1pfg

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[[Image:1pfg.jpg|left|200px]]<br /><applet load="1pfg" size="350" color="white" frame="true" align="right" spinBox="true"
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[[Image:1pfg.jpg|left|200px]]
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caption="1pfg, resolution 2.5&Aring;" />
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'''Strategy to design inhibitors: Structure of a complex of Proteinase K with a designed octapeptide inhibitor N-Ac-Pro-Ala-Pro-Phe-DAla-Ala-Ala-Ala-NH2 at 2.5A resolution'''<br />
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{{Structure
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|PDB= 1pfg |SIZE=350|CAPTION= <scene name='initialview01'>1pfg</scene>, resolution 2.5&Aring;
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|SITE=
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|LIGAND= <scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene> and <scene name='pdbligand=NH2:AMINO GROUP'>NH2</scene>
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|ACTIVITY= [http://en.wikipedia.org/wiki/Peptidase_K Peptidase K], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.64 3.4.21.64]
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|GENE=
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}}
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'''Strategy to design inhibitors: Structure of a complex of Proteinase K with a designed octapeptide inhibitor N-Ac-Pro-Ala-Pro-Phe-DAla-Ala-Ala-Ala-NH2 at 2.5A resolution'''
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==Overview==
==Overview==
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==About this Structure==
==About this Structure==
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1PFG is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Engyodontium_album Engyodontium album] with <scene name='pdbligand=ACE:'>ACE</scene> and <scene name='pdbligand=NH2:'>NH2</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Peptidase_K Peptidase K], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.64 3.4.21.64] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PFG OCA].
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1PFG is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Engyodontium_album Engyodontium album]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PFG OCA].
==Reference==
==Reference==
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Strategy to design peptide inhibitors: structure of a complex of proteinase K with a designed octapeptide inhibitor N-Ac-Pro-Ala-Pro-Phe-DAla-Ala-Ala-Ala-NH2 at 2.5 A resolution., Saxena AK, Singh TP, Peters K, Fittkau S, Betzel C, Protein Sci. 1996 Dec;5(12):2453-8. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=8976553 8976553]
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Strategy to design peptide inhibitors: structure of a complex of proteinase K with a designed octapeptide inhibitor N-Ac-Pro-Ala-Pro-Phe-DAla-Ala-Ala-Ala-NH2 at 2.5 A resolution., Saxena AK, Singh TP, Peters K, Fittkau S, Betzel C, Protein Sci. 1996 Dec;5(12):2453-8. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/8976553 8976553]
[[Category: Engyodontium album]]
[[Category: Engyodontium album]]
[[Category: Peptidase K]]
[[Category: Peptidase K]]
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[[Category: proteinase k]]
[[Category: proteinase k]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 14:28:34 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 13:23:40 2008''

Revision as of 11:23, 20 March 2008

Image:1pfg.jpg


PDB ID 1pfg

Drag the structure with the mouse to rotate
, resolution 2.5Å
Ligands: and
Activity: Peptidase K, with EC number 3.4.21.64
Coordinates: save as pdb, mmCIF, xml



Strategy to design inhibitors: Structure of a complex of Proteinase K with a designed octapeptide inhibitor N-Ac-Pro-Ala-Pro-Phe-DAla-Ala-Ala-Ala-NH2 at 2.5A resolution


Overview

The crystal structure of a complex formed by the interaction between proteinase K and a designed octapeptide amide, N-Ac-Pro-Ala-Pro-Phe-DAla-Ala-Ala-Ala-NH2, has been determined at 2.5 A resolution and refined to an R-factor of 16.7% for 7,430 reflections in the resolution range of 8.0-2.50 A. The inhibitor forms a stable complex through a series of hydrogen bonds and hydrophobic interactions with the protein atoms and water molecules. The inhibitor is hydrolyzed between Phe4I and DAla5I (I indicates the inhibitor). The two fragments are separated by a distance of 3.2 A between the carbonyl carbon of Phe4I and the main-chain nitrogen of DAla5I. The N-terminal tetrapeptide occupies subsites S1-S5 (S5 for acetyl group), whereas the C-terminal part fits into S1'-S5' region (S5' for amide group). It is the first time that such an extended electron density for a designed synthetic peptide inhibitor has been observed in the prime region of an enzyme of the subtilisin family. In fact, the inhibitor fills the recognition site completely. There is only a slight rearrangement of the protein residues to accommodate the inhibitor. Superposition of the present octapeptide inhibitor on the hexapeptide inhibitor studied previously shows an overall homology of the two inhibitors, although the individual atoms are displaced significantly. It suggests the existence of a recognition site with flexible dimensions. Kinetic studies indicate an inhibition rate of 100% by this specifically designed peptide inhibitor.

About this Structure

1PFG is a Single protein structure of sequence from Engyodontium album. Full crystallographic information is available from OCA.

Reference

Strategy to design peptide inhibitors: structure of a complex of proteinase K with a designed octapeptide inhibitor N-Ac-Pro-Ala-Pro-Phe-DAla-Ala-Ala-Ala-NH2 at 2.5 A resolution., Saxena AK, Singh TP, Peters K, Fittkau S, Betzel C, Protein Sci. 1996 Dec;5(12):2453-8. PMID:8976553

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