6K7S

Crystal structure of thymidylate synthase from shrimp

  • Classification: TRANSFERASE
  • Organism(s): Penaeus vannamei
  • Expression System: Escherichia coli
  • Mutation(s): No 

  • Deposited: 2019-06-08 Released: 2020-06-10 
  • Deposition Author(s): Ma, Q., Zang, K., Liu, C.
  • Funding Organization(s): Other government, Chinese Academy of Sciences, National Natural Science Foundation of China

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.56 Å
  • R-Value Free: 0.198 
  • R-Value Work: 0.160 
  • R-Value Observed: 0.162 

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Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history. 


Literature

Structural analysis of a shrimp thymidylate synthase reveals species-specific interactions with dUMP and raltitrexed.

Liu, C., Zang, K., Li, S., Li, F., Ma, Q.

(2020) J Oceanol Limnol 38: 1891-1899


Macromolecules
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(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Thymidylate synthase
A, B
292Penaeus vannameiMutation(s): 0 
Gene Names: TS
EC: 2.1.1.45
UniProt
Find proteins for A0A423U5Z1 (Penaeus vannamei)
Explore A0A423U5Z1 
Go to UniProtKB:  A0A423U5Z1
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A423U5Z1
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.56 Å
  • R-Value Free: 0.198 
  • R-Value Work: 0.160 
  • R-Value Observed: 0.162 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 119.653α = 90
b = 83.674β = 92.26
c = 55.157γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


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Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Other governmentChina1000 talent program
Chinese Academy of SciencesChina100 talent program
National Natural Science Foundation of ChinaChina--
National Natural Science Foundation of ChinaChina--

Revision History  (Full details and data files)

  • Version 1.0: 2020-06-10
    Type: Initial release
  • Version 1.1: 2021-06-30
    Changes: Database references
  • Version 1.2: 2023-11-22
    Changes: Data collection, Database references, Refinement description