9FHA | pdb_00009fha

Human transthyretin (TTR) in complex with (E)-2-((((2-(trifluoromethyl)benzyl)oxy)imino)methyl)benzoic acid

PDB DOI: https://doi.org/10.2210/pdb9FHA/pdb

Classification: PROTEIN TRANSPORT
Organism(s): Homo sapiens
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2024-05-27 Released: 2025-06-11
Deposition Author(s): Ciccone, L., Shepard, W., Sirigu, S., Camodeca, C., Mazzoccchi, F., Fruchart, C., Nencetti, S., Orlandini, E.
Funding Organization(s): Italian Ministry of Education

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free:
0.234 (Depositor), 0.235 (DCC)
R-Value Work:
0.194 (Depositor), 0.201 (DCC)
R-Value Observed:
0.196 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

New promising transthyretin stabilizers for cardiac amyloidosis treatment

Ciccone, L., Camodeca, C., Fruchart-Gaillard, C., Thai, R., Tonali, N., Basta, G., Del Turco, S., Russo, L., Noiray, M., Sirigu, S., Shepard, W., Barlettani, L., Mazzocchi, F., Orlandini, E., Nencetti, S.

(2025) Eur J Med Chem Rep 15: 100308

DOI: https://doi.org/10.1016/j.ejmcr.2025.100308

Macromolecule Content

Total Structure Weight: 28.2 kDa
Atom Count: 2,178
Modeled Residue Count: 231
Deposited Residue Count: 254
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transthyretin	A, B	127	Homo sapiens	Mutation(s): 0 Gene Names: TTR, PALB
UniProt & NIH Common Fund Data Resources
Find proteins for P02766 (Homo sapiens) Explore P02766 Go to UniProtKB: P02766
PHAROS: P02766 GTEx: ENSG00000118271
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P02766
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
A1IC9 (Subject of Investigation/LOI) Query on A1IC9 Download Ideal Coordinates CCD File SDF format, chain D [auth B] SDF format, chain C [auth A] MOL2 format, chain D [auth B] MOL2 format, chain C [auth A] mmCIF format, chain D [auth B] mmCIF format, chain C [auth A]	C [auth A], D [auth B]	2-[(~{E})-[2-(trifluoromethyl)phenyl]methoxyiminomethyl]benzoic acid C₁₆ H₁₂ F₃ N O₃ ADUIAKGKEUWNAN-AWQFTUOYSA-N		Interactions Focus chain C [auth A] Focus chain D [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free: 0.234 (Depositor), 0.235 (DCC)
R-Value Work: 0.194 (Depositor), 0.201 (DCC)
R-Value Observed: 0.196 (Depositor)

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 43.32	α = 90
b = 84.74	β = 90
c = 63.77	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
MOLREP	phasing

Structure Validation

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Ligand Structure Quality Assessment

Entry History & Funding Information

Deposition Data

Released Date: 2025-06-11

Deposition Author(s):

Funding Organization	Location	Grant Number
Italian Ministry of Education	Italy	2022KJB3B7

Revision History (Full details and data files)

Version 1.0: 2025-06-11
Type: Initial release
Version 1.1: 2025-12-17
Changes: Database references

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.