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1lqd

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{{STRUCTURE_1lqd| PDB=1lqd | SCENE= }}
{{STRUCTURE_1lqd| PDB=1lqd | SCENE= }}
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'''CRYSTAL STRUCTURE OF FXA IN COMPLEX WITH 45.'''
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===CRYSTAL STRUCTURE OF FXA IN COMPLEX WITH 45.===
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==Overview==
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A series of 138 nonchiral 3-amidinobenzyl-1H-indole-2-carboxamides and analogues as inhibitors of the blood coagulation enzyme factor Xa (fXa) were designed, synthesized, and investigated by X-ray structure analysis and 3D quantitative structure-activity relationship (QSAR) studies (CoMFA, CoMSIA) in order to identify important protein-ligand interactions responsible for biological affinity and selectivity. Several compounds from this series are highly potent and selective inhibitors of this important enzyme linking extrinsic and intrinsic coagulation pathways. To rationalize biological affinity and to provide guidelines for further design, all compounds were docked into the factor Xa binding site. Those docking studies were based on X-ray structures of factor Xa in complex with literature-known inhibitors. It was possible to validate those binding modes by four X-ray crystal structures of representative ligands in factor Xa, while one ligand was additionally crystallized in trypsin to rationalize requirements for selective factor Xa inhibition. The 3D-QSAR models based on a superposition rule derived from these docking studies were validated using conventional and cross-validated r(2) values using the leave-one-out method and repeated analyses using two randomly chosen cross-validation groups plus randomization of biological activities. This led to consistent and highly predictive 3D-QSAR models with good correlation coefficients for both CoMFA and CoMSIA, which were found to correspond to experimentally determined factor Xa binding site topology in terms of steric, electrostatic, and hydrophobic complementarity. Subsets selected as smaller training sets using 2D fingerprints and maximum dissimilarity methods resulted in 3D-QSAR models with remarkable correlation coefficients and a high predictive power. The final quantitative SAR information agrees with all experimental data for the binding topology and thus provides reasonable activity predictions for novel factor Xa inhibitors.
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(as it appears on PubMed at http://www.pubmed.gov), where 12061878 is the PubMed ID number.
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{{ABSTRACT_PUBMED_12061878}}
==About this Structure==
==About this Structure==
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[[Category: Protein-inhibitor complex]]
[[Category: Protein-inhibitor complex]]
[[Category: Serine proteinase]]
[[Category: Serine proteinase]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 00:10:26 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 2 21:47:13 2008''

Revision as of 18:47, 2 July 2008

Image:1lqd.png

Template:STRUCTURE 1lqd

CRYSTAL STRUCTURE OF FXA IN COMPLEX WITH 45.

Template:ABSTRACT PUBMED 12061878

About this Structure

1LQD is a Protein complex structure of sequences from Homo sapiens. Full crystallographic information is available from OCA.

Reference

Design and quantitative structure-activity relationship of 3-amidinobenzyl-1H-indole-2-carboxamides as potent, nonchiral, and selective inhibitors of blood coagulation factor Xa., Matter H, Defossa E, Heinelt U, Blohm PM, Schneider D, Muller A, Herok S, Schreuder H, Liesum A, Brachvogel V, Lonze P, Walser A, Al-Obeidi F, Wildgoose P, J Med Chem. 2002 Jun 20;45(13):2749-69. PMID:12061878

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