9GK0 | pdb_00009gk0

Human SMUG1 in complex with uracil

PDB DOI: https://doi.org/10.2210/pdb9GK0/pdb

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

Deposited: 2024-08-23 Released: 2026-03-11
Deposition Author(s): Ludaescher, J.M., Scaletti Hutchinson, E., Stenmark, P.
Funding Organization(s): Cancerfonden

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 0.95 Å
R-Value Free:
0.146 (Depositor), 0.146 (DCC)
R-Value Work:
0.136 (Depositor), 0.136 (DCC)
R-Value Observed:
0.136 (Depositor)

Starting Model: experimental
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Literature

Human SMUG1 in complex with uracil

Ludaescher, J.M., Scaletti Hutchinson, E., Stenmark, P.

To be published.

Macromolecule Content

Total Structure Weight: 27.43 kDa
Atom Count: 2,444
Modeled Residue Count: 244
Deposited Residue Count: 244
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Single-strand selective monofunctional uracil DNA glycosylase	A	244	Homo sapiens	Mutation(s): 0 Gene Names: SMUG1 EC: 3.2.2
UniProt & NIH Common Fund Data Resources
Find proteins for Q53HV7 (Homo sapiens) Explore Q53HV7 Go to UniProtKB: Q53HV7
PHAROS: Q53HV7 GTEx: ENSG00000123415
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q53HV7
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
URA Query on URA Download:Ideal Coordinates CCD File SDF format, chain B [auth A] SDF format, chain C [auth A] MOL2 format, chain B [auth A] MOL2 format, chain C [auth A] mmCIF format, chain B [auth A] mmCIF format, chain C [auth A]	B [auth A], C [auth A]	URACIL C₄ H₄ N₂ O₂ ISAKRJDGNUQOIC-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Focus chain C [auth A] Interactions & Density Focus chain B [auth A] Focus chain C [auth A]
DMS Query on DMS Download:Ideal Coordinates CCD File SDF format, chain D [auth A] MOL2 format, chain D [auth A] mmCIF format, chain D [auth A]	D [auth A]	DIMETHYL SULFOXIDE C₂ H₆ O S IAZDPXIOMUYVGZ-UHFFFAOYSA-N		Interactions Focus chain D [auth A] Interactions & Density Focus chain D [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 0.95 Å
R-Value Free: 0.146 (Depositor), 0.146 (DCC)
R-Value Work: 0.136 (Depositor), 0.136 (DCC)
R-Value Observed: 0.136 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 49.052	α = 90
b = 60.703	β = 90
c = 91.994	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
DIALS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2026-03-11

Deposition Author(s):

Ludaescher, J.M.

Scaletti Hutchinson, E.

Funding Organization	Location	Grant Number
Cancerfonden	Sweden	--

Revision History (Full details and data files)

Version 1.0: 2026-03-11
Type: Initial release

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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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.