6UL9 | pdb_00006ul9

Crystal structure of human GAC in complex with inhibitor UPGL00023

• PDB DOI: https://doi.org/10.2210/pdb6UL9/pdb

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


• Deposited: 2019-10-07 Released: 2020-10-14 
• Deposition Author(s): Huang, Q.Q., Cerione, R.A.
• Funding Organization(s): National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 
  0.244 (Depositor), 0.244 (DCC) 
• R-Value Work: 
  0.192 (Depositor), 0.193 (DCC) 
• R-Value Observed: 
  0.194 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of human GAC in complex with inhibitor UPGL00012

Huang, Q., Cerione, R.A.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 233.22 kDa 
• Atom Count: 13,389 
• Modeled Residue Count: 1,630 
• Deposited Residue Count: 2,108 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glutaminase kidney isoform, mitochondrial	A, B, C, D	527	Homo sapiens	Mutation(s): 0  Gene Names: GLS, GLS1, KIAA0838 EC: 3.5.1.2
UniProt & NIH Common Fund Data Resources
Find proteins for O94925 (Homo sapiens) Explore O94925  Go to UniProtKB:  O94925
PHAROS:  O94925 GTEx:  ENSG00000115419

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
Q9M (Subject of Investigation/LOI)	E [auth B], F [auth D]	2-phenyl-N-{5-[(1-{5-[(phenylacetyl)amino]-1,3,4-thiadiazol-2-yl}azetidin-3-yl)oxy]-1,3,4-thiadiazol-2-yl}acetamide C23 H21 N7 O3 S2 GBCGCMNKHTXFKN-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
Q9M	BindingDB:  6UL9	IC50: 60 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free:  0.244 (Depositor), 0.244 (DCC) 
• R-Value Work:  0.192 (Depositor), 0.193 (DCC) 
• R-Value Observed: 0.194 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 97.88	α = 90
b = 138.235	β = 90
c = 176.489	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2020-10-14 
Deposition Author(s): Huang, Q.Q., Cerione, R.A.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI)	United States	GM122575
National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI)	United States	GM124166
National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI)	United States	CA201402

Revision History  

• Version 1.0: 2020-10-14
  Type: Initial release
  
• Version 1.1: 2023-10-11
  Changes: Advisory, Data collection, Database references, Refinement description
• Version 1.2: 2024-12-25
  Changes: Advisory, Derived calculations, Structure summary