8Z5W | pdb_00008z5w

Cryo-EM structure of the LRR protein within the polar flagellar motor

PDB DOI: https://doi.org/10.2210/pdb8Z5W/pdb
EM Map EMD-39786: EMDB EMDataResource

Classification: MOTOR PROTEIN
Organism(s): Vibrio alginolyticus
Mutation(s): No

Deposited: 2024-04-18 Released: 2025-10-22
Deposition Author(s): Zhang, L., Tan, J.X., Zhou, Y., Zhu, Y.Q.
Funding Organization(s): National Natural Science Foundation of China (NSFC), Ministry of Science and Technology (MoST, China)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.46 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Starting Model: in silico
View more details

wwPDB Validation 3D Report Full Report

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

Literature

Cryo-EM structure of the LRR protein within the polar flagellar motor

Zhang, L., Tan, J.X., Zhou, Y., Zhu, Y.Q.

To be published.

Macromolecule Content

Total Structure Weight: 1,464.24 kDa
Atom Count: 36,128
Modeled Residue Count: 4,810
Deposited Residue Count: 13,392
Unique protein chains: 6

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Leucine-rich repeat protein	A [auth 0], B [auth 9]	199	Vibrio alginolyticus	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

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(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Flagellar basal-body rod protein FlgG	C [auth A] S [auth B] T [auth C] U [auth AP] V [auth AQ] C [auth A], S [auth B], T [auth C], U [auth AP], V [auth AQ], W [auth AR]	262	Vibrio alginolyticus	Mutation(s): 0
UniProt
Find proteins for A0A0H0YB44 (Vibrio alginolyticus) Explore A0A0H0YB44 Go to UniProtKB: A0A0H0YB44
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A0H0YB44
Sequence Annotations Expand
Reference Sequence

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(by identity cutoff) | 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Flagellar M-ring protein	D [auth AA] E [auth AB] F [auth AC] G [auth AD] H [auth AE] D [auth AA], E [auth AB], F [auth AC], G [auth AD], H [auth AE], I [auth AF], J [auth AG], K [auth AH], L [auth AI], M [auth AJ], N [auth AK], O [auth AL], P [auth AM], Q [auth AN], R [auth AO]	580	Vibrio alginolyticus	Mutation(s): 0
UniProt
Find proteins for Q75N27 (Vibrio alginolyticus) Explore Q75N27 Go to UniProtKB: Q75N27
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q75N27
Sequence Annotations Expand
Reference Sequence

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(by identity cutoff) | 3D Structure

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Flagellar basal body rod protein FlgB	AA [auth e], BA [auth f], X [auth b], Y [auth c], Z [auth d]	131	Vibrio alginolyticus	Mutation(s): 0
UniProt
Find proteins for A0A0G9LZG6 (Vibrio alginolyticus) Explore A0A0G9LZG6 Go to UniProtKB: A0A0G9LZG6
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A0G9LZG6
Sequence Annotations Expand
Reference Sequence

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(by identity cutoff) | 3D Structure

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
Flagellar basal-body rod protein FlgC	CA [auth g] DA [auth h] EA [auth i] FA [auth j] GA [auth k] CA [auth g], DA [auth h], EA [auth i], FA [auth j], GA [auth k], HA [auth l]	137	Vibrio alginolyticus	Mutation(s): 0
UniProt
Find proteins for A0A0G9LZH2 (Vibrio alginolyticus) Explore A0A0G9LZH2 Go to UniProtKB: A0A0G9LZH2
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A0G9LZH2
Sequence Annotations Expand
Reference Sequence

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(by identity cutoff) | 3D Structure

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
Flagellar basal-body rod protein FlgF	IA [auth m], JA [auth n], KA [auth o], LA [auth p], MA [auth q]	249	Vibrio alginolyticus	Mutation(s): 0
UniProt
Find proteins for A0A0G9M4M9 (Vibrio alginolyticus) Explore A0A0G9M4M9 Go to UniProtKB: A0A0G9M4M9
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A0G9M4M9
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.46 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC
MODEL REFINEMENT	PHENIX	1.20.1_4487:

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
National Natural Science Foundation of China (NSFC)	China	81925024
National Natural Science Foundation of China (NSFC)	China	U23A20163
Ministry of Science and Technology (MoST, China)	China	2017YFA0503900