Crystal structure of RS21-C6 core segment and dm5CTP complex

Experimental Data Snapshot

  • Resolution: 3.30 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.230 

wwPDB Validation   3D Report Full Report

Ligand Structure Quality Assessment 

This is version 1.4 of the entry. See complete history


Crystal Structure of RS21-C6, Involved in Nucleoside Triphosphate Pyrophosphohydrolysis

Wu, B.Liu, Y.Zhao, Q.Liao, S.Zhang, J.Bartlam, M.Chen, W.Rao, Z.

(2007) J Mol Biol 367: 1405-1412

  • DOI: https://doi.org/10.1016/j.jmb.2007.01.057
  • Primary Citation of Related Structures:  
    2OIE, 2OIG

  • PubMed Abstract: 

    RS21-C6, which is highly expressed in all vertebrate genomes and green plants, is proposed to have nucleoside triphosphate pyrophosphohydrolase activity. Here, we report the crystal structures of the core fragment of RS21-C6, named RSCUT, and the complex with the substrate 5-methyl dCTP. The refined structure of RSCUT consists mainly of alpha-helices and shows formation of a tightly associated tetramer. On the basis of the structure of the RSCUT-m5dCTP complex and the results of pyrophosphatase activity assays, several key residues involved in the substrate binding of RS21-C6 have been identified. Tetramer formation is shown to be required for substrate binding.

  • Organizational Affiliation

    Tsinghua-IBP-Nankai Joint Research Group for Structural Biology, Tsinghua University, Beijing 100084, China.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
A, B, C, D
111Mus musculusMutation(s): 0 
Find proteins for Q9QY93 (Mus musculus)
Explore Q9QY93 
Go to UniProtKB:  Q9QY93
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9QY93
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on 523

Download Ideal Coordinates CCD File 
E [auth B],
F [auth D]
C10 H19 N3 O13 P3
Experimental Data & Validation

Experimental Data

  • Resolution: 3.30 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.230 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 58.188α = 90
b = 81.883β = 90
c = 87.123γ = 90
Software Package:
Software NamePurpose
MAR345dtbdata collection
MAR345data collection
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report

Ligand Structure Quality Assessment 

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2007-03-06
    Type: Initial release
  • Version 1.1: 2008-05-01
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2017-10-18
    Changes: Refinement description
  • Version 1.4: 2023-10-25
    Changes: Data collection, Database references, Derived calculations, Refinement description