1bjv
From Proteopedia
| Line 4: | Line 4: | ||
|PDB= 1bjv |SIZE=350|CAPTION= <scene name='initialview01'>1bjv</scene>, resolution 1.8Å | |PDB= 1bjv |SIZE=350|CAPTION= <scene name='initialview01'>1bjv</scene>, resolution 1.8Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand=CA:CALCIUM+ION'>CA | + | |LIGAND= <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=GP8:1-(2-AMIDINOPHENYL)-3-(PHENOXYPHENYL)UREA'>GP8</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene> |
| - | |ACTIVITY= [http://en.wikipedia.org/wiki/Trypsin Trypsin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.4 3.4.21.4] | + | |ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Trypsin Trypsin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.4 3.4.21.4] </span> |
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY= | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1bjv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bjv OCA], [http://www.ebi.ac.uk/pdbsum/1bjv PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1bjv RCSB]</span> | ||
}} | }} | ||
| Line 32: | Line 35: | ||
[[Category: Presnell, S.]] | [[Category: Presnell, S.]] | ||
[[Category: Williams, L.]] | [[Category: Williams, L.]] | ||
| - | [[Category: CA]] | ||
| - | [[Category: DMS]] | ||
| - | [[Category: GP8]] | ||
| - | [[Category: SO4]] | ||
[[Category: digestion]] | [[Category: digestion]] | ||
[[Category: hydrolase]] | [[Category: hydrolase]] | ||
| Line 42: | Line 41: | ||
[[Category: zymogen]] | [[Category: zymogen]] | ||
| - | ''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 19:02:31 2008'' |
Revision as of 16:02, 30 March 2008
| |||||||
| , resolution 1.8Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , , , | ||||||
| Activity: | Trypsin, with EC number 3.4.21.4 | ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
BETA-TRYPSIN COMPLEXED WITH APPU
Overview
Novel aryl derivatives of benzamidine were synthesized and tested for their inhibitory potency against bovine trypsin, rat skin tryptase, human recombinant granzyme A, human thrombin, and human plasma kallikrein. All compounds show competitive inhibition against these proteases with Ki values in the micromolar range. X-ray structures were determined to 1.8 A resolution for trypsin complexed with two of the para-substituted benzamidine derivatives, 1-(4-amidinophenyl)-3-(4-chlorophenyl)urea (ACPU) and 1-(4-amidinophenyl)-3-(4-phenoxyphenyl)urea (APPU). Although the inhibitors do not engage in direct and specific interactions outside the S1 pocket, they do form intimate indirect contacts with the active site of trypsin. The inhibitors are linked to the enzyme by a sulfate ion that forms an intricate network of three-centered hydrogen bonds. Comparison of these structures with other serine protease structures with noncovalently bound oxyanions reveals a pair of highly conserved oxyanion-binding sites in the active site. The positions of noncovalently bound oxyanions, such as the oxygen atoms of sulfate, are distinct from the positions of covalent oxyanions of tetrahedral intermediates. Noncovalent oxyanion positions are outside the "oxyanion hole." Kinetics data suggest that protonation stabilizes the ternary inhibitor/oxyanion/protease complex. In sum, both cations and anions can mediate Ki. Cation mediation of potency of competitive inhibitors of serine proteases was previously reported by Stroud and co-workers [Katz, B. A., Clark, J. M., Finer-Moore, J. S., Jenkins, T. E., Johnson, C. R., Ross, M. J., Luong, C., Moore, W. R., and Stroud, R. M. (1998) Nature 391, 608-612].
About this Structure
1BJV is a Single protein structure of sequence from Bos taurus. Full crystallographic information is available from OCA.
Reference
Oxyanion-mediated inhibition of serine proteases., Presnell SR, Patil GS, Mura C, Jude KM, Conley JM, Bertrand JA, Kam CM, Powers JC, Williams LD, Biochemistry. 1998 Dec 1;37(48):17068-81. PMID:9836602
Page seeded by OCA on Sun Mar 30 19:02:31 2008
Categories: Bos taurus | Single protein | Trypsin | Bertrand, J. | Conley, J. | Jude, K. | Kam, C. | Mura, C. | Patil, G. | Powers, J. | Presnell, S. | Williams, L. | Digestion | Hydrolase | Pancrea | Serine protease | Zymogen
