9S4H | pdb_00009s4h

Crystal structure of Arabidopsis thaliana Fatty Acid Thioesterase A with the x1816-FU1 ligand

PDB DOI: https://doi.org/10.2210/pdb9S4H/pdb

Classification: HYDROLASE
Organism(s): Arabidopsis thaliana
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2025-07-28 Released: 2025-08-13
Deposition Author(s): Kot, E., Ni, X., Mulholland, N.P., Montgomery, M.G., von Delft, F.
Funding Organization(s): Engineering and Physical Sciences Research Council

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.24 Å
R-Value Free:
0.280 (Depositor), 0.277 (DCC)
R-Value Work:
0.227 (Depositor), 0.230 (DCC)
R-Value Observed:
0.230 (Depositor)

Starting Model: experimental
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Ligand Structure Quality Assessment

This is version 1.0 of the entry. See complete history.

Literature

Crystal structure of Arabidopsis thaliana Fatty Acid Thioesterase A with the x1816-FU1 ligand

Kot, E., Ni, X., Mulholland, N.P., Montgomery, M.G., von Delft, F.

To be published.

Macromolecule Content

Total Structure Weight: 33.82 kDa
Atom Count: 2,130
Modeled Residue Count: 263
Deposited Residue Count: 295
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Oleoyl-acyl carrier protein thioesterase 1, chloroplastic	A	295	Arabidopsis thaliana	Mutation(s): 0 Gene Names: FATA, FATA1, At3g25110, MJL12.5 EC: 3.1.2.14
UniProt
Find proteins for Q42561 (Arabidopsis thaliana) Explore Q42561 Go to UniProtKB: Q42561
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q42561
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
A1JLP (Subject of Investigation/LOI) Query on A1JLP 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]	1-(3,5-dihydro-2~{H}-1,4-benzothiazepin-4-yl)ethanone C₁₁ H₁₃ N O S UREQFTSPNGUYSJ-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.24 Å
R-Value Free: 0.280 (Depositor), 0.277 (DCC)
R-Value Work: 0.227 (Depositor), 0.230 (DCC)
R-Value Observed: 0.230 (Depositor)

Space Group: I 4 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 98.531	α = 90
b = 98.531	β = 90
c = 128.692	γ = 90

Software Package:

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

Structure Validation

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Ligand Structure Quality Assessment

Entry History & Funding Information

Deposition Data

Released Date: 2025-08-13

Deposition Author(s):

Mulholland, N.P.

Montgomery, M.G.

Funding Organization	Location	Grant Number
Engineering and Physical Sciences Research Council	United Kingdom	--

Revision History (Full details and data files)

Version 1.0: 2025-08-13
Type: Initial release

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.