7SPJ | pdb_00007spj

Models for C17 reconstruction of Outer Membrane Core Complex (OMCC) of Type IV Secretion System (T4SS) encoded by a plasmid overproducing TraV, TraK and TraB of pED208

PDB DOI: https://doi.org/10.2210/pdb7SPJ/pdb
EM Map EMD-24772: EMDB EMDataResource

Classification: STRUCTURAL PROTEIN
Organism(s): Salmonella enterica subsp. enterica serovar Typhi
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No
Membrane Protein: Yes OPM mpstruc

Deposited: 2021-11-02 Released: 2022-02-02
Deposition Author(s): Liu, X., Khara, P., Baker, M.L., Christie, P.J., Hu, B.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.56 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 7SPJ

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

Literature

Structure of a type IV secretion system core complex encoded by multi-drug resistance F plasmids

Liu, X., Khara, P., Baker, M.L., Christie, P.J., Hu, B.

(2022) Nat Commun 13: 379

DOI: https://doi.org/10.1038/s41467-022-28058-5

Macromolecule Content

Total Structure Weight: 1,167.71 kDa
Atom Count: 29,597
Modeled Residue Count: 3,961
Deposited Residue Count: 11,169
Unique protein chains: 2

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TraV	A [auth AB1] B [auth AB2] C [auth AB3] D [auth AB4] E [auth AB5] A [auth AB1], B [auth AB2], C [auth AB3], D [auth AB4], E [auth AB5], F [auth AB6], G [auth AB7], H [auth AB8], I [auth AB9], J [auth AB10], K [auth AB11], L [auth AB12], M [auth AB13], N [auth AB14], O [auth AB15], P [auth AB16], Q [auth AB17]	204	Salmonella enterica subsp. enterica serovar Typhi	Mutation(s): 0 Gene Names: traV Membrane Entity: Yes
UniProt
Find proteins for Q8KNL2 (Salmonella typhi) Explore Q8KNL2 Go to UniProtKB: Q8KNL2
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q8KNL2
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
TraB	AA [auth EF10] BA [auth EF11] CA [auth EF12] DA [auth EF13] EA [auth EF14] AA [auth EF10], BA [auth EF11], CA [auth EF12], DA [auth EF13], EA [auth EF14], FA [auth EF15], GA [auth EF16], HA [auth EF17], R [auth EF1], S [auth EF2], T [auth EF3], U [auth EF4], V [auth EF5], W [auth EF6], X [auth EF7], Y [auth EF8], Z [auth EF9]	453	Salmonella enterica subsp. enterica serovar Typhi	Mutation(s): 0 Gene Names: traB
UniProt
Find proteins for Q8KNL7 (Salmonella typhi) Explore Q8KNL7 Go to UniProtKB: Q8KNL7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q8KNL7
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.56 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2022-02-02

Deposition Author(s):

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	--

Revision History (Full details and data files)

Version 1.0: 2022-02-02
Type: Initial release
Version 1.1: 2024-10-09
Changes: Data collection, Structure summary

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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.