6YPT

X-ray structure of Turnip Yellow Mosaic Virus PRO/DUB in complex with Ubiquitin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.66 Å
  • R-Value Free: 0.283 
  • R-Value Work: 0.206 
  • R-Value Observed: 0.209 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

X-ray structure of Turnip Yellow Mosaic Virus PRO/DUB in complex with Ubiquitin

Fieulaine, S.Bressanelli, S.

(2020) J Biol Chem 


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
RNA replicase polyproteinA, C160Turnip yellow mosaic virusMutation(s): 0 
EC: 2.1.1 (PDB Primary Data), 3.4.22 (PDB Primary Data), 3.6.4 (PDB Primary Data), 2.7.7.48 (PDB Primary Data)
Find proteins for P10358 (Turnip yellow mosaic virus)
Explore P10358 
Go to UniProtKB:  P10358
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Polyubiquitin-CB, D86Homo sapiensMutation(s): 0 
Gene Names: UBC
Find proteins for P0CG48 (Homo sapiens)
Explore P0CG48 
Go to UniProtKB:  P0CG48
NIH Common Fund Data Resources
PHAROS:  P0CG48
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GVE
Query on GVE

Download Ideal Coordinates CCD File 
E [auth A], F [auth C]METHYL 4-AMINOBUTANOATE
C5 H11 N O2
KVQGGLZHHFGHPU-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.66 Å
  • R-Value Free: 0.283 
  • R-Value Work: 0.206 
  • R-Value Observed: 0.209 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 37.93α = 90
b = 51.86β = 98.37
c = 125.25γ = 90
Software Package:
Software NamePurpose
XDSdata reduction
XSCALEdata scaling
PHASERphasing
PHENIXrefinement
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
French National Research AgencyFrance11-BSV8-011

Revision History  (Full details and data files)

  • Version 1.0: 2020-08-05
    Type: Initial release