6EY7

Human cytomegalovirus terminase nuclease domain, Mn soaked, inhibitor bound


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.198 
  • R-Value Work: 0.175 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structure-Driven Discovery of alpha,gamma-Diketoacid Inhibitors Against UL89 Herpesvirus Terminase

Bongarzone, S.Nadal, M.Kaczmarska, Z.Machon, C.Alvarez, M.Albericio, F.Coll, M.

(2018) Acs Omega --: --


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
UL89 HCMV terminase
A, B, C, D
279Human cytomegalovirus (strain AD169)Mutation(s): 0 
Gene Names: TRM3
EC: 3.1.-.-
Find proteins for P16732 (Human cytomegalovirus (strain AD169))
Go to UniProtKB:  P16732
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MN
Query on MN

Download SDF File 
Download CCD File 
A, B, C, D
MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
 Ligand Interaction
CL
Query on CL

Download SDF File 
Download CCD File 
D
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
C3W
Query on C3W

Download SDF File 
Download CCD File 
A, B, C, D
4-[(4-fluorophenyl)methyl-methyl-amino]-2,4-bis(oxidanylidene)butanoic acid
C12 H12 F N O4
NPHNLROPKUDMST-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.198 
  • R-Value Work: 0.175 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 81.650α = 90.00
b = 87.650β = 90.00
c = 186.580γ = 90.00
Software Package:
Software NamePurpose
XSCALEdata scaling
BUSTERrefinement
XDSdata reduction
REFMACrefinement
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Ministry of Economy and CompetitivenessSpainBFU2011-22588
Ministry of Economy and CompetitivenessSpainCTQ2012-30930
Ministry of Economy and CompetitivenessSpainCTQ2015-67870P
Ministry of Economy and CompetitivenessSpainBFU2014-53550-P
European UnionBelgiumSILVER-GA 260644

Revision History 

  • Version 1.0: 2018-10-03
    Type: Initial release
  • Version 1.1: 2018-10-17
    Type: Data collection, Database references, Structure summary