8JVB | pdb_00008jvb

Cryo-EM structure of the Type II secretion system protein from Acidithiobacillus caldus

PDB DOI: https://doi.org/10.2210/pdb8JVB/pdb
EM Map EMD-36673: EMDB EMDataResource

Classification: TOXIN
Organism(s): Acidithiobacillus caldus SM-1
Expression System: Escherichia coli B
Mutation(s): No

Deposited: 2023-06-28 Released: 2024-07-03
Deposition Author(s): Liu, R.H., Zhang, K., Feng, Q.S., Dai, X., Fu, Y., Li, Y.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.39 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

Cryo-EM structure of the Type II secretion system protein from Acidithiobacillus caldus

Zhang, K.

To be published.

Macromolecule Content

Total Structure Weight: 749.79 kDa
Atom Count: 38,276
Modeled Residue Count: 5,096
Deposited Residue Count: 7,028
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Type II and III secretion system protein	A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N	502	Acidithiobacillus caldus SM-1	Mutation(s): 0 Gene Names: Atc_2749
UniProt
Find proteins for F9ZTP9 (Acidithiobacillus caldus (strain SM-1)) Explore F9ZTP9 Go to UniProtKB: F9ZTP9
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	F9ZTP9
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.39 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2024-07-03

Deposition Author(s):

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2024-07-03
Type: Initial release
Version 1.1: 2025-07-23
Changes: Data collection, Structure summary

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.