1fq6
From Proteopedia
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|PDB= 1fq6 |SIZE=350|CAPTION= <scene name='initialview01'>1fq6</scene>, resolution 2.7Å | |PDB= 1fq6 |SIZE=350|CAPTION= <scene name='initialview01'>1fq6</scene>, resolution 2.7Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand= | + | |LIGAND= <scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=GSC:2-ETHYLTHIO+GLYCINE'>GSC</scene>, <scene name='pdbligand=GUP:BETA-L-GULOPYRANOSIDE'>GUP</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=NDG:2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE'>NDG</scene>, <scene name='pdbligand=PHE:PHENYLALANINE'>PHE</scene>, <scene name='pdbligand=SOT:N-HYDROSULFONYLMORPHOLINE'>SOT</scene>, <scene name='pdbligand=XAO:CYCLOHEXYLMETHYL-2,3-DIHYDROXY-5-METHYL-HEXYLAMIDE'>XAO</scene> |
| - | |ACTIVITY= [http://en.wikipedia.org/wiki/Saccharopepsin Saccharopepsin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.23.25 3.4.23.25] | + | |ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Saccharopepsin Saccharopepsin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.23.25 3.4.23.25] </span> |
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY=[[1fq4|1fq4]], [[1fq5|1fq5]], [[1fq7|1fq7]], [[1fq8|1fq8]] | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1fq6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1fq6 OCA], [http://www.ebi.ac.uk/pdbsum/1fq6 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1fq6 RCSB]</span> | ||
}} | }} | ||
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[[Category: Rosati, R L.]] | [[Category: Rosati, R L.]] | ||
[[Category: Tickle, I J.]] | [[Category: Tickle, I J.]] | ||
| - | + | [[Category: diol moiety spanning p1-p1' inhibitor sites (acdmh - (2s,3r,4s) 2-amino-1cyclohexyl-3,4-dihydroxy-6-methylheptane).]] | |
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| - | [[Category: diol moiety spanning p1-p1' inhibitor sites (acdmh - (2]] | + | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 20:28:02 2008'' |
Revision as of 17:28, 30 March 2008
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| , resolution 2.7Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , , , , , , , | ||||||
| Activity: | Saccharopepsin, with EC number 3.4.23.25 | ||||||
| Related: | 1fq4, 1fq5, 1fq7, 1fq8
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| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
X-RAY STRUCTURE OF GLYCOL INHIBITOR PD-133,450 BOUND TO SACCHAROPEPSIN
Overview
Saccharopepsin is a vacuolar aspartic proteinase involved in activation of a number of hydrolases. The enzyme has great structural homology to mammalian aspartic proteinases including human renin and we have used it as a model system to study the binding of renin inhibitors by X-ray crystallography. Five medium-to-high resolution structures of saccharopepsin complexed with transition-state analogue renin inhibitors were determined. The structure of a cyclic peptide inhibitor (PD-129,541) complexed with the proteinase was solved to 2.5 A resolution. This inhibitor has low affinity for human renin yet binds very tightly to the yeast proteinase (K(i)=4 nM). The high affinity of this inhibitor can be attributed to its bulky cyclic moiety spanning P(2)-P(3)' and other residues that appear to optimally fit the binding sub-sites of the enzyme. Superposition of the saccharopepsin structure on that of renin showed that a movement of the loop 286-301 relative to renin facilitates tighter binding of this inhibitor to saccharopepsin. Our 2.8 A resolution structure of the complex with CP-108,420 shows that its benzimidazole P(3 )replacement retains one of the standard hydrogen bonds that normally involve the inhibitor's main-chain. This suggests a non-peptide lead in overcoming the problem of susceptible peptide bonds in the design of aspartic proteinase inhibitors. CP-72,647 which possesses a basic histidine residue at P(2), has a high affinity for renin (K(i)=5 nM) but proves to be a poor inhibitor for saccharopepsin (K(i)=3.7 microM). This may stem from the fact that the histidine residue would not bind favourably with the predominantly hydrophobic S(2) sub-site of saccharopepsin.
About this Structure
1FQ6 is a Single protein structure of sequence from Saccharomyces cerevisiae. Full crystallographic information is available from OCA.
Reference
X-ray structures of five renin inhibitors bound to saccharopepsin: exploration of active-site specificity., Cronin NB, Badasso MO, J Tickle I, Dreyer T, Hoover DJ, Rosati RL, Humblet CC, Lunney EA, Cooper JB, J Mol Biol. 2000 Nov 10;303(5):745-60. PMID:11061973
Page seeded by OCA on Sun Mar 30 20:28:02 2008
Categories: Saccharomyces cerevisiae | Saccharopepsin | Single protein | Badasso, M O. | Cooper, J B. | Cronin, N B. | Dreyer, T. | Hoover, D J. | Humblet, C C. | Lunney, E A. | Rosati, R L. | Tickle, I J. | Diol moiety spanning p1-p1' inhibitor sites (acdmh - (2s,3r,4s) 2-amino-1cyclohexyl-3,4-dihydroxy-6-methylheptane).
