3N2I

2.25 Angstrom resolution crystal structure of a thymidylate kinase (tmk) from Vibrio cholerae O1 biovar eltor str. N16961 in complex with thymidine


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.261
  • R-Value Work: 0.206

Literature

Macromolecules
Sequence Display for 3N2I

Classification: TRANSFERASE

Total Structure Weight: 53433.00

Macromolecule Entities
Molecule Chains Length Organism Details
Thymidylate kinase A, B 236 Vibrio cholerae EC#: 2.7.4.9 IUBMB
Gene Name(s): tmk VC_2016
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
THM
Query on THM

A, B THYMIDINE
DEOXYTHYMIDINE; 2'-DEOXYTHYMIDINE (Synonym)
C10 H14 N2 O5
IQFYYKKMVGJFEH-XLPZGREQSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A, B CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

Unit Cell:

Length (Å) Angle (°)
a = 92.60 α = 90.00
b = 92.60 β = 90.00
c = 231.54 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2010-05-18
  • Released Date: 2010-06-02
  • Deposition author(s): Halavaty, A.S., Minasov, G., Shuvalova, L., Winsor, J., Dubrovska, I., Peterson, S., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

Revision History

  • Version 1_0: 2010-06-02

    Type: Initial release

  • Version 1_1: 2011-07-13

    Type: Source and taxonomy, Version format compliance

  • Version 1_2: 2017-11-08

    Type: Refinement description