5B0O | pdb_00005b0o

Structure of the FliH-FliI complex

PDB DOI: https://doi.org/10.2210/pdb5B0O/pdb

Classification: HYDROLASE/MOTOR PROTEIN
Organism(s): Salmonella enterica subsp. enterica serovar Typhimurium str. LT2
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2015-11-02 Released: 2016-03-23
Deposition Author(s): Imada, K., Uchida, Y., Kinoshita, M., Namba, K., Minamino, T.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.00 Å
R-Value Free:
0.270 (Depositor), 0.267 (DCC)
R-Value Work:
0.218 (Depositor), 0.214 (DCC)
R-Value Observed:
0.220 (Depositor)

Starting Model: experimental
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Ligand Structure Quality Assessment

This is version 1.3 of the entry. See complete history.

Literature

Insight into the flagella type III export revealed by the complex structure of the type III ATPase and its regulator

Imada, K., Minamino, T., Uchida, Y., Kinoshita, M., Namba, K.

(2016) Proc Natl Acad Sci U S A 113: 3633-3638

PubMed: 26984495 Search on PubMed Search on PubMed Central
DOI: https://doi.org/10.1073/pnas.1524025113
Primary Citation Related Structures:
5B0O

PubMed Abstract:
FliI and FliJ form the FliI6FliJ ATPase complex of the bacterial flagellar export apparatus, a member of the type III secretion system. The FliI6FliJ complex is structurally similar to the α3β3γ complex of F1-ATPase. The FliH homodimer binds to FliI to connect the ATPase complex to the flagellar base, but the details are unknown. Here we report the structure of the homodimer of a C-terminal fragment of FliH (FliHC2) in complex with FliI. FliHC2 shows an unusually asymmetric homodimeric structure that markedly resembles the peripheral stalk of the A/V-type ATPases. The FliHC2-FliI hexamer model reveals that the C-terminal domains of the FliI ATPase face the cell membrane in a way similar to the F/A/V-type ATPases. We discuss the mechanism of flagellar ATPase complex formation and a common origin shared by the type III secretion system and the F/A/V-type ATPases.

Organizational Affiliation

Department of Macromolecular Science, Graduate School of Science, Osaka University, Toyonaka, Osaka 560-0043, Japan; kimada@chem.sci.osaka-u.ac.jp.

Macromolecule Content

Total Structure Weight: 321.67 kDa
Atom Count: 21,982
Modeled Residue Count: 2,858
Deposited Residue Count: 2,944
Unique protein chains: 2

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Flagellum-specific ATP synthase	A, B, C, D	456	Salmonella enterica subsp. enterica serovar Typhimurium str. LT2	Mutation(s): 0 Gene Names: fliI, fla AIII, flaC, STM1972 EC: 3.6.3.14 (PDB Primary Data), 7.1.2.2 (UniProt)
UniProt
Find proteins for P26465 (Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)) Explore P26465 Go to UniProtKB: P26465
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P26465
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Flagellar assembly protein FliH	E, F, G, H, I E, F, G, H, I, J, K, L	140	Salmonella enterica subsp. enterica serovar Typhimurium str. LT2	Mutation(s): 0 Gene Names: fliH, fla AII.3, fla BIII, STM1971
UniProt
Find proteins for P15934 (Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)) Explore P15934 Go to UniProtKB: P15934
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P15934
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ADP Query on ADP Download:Ideal Coordinates CCD File SDF format, chain P [auth D] SDF format, chain O [auth C] SDF format, chain N [auth B] SDF format, chain M [auth A] MOL2 format, chain P [auth D] MOL2 format, chain O [auth C] MOL2 format, chain N [auth B] MOL2 format, chain M [auth A] mmCIF format, chain P [auth D] mmCIF format, chain O [auth C] mmCIF format, chain N [auth B] mmCIF format, chain M [auth A]	M [auth A], N [auth B], O [auth C], P [auth D]	ADENOSINE-5'-DIPHOSPHATE C₁₀ H₁₅ N₅ O₁₀ P₂ XTWYTFMLZFPYCI-KQYNXXCUSA-N		Interactions Focus chain M [auth A] Focus chain N [auth B] Focus chain O [auth C] Focus chain P [auth D] Interactions & Density Focus chain M [auth A] Focus chain N [auth B] Focus chain O [auth C] Focus chain P [auth D]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.00 Å
R-Value Free: 0.270 (Depositor), 0.267 (DCC)
R-Value Work: 0.218 (Depositor), 0.214 (DCC)
R-Value Observed: 0.220 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 133.662	α = 90
b = 147.305	β = 90
c = 164.233	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
MOSFLM	data processing
SCALA	data scaling
PHENIX	phasing

Structure Validation

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Ligand Structure Quality Assessment

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Entry History

Deposition Data

Released Date: 2016-03-23

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2016-03-23
Type: Initial release
Version 1.1: 2016-04-20
Changes: Database references
Version 1.2: 2018-04-18
Changes: Data collection, Database references, Derived calculations
Version 1.3: 2023-11-08
Changes: Data collection, Database references, Refinement description