6RTK

CryoEM structure of modified Turnip Yellows Virus devoid of minor capsid protein readthrough domain

PDB DOI: https://doi.org/10.2210/pdb6RTK/pdb
EM Map EMD-10001: EMDB EMDataResource

Classification: VIRUS
Organism(s): Beet western yellows virus-FL1
Mutation(s): No

Deposited: 2019-05-24 Released: 2020-07-08
Deposition Author(s): Trapani, S., Lai Kee Him, J., Hoh, F., Brault, V., Bron, P.
Funding Organization(s): French Infrastructure for Integrated Structural Biology

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.47 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

CryoEM structure of modified Turnip Yellows Virus devoid of minor capsid protein readthrough domain

Trapani, S., Lai Kee Him, J., Boissinot, S., Reinbold, C., Fallet, C., Ancelin, A., Lecorre, F., Hoh, F., Ziegler-Graff, V., Brault, V., Bron, P.

To be published.

Macromolecule Content

Total Structure Weight: 67.57 kDa
Atom Count: 3,208
Modelled Residue Count: 419
Deposited Residue Count: 606
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Major capsid protein	A, B, C	202	Beet western yellows virus-FL1	Mutation(s): 0
UniProt
Find proteins for P09508 (Turnip yellows virus (isolate FL-1)) Explore P09508 Go to UniProtKB: P09508
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P09508
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.47 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	RELION	3
MODEL REFINEMENT	PHENIX	1.15.2-3472
MODEL REFINEMENT	Coot	0.9-preEL(ccpem)

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2020-07-08

Deposition Author(s):

Lai Kee Him, J.

Funding Organization	Location	Grant Number
French Infrastructure for Integrated Structural Biology	France	ANR-10-INSB-05

Revision History (Full details and data files)

Version 1.0: 2020-07-08
Type: Initial release

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.