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1bxq

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{{STRUCTURE_1bxq| PDB=1bxq | SCENE= }}
{{STRUCTURE_1bxq| PDB=1bxq | SCENE= }}
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'''ACID PROTEINASE (PENICILLOPEPSIN) COMPLEX WITH PHOSPHONATE INHIBITOR.'''
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===ACID PROTEINASE (PENICILLOPEPSIN) COMPLEX WITH PHOSPHONATE INHIBITOR.===
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==Overview==
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The design of inhibitors with enhanced potency against proteolytic enzymes has many applications for the treatment of human diseases. In addition to the optimization of chemical interactions between the enzyme and inhibitor, the binding affinity can be increased by constraining the inhibitor to the conformation that is recognized by the enzyme, thus lowering the entropic barrier to complex formation. We have structurally characterized the complexes of a macrocyclic pentapeptide inhibitor and its acyclic analogue with penicillopepsin, an aspartic proteinase, to study the effect of conformational constraint on the binding affinity. The phosphonate-based macrocycle PPi4 (Ki = 0.10 nM) is covalently linked at the P2-Asn and P1'-Phe side chains [nomenclature of Schechter and Berger, Biochim. Biophys. Res. Commun. (1967) 27, 157-162] via an amide bond, relative to the acyclic compound PPi3 (Ki = 42 nM). Comparisons of the high-resolution crystal structures of PPi4-penicillopepsin (0.95 A) and PPi3-penicillopepsin (1.45 A) reveal that the conformations of the inhibitors and their interactions with the enzyme are similar. The 420-fold increase in the binding affinity of PPi4 is attributed to a reduction in its conformational flexibility, thus providing the first rigorous measure of the entropic contribution to the binding energy in a protein-ligand complex and stressing the advantages of the design strategy.
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(as it appears on PubMed at http://www.pubmed.gov), where 9836576 is the PubMed ID number.
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{{ABSTRACT_PUBMED_9836576}}
==About this Structure==
==About this Structure==
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[[Category: Hydrolase]]
[[Category: Hydrolase]]
[[Category: Phosphonate inhibitor]]
[[Category: Phosphonate inhibitor]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 12:05:23 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jun 30 19:53:06 2008''

Revision as of 16:53, 30 June 2008

Image:1bxq.png

Template:STRUCTURE 1bxq

ACID PROTEINASE (PENICILLOPEPSIN) COMPLEX WITH PHOSPHONATE INHIBITOR.

Template:ABSTRACT PUBMED 9836576

About this Structure

1BXQ is a Single protein structure of sequence from Penicillium janthinellum. Full crystallographic information is available from OCA.

Reference

Lowering the entropic barrier for binding conformationally flexible inhibitors to enzymes., Khan AR, Parrish JC, Fraser ME, Smith WW, Bartlett PA, James MN, Biochemistry. 1998 Dec 1;37(48):16839-45. PMID:9836576

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