8A07 | pdb_00008a07

MTH1 in complex with TH001969

• PDB DOI: https://doi.org/10.2210/pdb8A07/pdb

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


• Deposited: 2022-05-26 Released: 2023-09-13 
• Deposition Author(s): Scaletti, E.R., Narwal, M., Stenmark, P.
• Funding Organization(s): Cancerfonden

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.19 Å
• R-Value Free: 
  0.292 (Depositor), 0.300 (DCC) 
• R-Value Work: 
  0.236 (Depositor), 0.241 (DCC) 
• R-Value Observed: 
  0.238 (Depositor) 

Starting Model: experimental

Literature

MTH1 in complex with TH001969

Scaletti, E.R., Narwal, M., Stenmark, P.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 37.31 kDa 
• Atom Count: 2,708 
• Modeled Residue Count: 308 
• Deposited Residue Count: 318 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
7,8-dihydro-8-oxoguanine triphosphatase	A, B	159	Homo sapiens	Mutation(s): 0  Gene Names: NUDT1, MTH1 EC: 3.6.1.55 (PDB Primary Data), 3.6.1.56 (PDB Primary Data), 3.6.1 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for P36639 (Homo sapiens) Explore P36639  Go to UniProtKB:  P36639
PHAROS:  P36639 GTEx:  ENSG00000106268

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
L3N	C [auth A], G [auth B]	1~{H}-quinazoline-2,4-dione C8 H6 N2 O2 SDQJTWBNWQABLE-UHFFFAOYSA-N
SO4	D [auth A], E [auth A], F [auth A], H [auth B], I [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.19 Å
• R-Value Free:  0.292 (Depositor), 0.300 (DCC) 
• R-Value Work:  0.236 (Depositor), 0.241 (DCC) 
• R-Value Observed: 0.238 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 59.301	α = 90
b = 67.42	β = 90
c = 80.355	γ = 90

Software Package:

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

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2023-09-13 
Deposition Author(s): Scaletti, E.R., Narwal, M., Stenmark, P.

---

Funding Organization	Location	Grant Number
Cancerfonden	Sweden	--

Revision History  

• Version 1.0: 2023-09-13
  Type: Initial release
  
• Version 1.1: 2026-03-04
  Changes: Refinement description, Structure summary