5TNT

Discovery of novel aminobenzisoxazole derivatives as orally available factor IXa inhibitors


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.4 Å
  • R-Value Free: 0.161 
  • R-Value Work: 0.146 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Discovery of novel aminobenzisoxazole derivatives as orally available factor IXa inhibitors.

Sakurada, I.Endo, T.Hikita, K.Hirabayashi, T.Hosaka, Y.Kato, Y.Maeda, Y.Matsumoto, S.Mizuno, T.Nagasue, H.Nishimura, T.Shimada, S.Shinozaki, M.Taguchi, K.Takeuchi, K.Yokoyama, T.Hruza, A.Reichert, P.Zhang, T.Wood, H.B.Nakao, K.Furusako, S.

(2017) Bioorg. Med. Chem. Lett. 27: 2622-2628

  • DOI: 10.1016/j.bmcl.2017.03.002
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Using structure based drug design, novel aminobenzisoxazoles as coagulation factor IXa inhibitors were designed and synthesized. Highly selective inhibition of FIXa over FXa was demonstrated. Anticoagulation profile of selected compounds was evaluate ...

    Using structure based drug design, novel aminobenzisoxazoles as coagulation factor IXa inhibitors were designed and synthesized. Highly selective inhibition of FIXa over FXa was demonstrated. Anticoagulation profile of selected compounds was evaluated by aPTT and PT tests. In vitro ADMET and pharmacokinetic (PK) profiles were also evaluated.


    Organizational Affiliation

    Discovery Research, Mochida Pharmaceutical Co. Ltd., 722 Uenohara, Jimba, Gotemba, Shizuoka 412-8524, Japan. Electronic address: isao.sakurada@mochida.co.jp.,Discovery Research, Mochida Pharmaceutical Co. Ltd., 722 Uenohara, Jimba, Gotemba, Shizuoka 412-8524, Japan.,Department of Structural Chemistry, Merck Research Laboratories, Merck and Co., Inc., 2000 Galloping Hill Road, Kenilworth, NJ 07033, USA.,Department of Medicinal Chemistry, Merck Research Laboratories, Merck and Co., Inc., 2000 Galloping Hill Road, Kenilworth, NJ 07033, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Coagulation factor IX
A
235Homo sapiensMutation(s): 1 
Gene Names: F9
EC: 3.4.21.22
Find proteins for P00740 (Homo sapiens)
Go to Gene View: F9
Go to UniProtKB:  P00740
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Coagulation factor IX
B
62Homo sapiensMutation(s): 0 
Gene Names: F9
EC: 3.4.21.22
Find proteins for P00740 (Homo sapiens)
Go to Gene View: F9
Go to UniProtKB:  P00740
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NA
Query on NA

Download SDF File 
Download CCD File 
A
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
NHE
Query on NHE

Download SDF File 
Download CCD File 
A
2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID
N-CYCLOHEXYLTAURINE; CHES
C8 H17 N O3 S
MKWKNSIESPFAQN-UHFFFAOYSA-N
 Ligand Interaction
7GQ
Query on 7GQ

Download SDF File 
Download CCD File 
A
N-[(1S,4S,7R)-2-(3-amino-4-chloro[1,2]oxazolo[5,4-c]pyridin-7-yl)-2-azabicyclo[2.2.1]heptan-7-yl]-2-chloro-4-(3-methyl-1H-1,2,4-triazol-1-yl)benzamide
C22 H20 Cl2 N8 O2
KWAYYBDVPSPGPN-SDDDUWNISA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
7GQIC50: 4.9 nM BINDINGMOAD
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.4 Å
  • R-Value Free: 0.161 
  • R-Value Work: 0.146 
  • Space Group: H 3
Unit Cell:
Length (Å)Angle (°)
a = 99.084α = 90.00
b = 99.084β = 90.00
c = 94.680γ = 120.00
Software Package:
Software NamePurpose
BUSTERrefinement
AutoPROCdata scaling
MOLREPphasing
XDSdata reduction
SCALAdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Revision History 

  • Version 1.0: 2017-04-26
    Type: Initial release
  • Version 1.1: 2017-05-24
    Type: Database references
  • Version 1.2: 2017-11-22
    Type: Refinement description