6N55

Crystal structure of human uridine-cytidine kinase 2 complexed with 2'-azidouridine


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.085 Å
  • R-Value Free: 0.258 
  • R-Value Work: 0.211 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Incorporation of novel azido-nucleotides into RNA

Nainar, S.Cuthbert, B.J.Goulding, C.W.Spitale, R.C.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Uridine-cytidine kinase 2
A, B, C, D, E, F, G, H
255Homo sapiensMutation(s): 0 
Gene Names: UCK2 (UMPK)
EC: 2.7.1.48
Find proteins for Q9BZX2 (Homo sapiens)
Go to Gene View: UCK2
Go to UniProtKB:  Q9BZX2
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PO4
Query on PO4

Download SDF File 
Download CCD File 
A, B, C, D, E, F, G, H
PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
 Ligand Interaction
UZ0
Query on UZ0

Download SDF File 
Download CCD File 
D, E, F
2'-azido-2'-deoxyuridine
C9 H11 N5 O5
MRUKYOQQKHNMFI-XVFCMESISA-N
 Ligand Interaction
GOL
Query on GOL

Download SDF File 
Download CCD File 
A, B, C, D, E, F, G
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.085 Å
  • R-Value Free: 0.258 
  • R-Value Work: 0.211 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 92.747α = 90.00
b = 85.764β = 95.39
c = 153.367γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data scaling
HKL-2000data reduction
PHENIXphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of Mental Health (NIH/NIMH)United States1R21MH113062

Revision History 

  • Version 1.0: 2019-11-27
    Type: Initial release