8UGQ

CryoEM Structure of Maize Streak Virus (MSV) - Geminivirus

PDB DOI: https://doi.org/10.2210/pdb8UGQ/pdb
EM Map EMD-42232: EMDB EMDataResource
NAKB: 8UGQ

Classification: VIRAL PROTEIN
Organism(s): Maize streak virus - [Nigeria]
Expression System: Agrobacterium tumefaciens
Mutation(s): No

Deposited: 2023-10-05 Released: 2023-11-22
Deposition Author(s): McKenna, R., Bennett, A.B., Mietzsch, M., Hull, J.A.
Funding Organization(s): National Science Foundation (NSF, United States)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.17 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

The two states of Maize Streak Virus (MSV) Geminivirus Architecture

McKenna, R., Bennett, A.B., Mietzsch, M., Hull, J.A.

To be published.

Macromolecule Content

Total Structure Weight: 325.05 kDa
Atom Count: 20,222
Modelled Residue Count: 2,447
Deposited Residue Count: 2,772
Unique protein chains: 1
Unique nucleic acid chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid protein	A C [auth B] E [auth C] G [auth D] I [auth E] A, C [auth B], E [auth C], G [auth D], I [auth E], K [auth F], M [auth G], O [auth H], Q [auth I], S [auth J], U [auth K]	243	Maize streak virus - [Nigeria]	Mutation(s): 0 Gene Names: V1
UniProt
Find proteins for P06448 (Maize streak virus genotype A (isolate Nigeria)) Explore P06448 Go to UniProtKB: P06448
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P06448
Sequence Annotations Expand
Reference Sequence

Find similar nucleic acids by: Sequence | 3D Structure

Entity ID: 2
Molecule	Chains	Length	Organism	Image
DNA (5'-D(PCPGPAPAPCPCPCPCP*A)-3')	B [auth L] D [auth M] F [auth N] H [auth O] J [auth P] B [auth L], D [auth M], F [auth N], H [auth O], J [auth P], L [auth Q], N [auth R], P [auth S], R [auth T], T [auth U], V	9	Maize streak virus - [Nigeria]
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.17 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cisTEM
MODEL REFINEMENT	PHENIX

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2023-11-22

Deposition Author(s):

Funding Organization	Location	Grant Number
National Science Foundation (NSF, United States)	United States	NSF DMS 1563234

Revision History (Full details and data files)

Version 1.0: 2023-11-22
Type: Initial release

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), 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.