3M6F

CD11A I-domain complexed with 6-((5S,9R)-9-(4-CYANOPHENYL)-3-(3,5-DICHLOROPHENYL)-1-METHYL-2,4-DIOXO-1,3,7- TRIAZASPIRO[4.4]NON-7-YL)NICOTINIC ACID


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.227 
  • R-Value Work: 0.192 
  • R-Value Observed: 0.193 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Small molecule antagonist of leukocyte function associated antigen-1 (LFA-1): structure-activity relationships leading to the identification of 6-((5S,9R)-9-(4-cyanophenyl)-3-(3,5-dichlorophenyl)-1-methyl-2,4-dioxo-1,3,7-triazaspiro[4.4]nonan-7-yl)nicotinic acid (BMS-688521).

Watterson, S.H.Xiao, Z.Dodd, D.S.Tortolani, D.R.Vaccaro, W.Potin, D.Launay, M.Stetsko, D.K.Skala, S.Davis, P.M.Lee, D.Yang, X.McIntyre, K.W.Balimane, P.Patel, K.Yang, Z.Marathe, P.Kadiyala, P.Tebben, A.J.Sheriff, S.Chang, C.Y.Ziemba, T.Zhang, H.Chen, B.C.DelMonte, A.J.Aranibar, N.McKinnon, M.Barrish, J.C.Suchard, S.J.Murali Dhar, T.G.

(2010) J Med Chem 53: 3814-3830

  • DOI: 10.1021/jm100348u
  • Primary Citation of Related Structures:  
    3M6F

  • PubMed Abstract: 
  • Leukocyte function-associated antigen-1 (LFA-1), also known as CD11a/CD18 or alpha(L)beta(2), belongs to the beta(2) integrin subfamily and is constitutively expressed on all leukocytes. The major ligands of LFA-1 include three intercellular adhesion ...

    Leukocyte function-associated antigen-1 (LFA-1), also known as CD11a/CD18 or alpha(L)beta(2), belongs to the beta(2) integrin subfamily and is constitutively expressed on all leukocytes. The major ligands of LFA-1 include three intercellular adhesion molecules 1, 2, and 3 (ICAM 1, 2, and 3). The interactions between LFA-1 and the ICAMs are critical for cell adhesion, and preclinical animal studies and clinical data from the humanized anti-LFA-1 antibody efalizumab have provided proof-of-concept for LFA-1 as an immunological target. This article will detail the structure-activity relationships (SAR) leading to a novel second generation series of highly potent spirocyclic hydantoin antagonists of LFA-1. With significantly enhanced in vitro and ex vivo potency relative to our first clinical compound (1), as well as demonstrated in vivo activity and an acceptable pharmacokinetic and safety profile, 6-((5S,9R)-9-(4-cyanophenyl)-3-(3,5-dichlorophenyl)-1-methyl-2,4-dioxo-1,3,7-triazaspiro-[4.4]nonan-7-yl)nicotinic acid (2e) was selected to advance into clinical trials.


    Related Citations: 
    • Discovery and Development of 5-[(5S,9R)-9-(4-Cyanophenyl)-3-(3,5-dichlorophenyl)-1-methyl-2,4-dioxo-1,3,7-triazaspiro [4.4]non-7-yl]methyl]-3-thiophenecarboxylicacid (BMS-587101) -- Small Molecule Antagonist of LFA-1
      Potin, D., Launay, M., Monatlik, F., Malabre, P., Fabreguettes, M., Fouquet, A., Maillet, M., Nicolai, E., Dorgeret, L., Chevallier, F., Besse, D., Dufort, M., Caussade, F., Ahmad, S.Z., Stetsko, D.K., Skala, S., Davis, P.M., Balimane, P., Patel, K., Yang, Z., Marathe, P., Postelneck, J., Townsend, R.M., Sheriff, S., Einspahr, H., Kish, K., Malley, M.F., Gougoutas, J.Z., Kadiyala, P., Cheney, D.L., Tejwani, R.W., Murphy, D.K., Mcintyre, K.W., Yang, X., Chao, S., Leith, L., Xiao, Z., Mathur, A., Chen, B.-C., Wu, D.-R., Traeger, S.C., McKinnon, M., Barrish, J.C., Robl, J.A., Iwanowicz, E.J., Suchard, S.J., Dhar, T.G.M.
      (2006) J Med Chem 49: 6946

    Organizational Affiliation

    Bristol-Myers Squibb Research and Development, P.O. Box 4000, Princeton, New Jersey 08543, USA. scott.watterson@bms.com



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Integrin alpha-LA183Homo sapiensMutation(s): 0 
Gene Names: ITGALCD11A
Find proteins for P20701 (Homo sapiens)
Explore P20701 
Go to UniProtKB:  P20701
NIH Common Fund Data Resources
PHAROS  P20701
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
BJZ
Query on BJZ

Download Ideal Coordinates CCD File 
A
6-[(5S,9R)-9-(4-cyanophenyl)-3-(3,5-dichlorophenyl)-1-methyl-2,4-dioxo-1,3,7-triazaspiro[4.4]non-7-yl]pyridine-3-carboxylic acid
C26 H19 Cl2 N5 O4
LILGMDXLRPEBNH-HFZDXXHNSA-N
 Ligand Interaction
NO3
Query on NO3

Download Ideal Coordinates CCD File 
A
NITRATE ION
N O3
NHNBFGGVMKEFGY-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
BJZIC50:  276   nM  BindingDB
BJZIC50:  60   nM  BindingDB
BJZIC50:  2.5   nM  BindingDB
BJZIC50 :  2.5   nM  PDBBind
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.227 
  • R-Value Work: 0.192 
  • R-Value Observed: 0.193 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 40.6α = 90
b = 63.6β = 90
c = 63.1γ = 90
Software Package:
Software NamePurpose
CNSrefinement
PDB_EXTRACTdata extraction
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing
CNXrefinement

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

  • Deposited Date: 2010-03-15 
  • Released Date: 2010-05-12 
  • Deposition Author(s): Sheriff, S.

Revision History 

  • Version 1.0: 2010-05-12
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2018-04-04
    Changes: Advisory, Data collection
  • Version 1.3: 2018-04-11
    Changes: Data collection