8AUP

Structure of hARG1 with a novel inhibitor.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.17 Å
  • R-Value Free: 0.240 
  • R-Value Work: 0.207 
  • R-Value Observed: 0.208 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.3 of the entry. See complete history


Literature

Arginase 1/2 Inhibitor OATD-02: From Discovery to First-in-man Setup in Cancer Immunotherapy.

Borek, B.Nowicka, J.Gzik, A.Dziegielewski, M.Jedrzejczak, K.Brzezinska, J.Grzybowski, M.Stanczak, P.Pomper, P.Zagozdzon, A.Rejczak, T.Matyszewski, K.Golebiowski, A.Olczak, J.Lisiecki, K.Tyszkiewicz, M.Kania, M.Piasecka, S.Cabaj, A.Dera, P.Mulewski, K.Chrzanowski, J.Kusmirek, D.Sobolewska, E.Magdycz, M.Mucha, L.Masnyk, M.Golab, J.Nowotny, M.Nowak, E.Napiorkowska-Gromadzka, A.Pikul, S.Jazwiec, R.Dzwonek, K.Dobrzanski, P.Meyring, M.Skowronek, K.Iwanowski, P.Zaslona, Z.Blaszczyk, R.

(2023) Mol Cancer Ther 22: 807-817

  • DOI: https://doi.org/10.1158/1535-7163.MCT-22-0721
  • Primary Citation of Related Structures:  
    8AUP

  • PubMed Abstract: 

    Pharmacologic inhibition of the controlling immunity pathway enzymes arginases 1 and 2 (ARG1 and ARG2) is a promising strategy for cancer immunotherapy. Here, we report the discovery and development of OATD-02, an orally bioavailable, potent arginases inhibitor. The unique pharmacologic properties of OATD-02 are evidenced by targeting intracellular ARG1 and ARG2, as well as long drug-target residence time, moderate to high volume of distribution, and low clearance, which may jointly provide a weapon against arginase-related tumor immunosuppression and ARG2-dependent tumor cell growth. OATD-02 monotherapy had an antitumor effect in multiple tumor models and enhanced an efficacy of the other immunomodulators. Completed nonclinical studies and human pharmacokinetic predictions indicate a feasible therapeutic window and allow for proposing a dose range for the first-in-human clinical study in patients with cancer.


  • Organizational Affiliation

    Molecure S.A., Warsaw, Poland.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Arginase-1
A, B, C, D, E
A, B, C, D, E, F
322Homo sapiensMutation(s): 0 
Gene Names: ARG1
EC: 3.5.3.1
UniProt & NIH Common Fund Data Resources
Find proteins for P05089 (Homo sapiens)
Explore P05089 
Go to UniProtKB:  P05089
PHAROS:  P05089
GTEx:  ENSG00000118520 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP05089
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
O93 (Subject of Investigation/LOI)
Query on O93

Download Ideal Coordinates CCD File 
I [auth A]
M [auth B]
Q [auth C]
T [auth D]
W [auth E]
I [auth A],
M [auth B],
Q [auth C],
T [auth D],
W [auth E],
Z [auth F]
2-[(1~{R},3~{R},4~{S})-3-azanyl-3-carboxy-4-[(dimethylamino)methyl]cyclohexyl]ethyl-$l^{3}-oxidanyl-bis(oxidanyl)boron
C12 H27 B N2 O5
MIFIXLBUGCLQNB-JBLDHEPKSA-N
MPD
Query on MPD

Download Ideal Coordinates CCD File 
N [auth B](4S)-2-METHYL-2,4-PENTANEDIOL
C6 H14 O2
SVTBMSDMJJWYQN-YFKPBYRVSA-N
HEZ
Query on HEZ

Download Ideal Coordinates CCD File 
J [auth A]HEXANE-1,6-DIOL
C6 H14 O2
XXMIOPMDWAUFGU-UHFFFAOYSA-N
MN
Query on MN

Download Ideal Coordinates CCD File 
G [auth A]
H [auth A]
K [auth B]
L [auth B]
O [auth C]
G [auth A],
H [auth A],
K [auth B],
L [auth B],
O [auth C],
P [auth C],
R [auth D],
S [auth D],
U [auth E],
V [auth E],
X [auth F],
Y [auth F]
MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.17 Å
  • R-Value Free: 0.240 
  • R-Value Work: 0.207 
  • R-Value Observed: 0.208 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 67.36α = 90
b = 52.75β = 90.65
c = 283.6γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
PHENIXrefinement
XDSdata reduction
SCALAdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Center for Research and Development (Poland)PolandSTRATEGMED2/265503/3/NCBR/15
European Union (EU)European UnionPOIR.01.01.01-00-0415/17

Revision History  (Full details and data files)

  • Version 1.0: 2023-03-29
    Type: Initial release
  • Version 1.1: 2023-04-05
    Changes: Database references
  • Version 1.2: 2023-07-19
    Changes: Database references
  • Version 1.3: 2024-02-07
    Changes: Data collection, Refinement description