9FL6 | pdb_00009fl6

Human NUDT1 with medetomidine

• PDB DOI: https://doi.org/10.2210/pdb9FL6/pdb

• Classification: HYDROLASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2024-06-04 Released: 2025-06-18 
• Deposition Author(s): Salah, E., Huber, K.V.M., Elkins, J.M.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.30 Å
• R-Value Free: 
  0.206 (Depositor), 0.206 (DCC) 
• R-Value Work: 
  0.159 (Depositor), 0.167 (DCC) 

Starting Model: experimental

Literature

NUDT1 with medetomidine

Salah, E., Huber, K.V.M., Elkins, J.M.

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

Macromolecule Content 

• Total Structure Weight: 18.36 kDa 
• Atom Count: 1,467 
• Modeled Residue Count: 154 
• Deposited Residue Count: 158 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Isoform p26 of Oxidized purine nucleoside triphosphate hydrolase	A [auth AAA]	158	Homo sapiens	Mutation(s): 0  Gene Names: NUDT1, MTH1 EC: 3.6.1.56 (PDB Primary Data), 3.6.1 (PDB Primary Data)
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
A1IFR (Subject of Investigation/LOI)	B [auth AAA]	5-[(1~{R})-1-(2,3-dimethylphenyl)ethyl]-1~{H}-imidazole C13 H16 N2 CUHVIMMYOGQXCV-LLVKDONJSA-N
ACT	C [auth AAA]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.30 Å
• R-Value Free:  0.206 (Depositor), 0.206 (DCC) 
• R-Value Work:  0.159 (Depositor), 0.167 (DCC) 

Space Group: P 2 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 36.739	α = 90
b = 60.85	β = 90
c = 67.53	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-06-18 
Deposition Author(s): Salah, E., Huber, K.V.M., Elkins, J.M.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2025-06-18
  Type: Initial release