9HI1 | pdb_00009hi1

STRUCTURE OF HUMAN UDP-GALACTOSE 4-EPIMERASE IN COMPLEX WITH COMPOUND WBX09

PDB DOI: https://doi.org/10.2210/pdb9HI1/pdb

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

Deposited: 2024-11-22 Released: 2025-12-03
Deposition Author(s): Mouilleron, S., Schumann, B., Browne, W., Purkiss, A., Weckwerth, T., Ogrodowicz, R., Prema, R., Kunzelmann, S., Roustan, C.
Funding Organization(s): Engineering and Physical Sciences Research Council, The Francis Crick Institute, Wellcome Trust

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 0.95 Å
R-Value Free:
0.189 (Depositor), 0.189 (DCC)
R-Value Work:
0.181 (Depositor), 0.181 (DCC)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.0 of the entry. See complete history.

Literature

Identification of Novel Inhibitors of Human UDP-Galactose-4-Epimerase (GalE) by Fragment-Based Lead Discovery

Browne, W., Schumann, B., Purkiss, A., Weckwerth, T., Ogrodowicz, R., Prema, R., Kunzelmann, S., Roustan, C., Mouilleron, S.

To be published.

Macromolecule Content

Total Structure Weight: 78.52 kDa
Atom Count: 6,341
Modeled Residue Count: 687
Deposited Residue Count: 688
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
UDP-glucose 4-epimerase	A [auth B], B [auth A]	344	Homo sapiens	Mutation(s): 0 Gene Names: GALE EC: 5.1.3.2 (PDB Primary Data), 5.1.3.7 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for Q14376 (Homo sapiens) Explore Q14376 Go to UniProtKB: Q14376
PHAROS: Q14376 GTEx: ENSG00000117308
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q14376
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NAD Query on NAD Download Ideal Coordinates CCD File SDF format, chain Q [auth A] SDF format, chain H [auth B] MOL2 format, chain Q [auth A] MOL2 format, chain H [auth B] mmCIF format, chain Q [auth A] mmCIF format, chain H [auth B]	H [auth B], Q [auth A]	NICOTINAMIDE-ADENINE-DINUCLEOTIDE C₂₁ H₂₇ N₇ O₁₄ P₂ BAWFJGJZGIEFAR-NNYOXOHSSA-N		Interactions Focus chain H [auth B] Focus chain Q [auth A] Interactions & Density Focus chain H [auth B] Focus chain Q [auth A]
A1IU5 (Subject of Investigation/LOI) Query on A1IU5 Download Ideal Coordinates CCD File SDF format, chain I [auth B] SDF format, chain R [auth A] MOL2 format, chain I [auth B] MOL2 format, chain R [auth A] mmCIF format, chain I [auth B] mmCIF format, chain R [auth A]	I [auth B], R [auth A]	3-[(5-cyclobutyl-1,2-oxazol-3-yl)carbamoylamino]-~{N}-pyridin-4-yl-propanamide C₁₆ H₁₉ N₅ O₃ NMBXMVUGPDIKRX-UHFFFAOYSA-N		Interactions Focus chain I [auth B] Focus chain R [auth A] Interactions & Density Focus chain I [auth B] Focus chain R [auth A]
EDO Query on EDO Download Ideal Coordinates CCD File SDF format, chain C [auth B] SDF format, chain D [auth B] SDF format, chain E [auth B] SDF format, chain F [auth B] SDF format, chain G [auth B] SDF format, chain J [auth A] SDF format, chain L [auth A] SDF format, chain M [auth A] SDF format, chain N [auth A] SDF format, chain O [auth A] SDF format, chain P [auth A] SDF format, chain K [auth A] MOL2 format, chain C [auth B] MOL2 format, chain D [auth B] MOL2 format, chain E [auth B] MOL2 format, chain F [auth B] MOL2 format, chain G [auth B] MOL2 format, chain J [auth A] MOL2 format, chain L [auth A] MOL2 format, chain M [auth A] MOL2 format, chain N [auth A] MOL2 format, chain O [auth A] MOL2 format, chain P [auth A] MOL2 format, chain K [auth A] mmCIF format, chain C [auth B] mmCIF format, chain D [auth B] mmCIF format, chain E [auth B] mmCIF format, chain F [auth B] mmCIF format, chain G [auth B] mmCIF format, chain J [auth A] mmCIF format, chain L [auth A] mmCIF format, chain M [auth A] mmCIF format, chain N [auth A] mmCIF format, chain O [auth A] mmCIF format, chain P [auth A] mmCIF format, chain K [auth A]	C [auth B] D [auth B] E [auth B] F [auth B] G [auth B] C [auth B], D [auth B], E [auth B], F [auth B], G [auth B], J [auth A], K [auth A], L [auth A], M [auth A], N [auth A], O [auth A], P [auth A]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain C [auth B] Focus chain D [auth B] Focus chain E [auth B] Focus chain F [auth B] Focus chain G [auth B] Focus chain J [auth A] Focus chain K [auth A] Focus chain L [auth A] Focus chain M [auth A] Focus chain N [auth A] Focus chain O [auth A] Focus chain P [auth A] Interactions & Density Focus chain C [auth B] Focus chain D [auth B] Focus chain E [auth B] Focus chain F [auth B] Focus chain G [auth B] Focus chain J [auth A] Focus chain K [auth A] Focus chain L [auth A] Focus chain M [auth A] Focus chain N [auth A] Focus chain O [auth A] Focus chain P [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 0.95 Å
R-Value Free: 0.189 (Depositor), 0.189 (DCC)
R-Value Work: 0.181 (Depositor), 0.181 (DCC)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 46.147	α = 90
b = 110.205	β = 90
c = 135.411	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
DIALS	data reduction
xia2.multiplex	data scaling
PHASER	phasing

Structure Validation

View Full Validation Report

Ligand Structure Quality Assessment

Entry History & Funding Information

Deposition Data

Released Date: 2025-12-03

Deposition Author(s):

Funding Organization	Location	Grant Number
Engineering and Physical Sciences Research Council	United Kingdom	EP/S023518/1
The Francis Crick Institute	United Kingdom	CC2127
The Francis Crick Institute	United Kingdom	CC2127
Wellcome Trust	United Kingdom	CC2127