6N53

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


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.196 

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
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 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PO4
Query on PO4

Download SDF File 
Download CCD File 
A, B
PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
 Ligand Interaction
GOL
Query on GOL

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Download CCD File 
A, B
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
MG
Query on MG

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Download CCD File 
A, B
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
UZR
Query on UZR

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Download CCD File 
A, B
2'-deoxy-2'-triaza-1,2-dien-2-ium-1-yl-uridine-5'-monophosphate
C9 H13 N5 O8 P
FKBDCNLBVFTTRL-XVFCMESISA-O
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.196 
  • Space Group: F 2 2 2
Unit Cell:
Length (Å)Angle (°)
a = 89.896α = 90.00
b = 142.404β = 90.00
c = 248.566γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
PHENIXphasing
HKL-2000data scaling
HKL-2000data reduction

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