6YB8

Human octameric PAICS in complex with CAIR and SAICAR


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.36 Å
  • R-Value Free: 0.235 
  • R-Value Work: 0.177 
  • R-Value Observed: 0.180 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Crystal structures of human PAICS reveal substrate and product binding of an emerging cancer target.

Skerlova, J.Unterlass, J.Gottmann, M.Marttila, P.Homan, E.Helleday, T.Jemth, A.S.Stenmark, P.

(2020) J Biol Chem 295: 11656-11668

  • DOI: 10.1074/jbc.RA120.013695
  • Primary Citation of Related Structures:  
    6YB8, 6YB9

  • PubMed Abstract: 
  • The bifunctional human enzyme phosphoribosylaminoimidazole carboxylase and phosphoribosylaminoimidazolesuccinocarboxamide synthetase (PAICS) catalyzes two essential steps in the de novo purine biosynthesis pathway. PAICS is overexpressed in many ...

    The bifunctional human enzyme phosphoribosylaminoimidazole carboxylase and phosphoribosylaminoimidazolesuccinocarboxamide synthetase (PAICS) catalyzes two essential steps in the de novo purine biosynthesis pathway. PAICS is overexpressed in many cancers and could be a promising target for the development of cancer therapeutics. Here, using gene knockdowns and clonogenic survival and cell viability assays, we demonstrate that PAICS is required for growth and survival of prostate cancer cells. PAICS catalyzes the carboxylation of aminoimidazole ribonucleotide (AIR) and the subsequent conversion of carboxyaminoimidazole ribonucleotide (CAIR) and l-aspartate to N -succinylcarboxamide-5-aminoimidazole ribonucleotide (SAICAR). Of note, we present the first structures of human octameric PAICS in complexes with native ligands. In particular, we report the structure of PAICS with CAIR bound in the active sites of both domains and SAICAR bound in one of the SAICAR synthetase domains. Moreover, we report the PAICS structure with SAICAR and an ATP analog occupying the SAICAR synthetase active site. These structures provide insight into substrate and product binding and the architecture of the active sites, disclosing important structural information for rational design of PAICS inhibitors as potential anticancer drugs.


    Organizational Affiliation

    Department of Experimental Medical Science, Lund University, Lund, Sweden.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Multifunctional protein ADE2 AB425Homo sapiensMutation(s): 0 
Gene Names: PAICSADE2AIRCPAIS
EC: 6.3.2.6 (PDB Primary Data), 4.1.1.21 (PDB Primary Data)
Find proteins for P22234 (Homo sapiens)
Explore P22234 
Go to UniProtKB:  P22234
NIH Common Fund Data Resources
PHAROS:  P22234
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
OK8
Query on OK8

Download Ideal Coordinates CCD File 
A
(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
 Ligand Interaction
C2R
Query on C2R

Download Ideal Coordinates CCD File 
A, B
5-AMINO-1-(5-O-PHOSPHONO-BETA-D-RIBOFURANOSYL)-1H-IMIDAZOLE-4-CARBOXYLIC ACID
C9 H14 N3 O9 P
XFVULMDJZXYMSG-ZIYNGMLESA-N
 Ligand Interaction
IMD
Query on IMD

Download Ideal Coordinates CCD File 
A, B
IMIDAZOLE
C3 H5 N2
RAXXELZNTBOGNW-UHFFFAOYSA-O
 Ligand Interaction
EDO
Query on EDO

Download Ideal Coordinates CCD File 
A, B
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.36 Å
  • R-Value Free: 0.235 
  • R-Value Work: 0.177 
  • R-Value Observed: 0.180 
  • Space Group: I 2 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 60.878α = 90
b = 153.922β = 90
c = 223.565γ = 90
Software Package:
Software NamePurpose
XSCALEdata scaling
MOLREPphasing
REFMACrefinement
PDB_EXTRACTdata extraction
XDSdata reduction

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Swedish Research CouncilSweden--
European Research Council (ERC)European Union695376
Ministry of Education (MoE, Czech Republic)Czech RepublicCZ.02.2.69/0.0/0.0/16_027/0008477

Revision History 

  • Version 1.0: 2020-07-08
    Type: Initial release
  • Version 1.1: 2020-09-02
    Changes: Database references