6RX9

Crystal structure of TetR from Acinetobacter baumannii AYE

PDB DOI: https://doi.org/10.2210/pdb6RX9/pdb

Classification: TRANSCRIPTION
Organism(s): Acinetobacter baumannii AYE
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2019-06-07 Released: 2020-07-15
Deposition Author(s): Tam, H.K., Sumyk, M., Pos, K.M.
Funding Organization(s): German Research Foundation

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.237
R-Value Work: 0.208
R-Value Observed: 0.209

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

This is version 1.3 of the entry. See complete history.

Literature

Binding of Tetracyclines to Acinetobacter baumannii TetR Involves Two Arginines as Specificity Determinants

Sumyk, M., Himpich, S., Foong, W.E., Herrmann, A., Pos, K.M., Tam, H.K.

(2021) Front Microbiol

DOI: https://doi.org/10.3389/fmicb.2021.711158

Macromolecule Content

Total Structure Weight: 48.54 kDa
Atom Count: 3,217
Modelled Residue Count: 379
Deposited Residue Count: 428
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tetracycline repressor protein class G	A, B	214	Acinetobacter baumannii AYE	Mutation(s): 0 Gene Names: tetR, ABAYE3639
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 Query on SO4 Download Ideal Coordinates CCD File SDF format, chain C [auth B] MOL2 format, chain C [auth B] mmCIF format, chain C [auth B]	C [auth B]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain C [auth B] Interactions & Density Focus chain C [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.237
R-Value Work: 0.208
R-Value Observed: 0.209
Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 43.33	α = 90
b = 85.11	β = 109.46
c = 62.35	γ = 90

Software Package:

Software Name	Purpose
XDS	data reduction
Aimless	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
MrBUMP	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2020-07-15

Deposition Author(s):

Funding Organization	Location	Grant Number
German Research Foundation	Germany	--

Revision History (Full details and data files)

Version 1.0: 2020-07-15
Type: Initial release
Version 1.1: 2021-07-28
Changes: Database references
Version 1.2: 2021-08-11
Changes: Database references
Version 1.3: 2024-01-24
Changes: Data collection, Refinement description

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.