8RT9

Stalk complex full-length structure (TrwJ/VirB5-TrwI/VirB6) from the fully-assembled R388 type IV secretion system determined by cryo-EM.

PDB DOI: https://doi.org/10.2210/pdb8RT9/pdb
EM Map EMD-19483: EMDB EMDataResource

Classification: MEMBRANE PROTEIN
Organism(s): Escherichia coli
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2024-01-25 Released: 2024-06-19
Deposition Author(s): Mace, K., Waksman, G.
Funding Organization(s): Wellcome Trust

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.97 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 a conjugative type 4 secretion system identifies a molecular switch regulating conjugative pilus biogenesis

Mace, K., Waksman, G.

To be published.

Macromolecule Content

Total Structure Weight: 302.57 kDa
Atom Count: 17,866
Modelled Residue Count: 2,395
Deposited Residue Count: 2,855
Unique protein chains: 2

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TrwJ protein	A, B, C, D, E	229	Escherichia coli	Mutation(s): 0 Gene Names: trwJ
UniProt
Find proteins for O50331 (Escherichia coli) Explore O50331 Go to UniProtKB: O50331
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	O50331
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
TrwI protein	F, G, H, I, J	342	Escherichia coli	Mutation(s): 0 Gene Names: trwI
UniProt
Find proteins for O50333 (Escherichia coli) Explore O50333 Go to UniProtKB: O50333
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	O50333
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.97 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.18.2_3874:
RECONSTRUCTION	cryoSPARC

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2024-06-19

Deposition Author(s):

Funding Organization	Location	Grant Number
Wellcome Trust	United Kingdom	098302
Wellcome Trust	United Kingdom	217089
Wellcome Trust	United Kingdom	202679/Z/16/Z
Wellcome Trust	United Kingdom	206166/Z/17/Z

Revision History (Full details and data files)

Version 1.0: 2024-06-19
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 R01GM133198.