6NZI | pdb_00006nzi

Low resolution crystal structure of the bacterial multidrug efflux transporter AcrB in the presence of cadmium

PDB DOI: https://doi.org/10.2210/pdb6NZI/pdb

Classification: MEMBRANE PROTEIN
Organism(s): Escherichia coli
Expression System: Escherichia coli
Mutation(s): No
Membrane Protein: Yes OPM PDBTM MemProtMD

Deposited: 2019-02-13 Released: 2019-02-27
Deposition Author(s): Smith, A.T., Rosenzweig, A.C.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 4.44 Å
R-Value Free:
0.320 (Depositor), 0.321 (DCC)
R-Value Work:
0.260 (Depositor), 0.263 (DCC)
R-Value Observed:
0.263 (Depositor)

wwPDB Validation 3D Report Full Report

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

Literature

Low resolution crystal structure of the bacterial multidrug efflux transporter AcrB in the presence of cadmium

Smith, A.T., Rosenzweig, A.C.

To be published.

Macromolecule Content

Total Structure Weight: 113.89 kDa
Atom Count: 7,717
Modeled Residue Count: 1,011
Deposited Residue Count: 1,049
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Efflux pump membrane transporter	A	1,049	Escherichia coli	Mutation(s): 0 Gene Names: acrB Membrane Entity: Yes
UniProt
Find proteins for E2QH56 (Escherichia coli) Explore E2QH56 Go to UniProtKB: E2QH56
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	E2QH56
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CD Query on CD Download:Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain B [auth A] MOL2 format, chain C [auth A] MOL2 format, chain B [auth A] mmCIF format, chain C [auth A] mmCIF format, chain B [auth A]	B [auth A], C [auth A]	CADMIUM ION Cd WLZRMCYVCSSEQC-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Focus chain C [auth A] Interactions & Density Focus chain B [auth A] Focus chain C [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 4.44 Å
R-Value Free: 0.320 (Depositor), 0.321 (DCC)
R-Value Work: 0.260 (Depositor), 0.263 (DCC)
R-Value Observed: 0.263 (Depositor)

Space Group: H 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 144.28	α = 90
b = 144.28	β = 90
c = 519.52	γ = 120

Software Package:

Software Name	Purpose
XDS	data reduction
xia2	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
MrBUMP	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2019-02-27

Deposition Author(s):

Rosenzweig, A.C.

Revision History (Full details and data files)

Version 1.0: 2019-02-27
Type: Initial release
Version 1.1: 2024-03-13
Changes: Data collection, Database references

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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.