9UMZ | pdb_00009umz

Cryo-EM structure of the SFTSV NP-RNA complex

PDB DOI: https://doi.org/10.2210/pdb9UMZ/pdb
NAKB: 9UMZ
EM Map EMD-64333: EMDB EMDataResource

Classification: NUCLEAR PROTEIN/RNA
Organism(s): SFTS virus HB29, Escherichia coli
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2025-04-23 Released: 2025-10-22
Deposition Author(s): Wang, Y., Wu, H., Deng, Z.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.98 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

Cryo-EM structure of SFTSV N-RNA complex

Wu, H., Deng, Z.

To be published.

Macromolecule Content

Total Structure Weight: 143.61 kDa
Atom Count: 10,018
Modeled Residue Count: 1,252
Deposited Residue Count: 1,253
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
Nucleoprotein	A, B, C, D, E	245	SFTS virus HB29	Mutation(s): 0 Gene Names: NP
UniProt
Find proteins for P0DW82 (SFTS phlebovirus (isolate SFTSV/Human/China/HB29/2010)) Explore P0DW82 Go to UniProtKB: P0DW82
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P0DW82
Sequence Annotations Expand
Reference Sequence

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(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Length	Organism	Image
RNA (28-MER)	F [auth K]	28	Escherichia coli
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.98 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.20.1_4487
RECONSTRUCTION	Coot

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2025-10-22

Deposition Author(s):

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2025-10-22
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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.