Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Dihedral - D2  (3D View)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 51.54 kDa 
• Atom Count: 3564 
• Modelled Residue Count: 400 
• Deposited Residue Count: 444 
• Unique protein chains: 1

2OIG

Crystal structure of RS21-C6 core segment and dm5CTP complex

• PDB DOI: 10.2210/pdb2OIG/pdb

• Classification: HYDROLASE
• Organism(s): Mus musculus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2007-01-11 Released: 2007-03-06 
• Deposition Author(s): Wu, B., Liu, Y., Zhao, Q., Liao, S., Zhang, J., Bartlam, M., Chen, W., Rao, Z.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.30 Å
• R-Value Free: 0.288 
• R-Value Work: 0.230 

Literature

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

• PubMed: 17320107 
• DOI: 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.

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Organizational Affiliation: 

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

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RS21-C6	A, B, C, D	111	Mus musculus	Mutation(s): 0  Gene Names: Dctpp1, Tdrg-TL1 EC: 3.6.1.12
UniProt
Find proteins for Q9QY93 (Mus musculus) Explore Q9QY93  Go to UniProtKB:  Q9QY93

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
523	E [auth B], F [auth D]	2'-DEOXY-5-METHYLCYTIDINE 5'-(TETRAHYDROGEN TRIPHOSPHATE) C10 H19 N3 O13 P3 VSWHQKSDLZFLRY-XLPZGREQSA-O

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• 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 = 58.188	α = 90
b = 81.883	β = 90
c = 87.123	γ = 90

Software Package:

Software Name	Purpose
MAR345dtb	data collection
CNS	refinement
MAR345	data collection
HKL-2000	data reduction
HKL-2000	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2007-01-11 
• Released Date: 2007-03-06 
Deposition Author(s): Wu, B., Liu, Y., Zhao, Q., Liao, S., Zhang, J., Bartlam, M., Chen, W., Rao, Z.

Revision History  

• 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