4D5C | pdb_00004d5c

tetracycline repressor class J, apo form

PDB DOI: https://doi.org/10.2210/pdb4D5C/pdb

Classification: TRANSCRIPTION
Organism(s): Proteus mirabilis
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2014-11-03 Released: 2016-01-20
Deposition Author(s): Palm, G.J., Quast, J., Hinrichs, W.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free:
0.197 (Depositor), 0.178 (DCC)
R-Value Work:
0.174 (Depositor)
R-Value Observed:
0.175 (Depositor)

wwPDB Validation 3D Report Full Report

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

Literature

Domain Movement in Tetracycline Repressor Classes

Palm, G.J., Quast, J., Hinrichs, W.

To be published.

Macromolecule Content

Total Structure Weight: 23.38 kDa
Atom Count: 1,756
Modeled Residue Count: 194
Deposited Residue Count: 206
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TETRACYCLINE REPRESSOR PROTEIN TETR	A	206	Proteus mirabilis	Mutation(s): 0
UniProt
Find proteins for Q9ZI84 (Proteus mirabilis) Explore Q9ZI84 Go to UniProtKB: Q9ZI84
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9ZI84
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 B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free: 0.197 (Depositor), 0.178 (DCC)
R-Value Work: 0.174 (Depositor)
R-Value Observed: 0.175 (Depositor)

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 55.15	α = 90
b = 106.06	β = 90
c = 70.08	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2016-01-20

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2016-01-20
Type: Initial release
Version 1.1: 2024-05-08
Changes: Data collection, Database references, Derived calculations, Other

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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.