1BJV

BETA-TRYPSIN COMPLEXED WITH APPU

Summary for 1BJV

• Entry DOI: 10.2210/pdb1bjv/pdb
• Descriptor: BETA-TRYPSIN, CALCIUM ION, SULFATE ION, ... (6 entities in total)
• Functional Keywords: hydrolase, serine protease, digestion, pancreas, zymogen
• Biological source: Bos taurus (cattle)
• Cellular location: Secreted, extracellular space: P00760
• Total number of polymer chains: 1
• Total formula weight: 23981.01

Authors

Presnell, S.,Patil, G.,Mura, C.,Jude, K.,Conley, J.,Kam, C.,Bertrand, J.,Powers, J.,Williams, L. (deposition date: 1998-06-29, release date: 1998-12-02, Last modification date: 2024-11-20)

Primary citation

Presnell, S.R.,Patil, G.S.,Mura, C.,Jude, K.M.,Conley, J.M.,Bertrand, J.A.,Kam, C.M.,Powers, J.C.,Williams, L.D.
Oxyanion-mediated inhibition of serine proteases.
Biochemistry, 37:17068-17081, 1998

PubMed Abstract: 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].

PubMed: 9836602
DOI: 10.1021/bi981636u

Experimental method

X-RAY DIFFRACTION (1.8 Å)