2NOA

The structure of deoxycytidine kinase complexed with lamivudine and ADP.

Structural Biology Knowledgebase: 2NOA SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.233
  • R-Value Work: 0.192

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2NOA

Classification: TRANSFERASE

Total Structure Weight: 66632.71

Macromolecule Entities
Molecule Chains Length Organism Details
deoxycytidine kinase A, B 280 Homo sapiens EC#: 2.7.1.74 IUBMB
Mutation: C9S, C45S, C59S, C146S
Gene Name(s): DCK Gene View

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

A, B ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
3TC
Query on 3TC

A, B 4-AMINO-1-[(2R,5S)-2-(HYDROXYMETHYL)-1,3- OXATHIOLAN-5-YL]PYRIMIDIN-2(1H)-ONE
(-)-L-2',3'-DIDEOXY-3'-THIACYTIDINE; LAMIVUDINE; EPIVIR (Synonym)
C8 H11 N3 O3 S
JTEGQNOMFQHVDC-NKWVEPMBSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.233
  • R-Value Work: 0.192
  • Space Group: C 2 2 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 52.64 α = 90.00
b = 134.24 β = 90.00
c = 154.86 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2006-10-25
  • Released Date: 2007-02-13
  • Deposition author(s): Sabini, E., Lavie, A.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4