8P0B | pdb_00008p0b

Thogoto virus polymerase in Mode B conformation and bound to 32-mer loop promoter RNA

PDB DOI: https://doi.org/10.2210/pdb8P0B/pdb
NAKB: 8P0B
EM Map EMD-17332: EMDB EMDataResource

Classification: VIRAL PROTEIN
Organism(s): Thogotovirus thogotoense
Expression System: Trichoplusia ni
Mutation(s): No

Deposited: 2023-05-10 Released: 2024-05-22
Deposition Author(s): Cusack, S., Kouba, T.
Funding Organization(s): French National Research Agency

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.87 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 8P0B

This is version 1.1 of the entry. See complete history.

Literature

Thogoto virus polymerase

Kouba, T., Cusack, S.

To be published.

Macromolecule Content

Total Structure Weight: 261.64 kDa
Atom Count: 10,807
Modeled Residue Count: 1,315
Deposited Residue Count: 2,165
Unique protein chains: 3
Unique nucleic acid chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Polymerase acidic protein	A	622	Thogotovirus thogotoense	Mutation(s): 0 Gene Names: Segment 3
UniProt
Find proteins for P27194 (Thogoto virus (isolate SiAr 126)) Explore P27194 Go to UniProtKB: P27194
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P27194
Sequence Annotations Expand
Reference Sequence

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Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
RNA-directed RNA polymerase catalytic subunit	B	710	Thogotovirus thogotoense	Mutation(s): 0 Gene Names: Segment 2 EC: 2.7.7.48
UniProt
Find proteins for O41353 (Thogoto virus (isolate SiAr 126)) Explore O41353 Go to UniProtKB: O41353
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O41353
Sequence Annotations Expand
Reference Sequence

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Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Polymerase basic protein 2	C	769	Thogotovirus thogotoense	Mutation(s): 0 Gene Names: Segment 1
UniProt
Find proteins for Q9YNA4 (Thogoto virus (isolate SiAr 126)) Explore Q9YNA4 Go to UniProtKB: Q9YNA4
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9YNA4
Sequence Annotations Expand
Reference Sequence

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(by identity cutoff)

Molecule	Chains	Length	Organism	Image
Entity ID: 4
3'RNA	D [auth R], E [auth V]	32	Thogotovirus thogotoense
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.87 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2024-05-22

Deposition Author(s):

Funding Organization	Location	Grant Number
French National Research Agency	France	--

Revision History (Full details and data files)

Version 1.0: 2024-05-22
Type: Initial release
Version 1.1: 2025-07-09
Changes: Data collection, Structure summary

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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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.