4MT1

Crystal Structure of the Neisseria gonorrhoeae MtrD Inner Membrane Multidrug Efflux Pump

PDB DOI: https://doi.org/10.2210/pdb4MT1/pdb

Classification: membrane protein, tranport protein
Organism(s): Neisseria gonorrhoeae PID332
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2013-09-18 Released: 2014-08-06
Deposition Author(s): Su, C.-C., Bolla, J.R., Yu, E.W.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.54 Å
R-Value Free: 0.333
R-Value Work: 0.280
R-Value Observed: 0.282

wwPDB Validation 3D Report Full Report

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

Literature

Crystal structure of the open state of the Neisseria gonorrhoeae MtrE outer membrane channel.

Lei, H.T., Chou, T.H., Su, C.C., Bolla, J.R., Kumar, N., Radhakrishnan, A., Long, F., Delmar, J.A., Do, S.V., Rajashankar, K.R., Shafer, W.M., Yu, E.W.

(2014) PLoS One 9: e97475-e97475

PubMed: 24901251 Search on PubMedSearch on PubMed Central
DOI: https://doi.org/10.1371/journal.pone.0097475
Primary Citation of Related Structures:
4MT0, 4MT1

PubMed Abstract:
Active efflux of antimicrobial agents is one of the most important strategies used by bacteria to defend against antimicrobial factors present in their environment. Mediating many cases of antibiotic resistance are transmembrane efflux pumps, composed of one or more proteins. The Neisseria gonorrhoeae MtrCDE tripartite multidrug efflux pump, belonging to the hydrophobic and amphiphilic efflux resistance-nodulation-cell division (HAE-RND) family, spans both the inner and outer membranes of N. gonorrhoeae and confers resistance to a variety of antibiotics and toxic compounds. We here describe the crystal structure of N. gonorrhoeae MtrE, the outer membrane component of the MtrCDE tripartite multidrug efflux system. This trimeric MtrE channel forms a vertical tunnel extending down contiguously from the outer membrane surface to the periplasmic end, indicating that our structure of MtrE depicts an open conformational state of this channel.

Organizational Affiliation

Department of Chemistry, Iowa State University, Ames, Iowa, United States of America.

Macromolecule Content

Total Structure Weight: 112.96 kDa
Atom Count: 7,667
Modelled Residue Count: 1,023
Deposited Residue Count: 1,056
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Drug efflux protein	A	1,056	Neisseria gonorrhoeae PID332	Mutation(s): 0 Gene Names: NGJG_01522
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.54 Å
R-Value Free: 0.333
R-Value Work: 0.280
R-Value Observed: 0.282
Space Group: H 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 152.995	α = 90
b = 152.995	β = 90
c = 360.746	γ = 120

Software Package:

Software Name	Purpose
SCALEPACK	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
ADSC	data collection
HKL-2000	data reduction
PHASER	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2014-08-06

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2014-08-06
Type: Initial release
Version 1.1: 2024-02-28
Changes: Data collection, Database references

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.