9DT2 | pdb_00009dt2

Crystal structure of the engineered sulfonylurea repressor EsR (L7-D1), apo form

PDB DOI: https://doi.org/10.2210/pdb9DT2/pdb

Classification: DNA BINDING PROTEIN
Organism(s): Escherichia coli
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2024-09-30 Released: 2025-10-08
Deposition Author(s): Schreiter, E.R., Leija, C., Kakani, N.K., McBride, K.E., Looger, L.L.
Funding Organization(s): Howard Hughes Medical Institute (HHMI)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.10 Å
R-Value Free:
0.298 (Depositor), 0.302 (DCC)
R-Value Work:
0.234 (Depositor), 0.242 (DCC)

Starting Model: experimental
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This is version 1.0 of the entry. See complete history.

Literature

Design and evolution of agrochemical-responsive gene switches for field crops

McBride, K.E., Kakani, N.K., Fang, J., Leija, C., Hermanson, F., Chan, M., Cho, H.-J., Richey, C., Madrigal, A., Gordon-Kamm, B., Lowe, K., Lenderts, B., Arling, M., Anand, A., Wang, N., Hoerster, G., McGonigle, B., Liu, Q., Falco, C.S., Lassner, M., Looger, L.L., Schreiter, E.R., Marvin, J.S., Bozhanova, N.G.

To be published.

Macromolecule Content

Total Structure Weight: 23.22 kDa
Atom Count: 1,365
Modeled Residue Count: 175
Deposited Residue Count: 208
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Sulfonylurea repressor EsR (L7-D1)	A	208	Escherichia coli	Mutation(s): 0 Gene Names: TetR, teTR, tetR(B), CQ842_25520, D3G36_22370, D3G36_27460, D9E49_27735, D9E49_28675, E5H86_28100, E5H86_30860... TetR, teTR, tetR(B), CQ842_25520, D3G36_22370, D3G36_27460, D9E49_27735, D9E49_28675, E5H86_28100, E5H86_30860, EHD79_25975, EHD79_28355, EIZ93_26115, FJQ40_26740, FPI65_29665, FPS11_29235, FPS11_30125, GAJ12_26625, GP965_14335, GP975_09140, GP979_15410, GQM21_16135, GRW05_13910, HIE29_003744, HIE29_005530, HL601_26020, HL601_27135, IPF_209
UniProt
Find proteins for A0A4D6FXC7 (Escherichia coli str. K-12 substr. MG1655) Explore A0A4D6FXC7 Go to UniProtKB: A0A4D6FXC7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A4D6FXC7
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.10 Å
R-Value Free: 0.298 (Depositor), 0.302 (DCC)
R-Value Work: 0.234 (Depositor), 0.242 (DCC)

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 72.44	α = 90
b = 72.44	β = 90
c = 95.19	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling
PHASER	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2025-10-08

Deposition Author(s):

Schreiter, E.R.

Funding Organization	Location	Grant Number
Howard Hughes Medical Institute (HHMI)	United States	--

Revision History (Full details and data files)

Version 1.0: 2025-10-08
Type: Initial release

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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.