9X7K | pdb_00009x7k

core filament of the spirochete periplasmic flagella of Leptospira biflexa wild type

PDB DOI: https://doi.org/10.2210/pdb9X7K/pdb
EM Map EMD-66641: EMDB EMDataResource

Classification: MOTOR PROTEIN
Organism(s): Leptospira biflexa
Mutation(s): No

Deposited: 2025-10-17 Released: 2025-12-24
Deposition Author(s): Kawamoto, A., Nakamura, S., Koizumi, N.
Funding Organization(s): Japan Society for the Promotion of Science (JSPS), Japan Science and Technology

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 4.35 Å
Aggregation State: FILAMENT
Reconstruction Method: SINGLE PARTICLE

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Cooperativity of sheath proteins in the flagellar assembly of Leptospira spirochete

Kawamoto, A., Kuribayashi, T., Morita, M., Nakamura, S., Koizumi, N.

To be published.

Macromolecule Content

Total Structure Weight: 343.96 kDa
Atom Count: 23,892
Modeled Residue Count: 3,080
Deposited Residue Count: 3,091
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Flagellin	A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K	281	Leptospira biflexa	Mutation(s): 0
UniProt
Find proteins for B0SSZ5 (Leptospira biflexa serovar Patoc (strain Patoc 1 / ATCC 23582 / Paris)) Explore B0SSZ5 Go to UniProtKB: B0SSZ5
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	B0SSZ5
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 4.35 Å
Aggregation State: FILAMENT
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC	4.2.1
MODEL REFINEMENT	PHENIX	1.21.1_5286

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2025-12-24

Deposition Author(s):

Funding Organization	Location	Grant Number
Japan Society for the Promotion of Science (JSPS)	Japan	24K02274
Japan Science and Technology	Japan	JPMJPR21E5

Revision History (Full details and data files)

Version 1.0: 2025-12-24
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.