupQ99638
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Checkpoint protein HUS1286Homo sapiensMutation(s): 0 
Gene Names: HUS1
UniProt & NIH Common Fund Data Resources
Find proteins for O60921 (Homo sapiens)
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Go to UniProtKB:  O60921
PHAROS:  O60921
GTEx:  ENSG00000136273 
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UniProt GroupO60921
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Cell cycle checkpoint protein RAD1282Homo sapiensMutation(s): 0 
Gene Names: RAD1REC1
EC: 3.1.11.2
UniProt & NIH Common Fund Data Resources
Find proteins for O60671 (Homo sapiens)
Explore O60671 
Go to UniProtKB:  O60671
PHAROS:  O60671
GTEx:  ENSG00000113456 
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UniProt GroupO60671
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  • Reference Sequence

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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
RAD9, HUS1, RAD1-interacting nuclear orphan protein 120Homo sapiensMutation(s): 0 
Gene Names: RHNO1
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BSD3 (Homo sapiens)
Explore Q9BSD3 
Go to UniProtKB:  Q9BSD3
PHAROS:  Q9BSD3
GTEx:  ENSG00000171792 
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UniProt GroupQ9BSD3
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.258 
  • R-Value Work: 0.218 
  • R-Value Observed: 0.221 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 52.937α = 90
b = 136.19β = 90
c = 154.043γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing
Cootmodel building

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2019-12-04
    Type: Initial release
  • Version 1.1: 2019-12-11
    Changes: Database references
  • Version 1.2: 2020-02-05
    Changes: Database references
  • Version 1.3: 2023-11-22
    Changes: Data collection, Database references, Refinement description