6UKB | pdb_00006ukb

Crystal structure of human GAC in complex with inhibitor UPGL00012

• PDB DOI: https://doi.org/10.2210/pdb6UKB/pdb

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


• Deposited: 2019-10-04 Released: 2020-10-07 
• Deposition Author(s): Huang, 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: 3.00 Å
• R-Value Free: 
  0.250 (Depositor), 0.250 (DCC) 
• R-Value Work: 
  0.195 (Depositor), 0.190 (DCC) 
• R-Value Observed: 
  0.197 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of human GAC in complex with inhibitor UPGL00020

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: 232.86 kDa 
• Atom Count: 12,818 
• Modeled Residue Count: 1,638 
• 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
Q9V (Subject of Investigation/LOI)	E [auth A], F [auth B]	N-[5-(4-{[5-(acetylamino)-1,3,4-thiadiazol-2-yl]oxy}piperidin-1-yl)-1,3,4-thiadiazol-2-yl]acetamide C13 H17 N7 O3 S2 UTGXSPFIBVKMDL-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
Q9V	BindingDB:  6UKB	IC50: 1005 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free:  0.250 (Depositor), 0.250 (DCC) 
• R-Value Work:  0.195 (Depositor), 0.190 (DCC) 
• R-Value Observed: 0.197 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 99.227	α = 90
b = 139.393	β = 90
c = 178.131	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: 2020-10-07 
Deposition Author(s): Huang, 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: 2020-10-07
  Type: Initial release
  
• Version 1.1: 2023-10-11
  Changes: Advisory, Data collection, Database references, Refinement description