5NNH

KSHV uracil-DNA glycosylase, apo form


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.194 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

A structurally conserved motif in gamma-herpesvirus uracil-DNA glycosylases elicits duplex nucleotide-flipping.

Earl, C.Bagneris, C.Zeman, K.Cole, A.Barrett, T.Savva, R.

(2018) Nucleic Acids Res. 46: 4286-4300


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Uracil-DNA glycosylase
A
240Human herpesvirus 8 type P (isolate GK18)Mutation(s): 0 
Gene Names: ORF46
EC: 3.2.2.27
Find proteins for F5HFA1 (Human herpesvirus 8 type P (isolate GK18))
Go to UniProtKB:  F5HFA1
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
A
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.194 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 105.201α = 90.00
b = 53.811β = 93.39
c = 40.811γ = 90.00
Software Package:
Software NamePurpose
DIALSdata reduction
PHASERphasing
REFMACrefinement
REFMACrefinement
Aimlessdata scaling
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Wellcome TrustUnited Kingdom099765/Z/12/Z

Revision History 

  • Version 1.0: 2018-03-21
    Type: Initial release
  • Version 1.1: 2018-04-11
    Type: Data collection, Database references
  • Version 1.2: 2018-05-16
    Type: Data collection, Database references