Cleavage Entropy as Quantitative Measure of Protease Specificity

Cascade detection for the extraction of localized sequence features; specificity results for HIV-1 protease and structure–function results for the Schellman loop

(2011) Nicholas E. Newell   BIOINFORMATICS

Factor Xa subsite mapping by proteome-derived peptide libraries improved using WebPICS, a resource for proteomic identification of cleavage sites

(2011) Oliver Schilling et al.   BIOLOGICAL CHEMISTRY

A review of statistical methods for prediction of proteolytic cleavage

(2011) D. A. duVerle et al.   BRIEFINGS IN BIOINFORMATICS

Reorganizing the protein space at the Universal Protein Resource (UniProt)

(2011)   NUCLEIC ACIDS RESEARCH

Interactive Tree Of Life v2: online annotation and display of phylogenetic trees made easy

(2011) I. Letunic et al.   NUCLEIC ACIDS RESEARCH

MEROPS: the database of proteolytic enzymes, their substrates and inhibitors

(2011) N. D. Rawlings et al.   NUCLEIC ACIDS RESEARCH

Third generation of matrix metalloprotease inhibitors: Gain in selectivity by targeting the depth of the S1′ cavity

(2010) Laurent Devel et al.   BIOCHIMIE

Update 1 of: Proteases Universally Recognize Beta Strands In Their Active Sites

(2010) Praveen K. Madala et al.   CHEMICAL REVIEWS

Current Strategies for Probing Substrate Specificity of Proteases

(2010) M. Poreba et al.   CURRENT MEDICINAL CHEMISTRY

What makes an enzyme promiscuous?

(2010) Ann Babtie et al.   CURRENT OPINION IN CHEMICAL BIOLOGY

Quantifying and Predicting the Promiscuity and Isoform Specificity of Small-Molecule Cytochrome P450 Inhibitors

(2010) A. Nath et al.   DRUG METABOLISM AND DISPOSITION

Backbone Flexibility Controls the Activity and Specificity of a Protein−Protein Interface: Specificity in Snake Venom Metalloproteases

(2010) Hannes G. Wallnoefer et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

A Statistics-based Platform for Quantitative N-terminome Analysis and Identification of Protease Cleavage Products

(2010) Ulrich auf dem Keller et al.   MOLECULAR & CELLULAR PROTEOMICS

Isotopic labeling of terminal amines in complex samples identifies protein N-termini and protease cleavage products

(2010) Oded Kleifeld et al.   NATURE BIOTECHNOLOGY

Emerging principles in protease-based drug discovery

(2010) Marcin Drag et al.   NATURE REVIEWS DRUG DISCOVERY

The refined 1.9-Å X-ray crystal structure of d-Phe-Pro-Arg chloromethylketone-inhibited human α-thrombin: Structure analysis, overall structure, electrostatic properties, detailed active-site geometry, and structure-function relationships

(2010) Wolfram Bode et al.   PROTEIN SCIENCE

Structural basis of substrate specificity in the serine proteases

(2010) John J. Perona et al.   PROTEIN SCIENCE

Improved visualization of protein consensus sequences by iceLogo

(2009) Niklaas Colaert et al.   NATURE METHODS

MEROPS: the peptidase database

(2009) Neil D. Rawlings et al.   NUCLEIC ACIDS RESEARCH

SitePredicting the cleavage of proteinase substrates

(2009) Jelle Verspurten et al.   TRENDS IN BIOCHEMICAL SCIENCES

Modeling Escherichia coli signal peptidase complex with bound substrate: determinants in the mature peptide influencing signal peptide cleavage

(2008) Khar Choo et al.   BMC BIOINFORMATICS

Malarial proteases and host cell egress: an ‘emerging’ cascade

(2008) Michael J. Blackman   CELLULAR MICROBIOLOGY

Intracellular Peptides as Natural Regulators of Cell Signaling

(2008) Fernanda M. Cunha et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Proteome-derived, database-searchable peptide libraries for identifying protease cleavage sites

(2008) Oliver Schilling et al.   NATURE BIOTECHNOLOGY

Engineering protease specificity made simple, but not simpler

(2008) Enrico Di Cera   Nature Chemical Biology

PMAP: databases for analyzing proteolytic events and pathways

(2008) Yoshinobu Igarashi et al.   NUCLEIC ACIDS RESEARCH

A Quantitative Index of Substrate Promiscuity†

(2007) Abhinav Nath et al.   BIOCHEMISTRY