7OU6 | pdb_00007ou6

Human O-GlcNAc hydrolase in complex with DNJNAc-thiazolidines

• PDB DOI: https://doi.org/10.2210/pdb7OU6/pdb

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


• Deposited: 2021-06-11 Released: 2022-04-13 
• Deposition Author(s): Males, A., Davies, G.J., Gonzalez-Cuesta, M., Mellet, C.O., Fernandez, J.M.G., Sidhu, P., Ashmus, R., Busmann, J., Vocadlo, D.J., Foster, L.
• Funding Organization(s): Biotechnology and Biological Sciences Research Council (BBSRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.41 Å
• R-Value Free: 
  0.271 (Depositor), 0.271 (DCC) 
• R-Value Work: 
  0.221 (Depositor), 0.219 (DCC) 

Starting Model: experimental

Literature

Bicyclic Picomolar OGA Inhibitors Enable Chemoproteomic Mapping of Its Endogenous Post-translational Modifications

Gonzalez-Cuesta, M., Sidhu, P., Ashmus, R.A., Males, A., Proceviat, C., Madden, Z., Rogalski, J.C., Busmann, J.A., Foster, L.J., Garcia Fernandez, J.M., Davies, G.J., Ortiz Mellet, C., Vocadlo, D.J.

(2022) J Am Chem Soc 144: 832-844

• DOI: https://doi.org/10.1021/jacs.1c10504

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)

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 206.71 kDa 
• Atom Count: 6,768 
• Modeled Residue Count: 866 
• Deposited Residue Count: 1,832 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein O-GlcNAcase	A [auth AAA], B [auth BBB]	916	Homo sapiens	Mutation(s): 0  Gene Names: MGEA5, HEXC, KIAA0679, MEA5 EC: 3.2.1.169 (PDB Primary Data), 3.2.1 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for O60502 (Homo sapiens) Explore O60502  Go to UniProtKB:  O60502
PHAROS:  O60502 GTEx:  ENSG00000198408

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
1XI (Subject of Investigation/LOI)	C [auth AAA], D [auth BBB]	~{N}-[(3~{Z},6~{S},7~{R},8~{R},8~{a}~{S})-7,8-bis(oxidanyl)-3-(phenylmethyl)imino-1,5,6,7,8,8~{a}-hexahydro-[1,3]thiazolo[3,4-a]pyridin-6-yl]ethanamide C16 H21 N3 O3 S DWUFYAAHHCWFAW-OZFNUUMKSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.41 Å
• R-Value Free:  0.271 (Depositor), 0.271 (DCC) 
• R-Value Work:  0.221 (Depositor), 0.219 (DCC) 

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 101.288	α = 90
b = 101.288	β = 90
c = 284.519	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
xia2	data reduction
Aimless	data scaling
MOLREP	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2022-04-13 
Deposition Author(s): Males, A., Davies, G.J., Gonzalez-Cuesta, M., Mellet, C.O., Fernandez, J.M.G., Sidhu, P., Ashmus, R., Busmann, J., Vocadlo, D.J., Foster, L.

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Funding Organization	Location	Grant Number
Biotechnology and Biological Sciences Research Council (BBSRC)	United Kingdom	BB/M011151/1

Revision History  

• Version 1.0: 2022-04-13
  Type: Initial release
  
• Version 1.1: 2024-01-31
  Changes: Data collection, Derived calculations, Refinement description