2A7Q

Crystal structure of human dCK complexed with clofarabine and ADP

Structural Biology Knowledgebase: 2A7Q SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.55 Å
  • R-Value Free: 0.246
  • R-Value Work: 0.213

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2A7Q

Classification: transferase

Total Structure Weight: 31590.19

Macromolecule Entities
Molecule Chains Length Organism Details
Deoxycytidine kinase A 263 Homo sapiens EC#: 2.7.1.74 IUBMB
Gene Name(s): DCK Gene View

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

A ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CFB
Query on CFB

A 2-CHLORO-9-(2-DEOXY-2-FLUORO-B -D-ARABINOFURANOSYL)- 9H-PURIN-6-AMINE
CLOFARABINE (Synonym)
C10 H11 Cl F N5 O3
WDDPHFBMKLOVOX-AYQXTPAHSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.55 Å
  • R-Value Free: 0.246
  • R-Value Work: 0.213
  • Space Group: P 43 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 80.14 α = 90.00
b = 80.14 β = 90.00
c = 93.67 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2005-07-05
  • Released Date: 2006-01-24
  • Deposition author(s): Zhang, Y., Secrist III, J.A., Ealick, S.E.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values