3BQN

LFA-1 I domain bound to inhibitors


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.252 
  • R-Value Work: 0.202 
  • R-Value Observed: 0.205 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structure-activity relationship of ortho- and meta-phenol based LFA-1 ICAM inhibitors

Lin, E.Y.Guckian, K.M.Silvian, L.Chin, D.Boriack-Sjodin, P.A.van Vlijmen, H.Friedman, J.E.Scott, D.M.

(2008) Bioorg Med Chem Lett 18: 5245-5248

  • DOI: 10.1016/j.bmcl.2008.08.062
  • Primary Citation of Related Structures:  
    3BQN, 3E2M

  • PubMed Abstract: 
  • LFA-1 ICAM inhibitors based on ortho- and meta-phenol templates were designed and synthesized by Mitsunobu chemistry. The selection of targets was guided by X-ray co-crystal data, and led to compounds which showed an up to 30-fold increase in potency ...

    LFA-1 ICAM inhibitors based on ortho- and meta-phenol templates were designed and synthesized by Mitsunobu chemistry. The selection of targets was guided by X-ray co-crystal data, and led to compounds which showed an up to 30-fold increase in potency over reference compound 1 in the LFA-1/ICAM1-Ig assay. The most active compound exploited a new hydrogen bond to the I-domain and exhibited subnanomolar potency.


    Organizational Affiliation

    Research and Development, Biogen Idec Inc., 14 Cambridge Center, Cambridge, MA 02142, USA. ted.lin@biogenidec.com



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Integrin alpha-LBC182Homo sapiensMutation(s): 1 
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 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
BQN
Query on BQN

Download CCD File 
B, C
4-{(2E)-3-[4-{[2-(pyridin-3-ylmethoxy)phenyl]sulfanyl}-2,3-bis(trifluoromethyl)phenyl]prop-2-enoyl}morpholine
C27 H22 F6 N2 O3 S
ZRIKDHLPCRURPX-CSKARUKUSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
BQNIC50:  2.5   nM  Binding MOAD
BQNIC50:  2.5   nM  BindingDB
BQNIC50 :  2.5   nM  PDBBind
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.252 
  • R-Value Work: 0.202 
  • R-Value Observed: 0.205 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 73.425α = 90
b = 70.119β = 90
c = 72.457γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
CrystalCleardata collection
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

  • Deposited Date: 2007-12-20 
  • Released Date: 2008-08-19 
  • Deposition Author(s): Silvian, L.F.

Revision History 

  • Version 1.0: 2008-08-19
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance