2bkl
From Proteopedia
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|PDB= 2bkl |SIZE=350|CAPTION= <scene name='initialview01'>2bkl</scene>, resolution 1.50Å | |PDB= 2bkl |SIZE=350|CAPTION= <scene name='initialview01'>2bkl</scene>, resolution 1.50Å | ||
|SITE= <scene name='pdbsite=CAT:So4+Binding+Site+For+Chain+A'>CAT</scene> | |SITE= <scene name='pdbsite=CAT:So4+Binding+Site+For+Chain+A'>CAT</scene> | ||
| - | |LIGAND= <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZAH:N-[(BENZYLOXY)CARBONYL]-L-ALANYL-L-PROLINE'>ZAH</scene> | + | |LIGAND= <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZAH:N-[(BENZYLOXY)CARBONYL]-L-ALANYL-L-PROLINE'>ZAH</scene> |
| - | + | |ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Prolyl_oligopeptidase Prolyl oligopeptidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.26 3.4.21.26] </span> | |
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY= | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2bkl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bkl OCA], [http://www.ebi.ac.uk/pdbsum/2bkl PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2bkl RCSB]</span> | ||
}} | }} | ||
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[[Category: Mathews, I I.]] | [[Category: Mathews, I I.]] | ||
[[Category: Shan, L.]] | [[Category: Shan, L.]] | ||
| - | [[Category: MES]] | ||
| - | [[Category: SO4]] | ||
| - | [[Category: ZAH]] | ||
[[Category: celiac sprue]] | [[Category: celiac sprue]] | ||
[[Category: crystal structure]] | [[Category: crystal structure]] | ||
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[[Category: protease]] | [[Category: protease]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 02:07:47 2008'' |
Revision as of 23:07, 30 March 2008
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| , resolution 1.50Å | |||||||
|---|---|---|---|---|---|---|---|
| Sites: | |||||||
| Ligands: | , , | ||||||
| Activity: | Prolyl oligopeptidase, with EC number 3.4.21.26 | ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
STRUCTURAL AND MECHANISTIC ANALYSIS OF TWO PROLYL ENDOPEPTIDASES: ROLE OF INTER-DOMAIN DYNAMICS IN CATALYSIS AND SPECIFICITY
Overview
Prolyl endopeptidases (PEPs) are a unique class of serine proteases with considerable therapeutic potential for the treatment of celiac sprue. The crystal structures of two didomain PEPs have been solved in alternative configurations, thereby providing insights into the mode of action of these enzymes. The structure of the Sphingomonas capsulata PEP, solved and refined to 1.8-A resolution, revealed an open configuration of the active site. In contrast, the inhibitor-bound PEP from Myxococcus xanthus was crystallized (1.5-A resolution) in a closed form. Comparative analysis of the two structures highlights a critical role for the domain interface in regulating interdomain dynamics and substrate specificity. Structure-based mutagenesis of the M. xanthus PEP confirms an important role for several interfacial residues. A salt bridge between Arg-572 and Asp-196/Glu-197 appears to act as a latch for opening or closing the didomain enzyme, and Arg-572 and Ile-575 may also help secure the incoming peptide substrate to the open form of the enzyme. Arg-618 and Asp-145 are responsible for anchoring the invariant proline residue in the active site of this postproline-cleaving enzyme. A model is proposed for the docking of a representative substrate PQPQLPYPQPQLP in the active site, where the N-terminal substrate residues interact extensively with the catalytic domain, and the C-terminal residues stretch into the propeller domain. Given the promise of the M. xanthus PEP as an oral therapeutic enzyme for treating celiac sprue, our results provide a strong foundation for further optimization of the PEP's clinically useful features.
About this Structure
2BKL is a Single protein structure of sequence from Myxococcus xanthus. Full crystallographic information is available from OCA.
Reference
Structural and mechanistic analysis of two prolyl endopeptidases: role of interdomain dynamics in catalysis and specificity., Shan L, Mathews II, Khosla C, Proc Natl Acad Sci U S A. 2005 Mar 8;102(10):3599-604. Epub 2005 Feb 28. PMID:15738423
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