2eep: Difference between revisions
New page: left|200px<br /><applet load="2eep" size="350" color="white" frame="true" align="right" spinBox="true" caption="2eep, resolution 2.20Å" /> '''Prolyl Tripeptidyl A... |
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[[Image:2eep.jpg|left|200px]] | [[Image:2eep.jpg|left|200px]] | ||
'''Prolyl Tripeptidyl Aminopeptidase Complexed with an Inhibitor''' | {{Structure | ||
|PDB= 2eep |SIZE=350|CAPTION= <scene name='initialview01'>2eep</scene>, resolution 2.20Å | |||
|SITE= <scene name='pdbsite=AC1:So4+Binding+Site+For+Residue+A+802'>AC1</scene> and <scene name='pdbsite=AC2:Aio+Binding+Site+For+Residue+A+801'>AC2</scene> | |||
|LIGAND= <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene> and <scene name='pdbligand=AIO:'>AIO</scene> | |||
|ACTIVITY= | |||
|GENE= PG1361 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=837 Porphyromonas gingivalis]) | |||
}} | |||
'''Prolyl Tripeptidyl Aminopeptidase Complexed with an Inhibitor''' | |||
==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
2EEP is a [ | 2EEP is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Porphyromonas_gingivalis Porphyromonas gingivalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EEP OCA]. | ||
==Reference== | ==Reference== | ||
Novel inhibitor for prolyl tripeptidyl aminopeptidase from Porphyromonas gingivalis and details of substrate-recognition mechanism., Xu Y, Nakajima Y, Ito K, Zheng H, Oyama H, Heiser U, Hoffmann T, Gartner UT, Demuth HU, Yoshimoto T, J Mol Biol. 2008 Jan 18;375(3):708-19. Epub 2007 Oct 3. PMID:[http:// | Novel inhibitor for prolyl tripeptidyl aminopeptidase from Porphyromonas gingivalis and details of substrate-recognition mechanism., Xu Y, Nakajima Y, Ito K, Zheng H, Oyama H, Heiser U, Hoffmann T, Gartner UT, Demuth HU, Yoshimoto T, J Mol Biol. 2008 Jan 18;375(3):708-19. Epub 2007 Oct 3. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18042490 18042490] | ||
[[Category: Porphyromonas gingivalis]] | [[Category: Porphyromonas gingivalis]] | ||
[[Category: Single protein]] | [[Category: Single protein]] | ||
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[[Category: serine peptidase]] | [[Category: serine peptidase]] | ||
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 16:39:05 2008'' | ||
Revision as of 17:39, 20 March 2008
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| , resolution 2.20Å | |||||||
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| Sites: | and | ||||||
| Ligands: | and | ||||||
| Gene: | PG1361 (Porphyromonas gingivalis) | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Prolyl Tripeptidyl Aminopeptidase Complexed with an Inhibitor
OverviewOverview
A new inhibitor, H-Ala-Ile-pyrrolidin-2-yl boronic acid, was developed as an inhibitor against prolyl tripeptidyl aminopeptidase with a K(i) value of 88.1 nM. The structure of the prolyl tripeptidyl aminopeptidase complexed with the inhibitor (enzyme-inhibitor complex) was determined at 2.2 A resolution. The inhibitor was bound to the active site through a covalent bond between Ser603 and the boron atom of the inhibitor. This structure should closely mimic the structure of the reaction intermediate between the enzyme and substrate. We previously proposed that two glutamate residues, Glu205 and Glu636, are involved in the recognition of substrates. In order to clarify the function of these glutamate residues in substrate recognition, three mutant enzymes, E205A, E205Q, and E636A were generated by site-directed mutagenesis. The E205A mutant was expressed as an inclusion body. The E205Q mutant was expressed in soluble form, but no activity was detected. Here, the structures of the E636A mutant and its complex with the inhibitor were determined. The inhibitor was located at almost the same position as in the wild-type enzyme-inhibitor complex. The amino group of the inhibitor interacted with Glu205 and the main-chain carbonyl group of Gln203. In addition, a water molecule in the place of Glu636 of the wild-type enzyme interacted with the amino group of the inhibitor. This water molecule was located near the position of Glu636 in the wild-type and formed a hydrogen bond with Gln203. The k(cat)/K(M) values of the E636A mutant toward the two substrates used were smaller than those of the wild-type by two orders of magnitude. The K(i) value of our inhibitor for the E636A mutant was 48.8 microM, which was 554-fold higher than that against the wild-type enzyme. Consequently, it was concluded that Glu205 and Glu636 are significant residues for the N-terminal recognition of a substrate.
About this StructureAbout this Structure
2EEP is a Single protein structure of sequence from Porphyromonas gingivalis. Full crystallographic information is available from OCA.
ReferenceReference
Novel inhibitor for prolyl tripeptidyl aminopeptidase from Porphyromonas gingivalis and details of substrate-recognition mechanism., Xu Y, Nakajima Y, Ito K, Zheng H, Oyama H, Heiser U, Hoffmann T, Gartner UT, Demuth HU, Yoshimoto T, J Mol Biol. 2008 Jan 18;375(3):708-19. Epub 2007 Oct 3. PMID:18042490
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