7ALE | pdb_00007ale

Crystal structure of human PAICS in complex with inhibitor 69

• PDB DOI: https://doi.org/10.2210/pdb7ALE/pdb

• Classification: LIGASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2020-10-06 Released: 2022-04-20 
• Deposition Author(s): Skerlova, J., Marttila, P., Unterlass, J., Jemth, A.-S., Henriksson, M., Wakchaure, P., Grube, M., Warpman Berglund, U., Homan, E., Helleday, T., Stenmark, P.
• Funding Organization(s): Swedish Research Council, European Research Council (ERC), European Regional Development Fund

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.95 Å
• R-Value Free: 
  0.261 (Depositor), 0.270 (DCC) 
• R-Value Work: 
  0.225 (Depositor), 0.230 (DCC) 
• R-Value Observed: 
  0.227 (Depositor) 

Starting Model: experimental

Literature

Cellular and biochemical validation of a potent PAICS inhibitor

Marttila, P., Skerlova, J., Unterlass, J., Jemth, A.-S., Henriksson, M., Wakchaure, P., Grube, M., Warpman Berglund, U., Homan, E., Stenmark, P., Helleday, T.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D4  (Explore in 3D)
Global Stoichiometry: Homo 8-mer - A8 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 96.21 kDa 
• Atom Count: 6,650 
• Modelled Residue Count: 838 
• Deposited Residue Count: 850 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Multifunctional protein ADE2	A, B	425	Homo sapiens	Mutation(s): 0  Gene Names: PAICS, ADE2, AIRC, PAIS EC: 6.3.2.6 (PDB Primary Data), 4.1.1.21 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for P22234 (Homo sapiens) Explore P22234  Go to UniProtKB:  P22234
PHAROS:  P22234 GTEx:  ENSG00000128050

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
RLK (Subject of Investigation/LOI)	C [auth A], E [auth B]	2-azanyl-~{N}-[2-bromanyl-5-[4-[3-(dimethylamino)propylsulfonyl]piperazin-1-yl]phenyl]-1,3-oxazole-4-carboxamide C19 H27 Br N6 O4 S GTJMWLKWMPRNKA-UHFFFAOYSA-N
OK8 (Subject of Investigation/LOI)	D [auth A], F [auth B]	(2~{S})-2-[[5-azanyl-1-[(2~{R},3~{R},4~{S},5~{R})-3,4-bis(oxidanyl)-5-(phosphonooxymethyl)oxolan-2-yl]imidazol-4-yl]car bonylamino]butanedioic acid C13 H19 N4 O12 P NAQGHJTUZRHGAC-ZZZDFHIKSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
RLK	BindingDB:  7ALE	IC50: 10 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.95 Å
• R-Value Free:  0.261 (Depositor), 0.270 (DCC) 
• R-Value Work:  0.225 (Depositor), 0.230 (DCC) 
• R-Value Observed: 0.227 (Depositor) 

Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 60.772	α = 90
b = 152.44	β = 90
c = 222.755	γ = 90

Software Package:

Software Name	Purpose
XSCALE	data scaling
MOLREP	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
XDS	data reduction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2022-04-20 
Deposition Author(s): Skerlova, J., Marttila, P., Unterlass, J., Jemth, A.-S., Henriksson, M., Wakchaure, P., Grube, M., Warpman Berglund, U., Homan, E., Helleday, T., Stenmark, P.

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Funding Organization	Location	Grant Number
Swedish Research Council	Sweden	2015-00162
Swedish Research Council	Sweden	2018-03406
European Research Council (ERC)	European Union	TAROX-695376
European Regional Development Fund	European Union	CZ.02.2.69/0.0/0.0/16_027/0008477

Revision History  

• Version 1.0: 2022-04-20
  Type: Initial release
  
• Version 1.1: 2024-01-31
  Changes: Data collection, Refinement description