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Fragment Based-GQSAR for GPCR Studies Presenter: Kundan B. Ingale Application Scientist kundani@vlifesciences.com
[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],GPCR…
Challenges in Multi-target  ligand design for GPCRs ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
Key elements of GQSAR ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Group QSAR: For lead optimization ,[object Object],[object Object],[object Object],Fig: GQSAR Workflow
10/10/11 Dataset for GQSAR ,[object Object],[object Object],Class Number of molecules Activity  (Ki nM) Min Max C1  (Piperidine) 69 HT1A 0.91 3200.00 HTT 0.24 9006.00 C2 (Piperazine) 56 HT1A 0.12 475.00 HTT 1.30 3900.00 C3 (non ring N atom) 26 HT1A 2.00 1470.00 HTT 0.50 4700.00 C4 ( 1,2,3,6-tetrahydropyridine) 8 HT1A 10.90 92.60 HTT 19.80 387.00 C5 ( azabicyclo[3.2.1]oct-3-ene) 3 HT1A 127.70 357.00 HTT 8.50 33.00
10/10/11 Representative Molecules Piperazine (C2) Non Ring Nitrogen (C3) 1,2,3,6-tetrahydropyridine (C4) azabicyclo[3.2.1]oct-3-ene   (C5) Piperidine   (C1)
Fragmentation Pattern Fragment R1 (aromatic region):  aromatic ring connected with the core of the molecule i.e. fragment R2 Fragment R2 (anchor region):  substituent present in the center of the molecule Fragment R3 (flexible region):  substituent connected to other end of the fragment R2
Relationship between 5HT1A and 5HTT inhibition Design and optimize molecules for multi-target activity r2 = 0.051 Fig: Scatter Plot of pKi_5HT1A Vs pKi_5HTT
Data Processing and Model building ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
10/10/11 GQSAR Model ,[object Object],[object Object],[object Object],[object Object],[object Object],Fig: Contribution Plot for descriptors in GQSAR equation
Model Representation
Model Validation ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
[object Object],[object Object],[object Object],[object Object],[object Object],10/10/11 Model Interpretation * Figures in bracket indicate contribution of descriptor towards 5HTT and 5HT1A respectively ↑  Branched  substitution ↑  Polar surface ↓  Branched  Substitution ↓  H-don N atom attached to 2  heavy atoms pKi (5HTT): -0.97;  pKi(5HT1A) : 0.04
10/10/11 10/10/11 ,[object Object],[object Object],[object Object],Model Interpretation  (Interaction Descriptors) * Figures in bracket indicate contribution of descriptor towards 5HTT and 5HT1A respectively pKi (5HTT): -0.59;  pKi(5HT1A) : -0.3 ↓ sp2 atoms  separated by  2 bonds ↓  Branched  substitution ↓ sp2 atoms  separated by  6 bonds ↓  Molar  refractivity
10/10/11 Summary and Conclusion ,[object Object],[object Object],[object Object],[object Object],10/10/11
References ,[object Object],[object Object],[object Object],[object Object],[object Object]
[object Object],[object Object],[object Object],[object Object],Copyright © 2005 VLife Sciences Technologies Pvt. Ltd. All Rights Reserved. VLife Sciences, VLife Logo ,and all other VLife product names and slogans are trademarks or registered trademarks of VLife Sciences Technologies Pvt. Ltd.

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GQSAR for GPCR Studies

  • 1. Fragment Based-GQSAR for GPCR Studies Presenter: Kundan B. Ingale Application Scientist kundani@vlifesciences.com
  • 2.
  • 3.
  • 4.
  • 5.
  • 6. 10/10/11 Representative Molecules Piperazine (C2) Non Ring Nitrogen (C3) 1,2,3,6-tetrahydropyridine (C4) azabicyclo[3.2.1]oct-3-ene (C5) Piperidine (C1)
  • 7. Fragmentation Pattern Fragment R1 (aromatic region): aromatic ring connected with the core of the molecule i.e. fragment R2 Fragment R2 (anchor region): substituent present in the center of the molecule Fragment R3 (flexible region): substituent connected to other end of the fragment R2
  • 8. Relationship between 5HT1A and 5HTT inhibition Design and optimize molecules for multi-target activity r2 = 0.051 Fig: Scatter Plot of pKi_5HT1A Vs pKi_5HTT
  • 9.
  • 10.
  • 12.
  • 13.
  • 14.
  • 15.
  • 16.
  • 17.

Editor's Notes

  1. 4pathClusterCount^2 (-1.47, -1.11): Substituent with branched structure PSAExclPandS (2.62, 2.92): Substituent with polar surface area. Substituent with sp3 hybridized nitrogen atom substituted with two heavy atoms
  2. R3-4pathClusterCount*R1-T==2: R3 substituent with branched substituents along with presence of sp2 hybridized atoms separated with two topological bond distance at R1 R3-smr*R1-T==6: R3 Substituent`s molar refractivity (i.e. bulk) along with presence of sp2 hybridized atoms separated with six topological bond distance at R1 R3-chi3Cluster*R1-T=C1: R3 substituent`s chi3cluster topological index along with presence of sp2 hybridized carbon atom counts at R1 R3-SsCH3count*R1-TCF5 : R3 substituent with sp3 hybridized carbon atom attached to one heavy atom along with presence of F atom separated from C by five topological bond distance at R1