9HCV | pdb_00009hcv

Crystal structure of human TRF1 TRFH domain in complex with compound 16

• PDB DOI: https://doi.org/10.2210/pdb9HCV/pdb

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


• Deposited: 2024-11-11 Released: 2025-11-19 
• Deposition Author(s): Casale, G., Le Bihan, Y.-V., van Montfort, R.L.M., Guettler, S.
• Funding Organization(s): Wellcome Trust

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.08 Å
• R-Value Free: 
  0.268 (Depositor), 0.251 (DCC) 
• R-Value Work: 
  0.229 (Depositor), 0.219 (DCC) 
• R-Value Observed: 
  0.231 (Depositor) 

Starting Model: experimental

Literature

Discovery of first-in-class inhibitors of the TRF1-TIN2 protein-protein interaction by fragment screening

Casale, G., Guettler, S.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 25.86 kDa 
• Atom Count: 1,660 
• Modeled Residue Count: 204 
• Deposited Residue Count: 224 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Telomeric repeat-binding factor 1	A	224	Homo sapiens	Mutation(s): 0  Gene Names: TERF1, PIN2, TRBF1, TRF, TRF1
UniProt & NIH Common Fund Data Resources
Find proteins for P54274 (Homo sapiens) Explore P54274  Go to UniProtKB:  P54274
PHAROS:  P54274 GTEx:  ENSG00000147601

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
A1ITZ (Subject of Investigation/LOI)	C [auth A]	5-cyclobutyl-3-pyridin-2-yl-1,2,4-oxadiazole C11 H11 N3 O FCTPHBMVNNDUSQ-UHFFFAOYSA-N
EDO	B [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
CA	D [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.08 Å
• R-Value Free:  0.268 (Depositor), 0.251 (DCC) 
• R-Value Work:  0.229 (Depositor), 0.219 (DCC) 
• R-Value Observed: 0.231 (Depositor) 

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 52.439	α = 90
b = 52.439	β = 90
c = 146.112	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement
Aimless	data scaling
XDS	data reduction
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-11-19 
Deposition Author(s): Casale, G., Le Bihan, Y.-V., van Montfort, R.L.M., Guettler, S.

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Funding Organization	Location	Grant Number
Wellcome Trust	United Kingdom	214311/Z/18/Z

Revision History  

• Version 1.0: 2025-11-19
  Type: Initial release