PEPstrMOD: structure prediction of peptides containing natural, non-natural and modified residues

SATPdb: a database of structurally annotated therapeutic peptides

(2015) Sandeep Singh et al.   NUCLEIC ACIDS RESEARCH

Tumor Homing Peptides as Molecular Probes for Cancer Therapeutics, Diagnostics and Theranostics

(2014) A. Gautam et al.   CURRENT MEDICINAL CHEMISTRY

Improved PEP-FOLD Approach for Peptide and Miniprotein Structure Prediction

(2014) Yimin Shen et al.   Journal of Chemical Theory and Computation

Rational Design of Artificial β-Strand-Forming Antimicrobial Peptides with Biocompatible Properties

(2014) Karsten Rapsch et al.   MOLECULAR PHARMACEUTICS

CancerPPD: a database of anticancer peptides and proteins

(2014) Atul Tyagi et al.   NUCLEIC ACIDS RESEARCH

AHTPDB: a comprehensive platform for analysis and presentation of antihypertensive peptides

(2014) Ravi Kumar et al.   NUCLEIC ACIDS RESEARCH

Identification of Urinary Peptide Biomarkers Associated with Rheumatoid Arthritis

(2014) Angelique Stalmach et al.   PLoS One

ParaPep: a web resource for experimentally validated antiparasitic peptide sequences and their structures

(2014) D. Mehta et al.   Database-The Journal of Biological Databases and Curation

Forcefield_NCAA: Ab Initio Charge Parameters to Aid in the Discovery and Design of Therapeutic Proteins and Peptides with Unnatural Amino Acids and Their Application to Complement Inhibitors of the Compstatin Family

(2014) George A. Khoury et al.   ACS Synthetic Biology

Future directions for peptide therapeutics development

(2013) Allan A. Kaspar et al.   DRUG DISCOVERY TODAY

Forcefield_PTM: Ab Initio Charge and AMBER Forcefield Parameters for Frequently Occurring Post-Translational Modifications

(2013) George A. Khoury et al.   Journal of Chemical Theory and Computation

CAMP: Collection of sequences and structures of antimicrobial peptides

(2013) Faiza Hanif Waghu et al.   NUCLEIC ACIDS RESEARCH

Hemolytik: a database of experimentally determined hemolytic and non-hemolytic peptides

(2013) Ankur Gautam et al.   NUCLEIC ACIDS RESEARCH

Vienna-PTM web server: a toolkit for MD simulations of protein post-translational modifications

(2013) Christian Margreitter et al.   NUCLEIC ACIDS RESEARCH

A Systematic Framework for Molecular Dynamics Simulations of Protein Post-Translational Modifications

(2013) Drazen Petrov et al.   PLoS Computational Biology

The Future of Peptide-based Drugs

(2012) David J. Craik et al.   Chemical Biology & Drug Design

Therapeutic peptides

(2012) Fernando Albericio et al.   Future Medicinal Chemistry

Expanding molecular modeling and design tools to non-natural sidechains

(2012) David Gfeller et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Structure-Based Design of High-Affinity Macrocyclic Peptidomimetics to Block the Menin-Mixed Lineage Leukemia 1 (MLL1) Protein–Protein Interaction

(2012) Haibin Zhou et al.   JOURNAL OF MEDICINAL CHEMISTRY

Peptides as targeting probes against tumor vasculature for diagnosis and drug delivery

(2012) Zhi Li et al.   Journal of Translational Medicine

PEP-FOLD: an updated de novo structure prediction server for both linear and disulfide bonded cyclic peptides

(2012) P. Thevenet et al.   NUCLEIC ACIDS RESEARCH

The RCSB Protein Data Bank: new resources for research and education

(2012) Peter W. Rose et al.   NUCLEIC ACIDS RESEARCH

Quorumpeps database: chemical space, microbial origin and functionality of quorum sensing peptides

(2012) Evelien Wynendaele et al.   NUCLEIC ACIDS RESEARCH

SwissSidechain: a molecular and structural database of non-natural sidechains

(2012) David Gfeller et al.   NUCLEIC ACIDS RESEARCH

TumorHoPe: A Database of Tumor Homing Peptides

(2012) Pallavi Kapoor et al.   PLoS One

Novel African Trypanocidal Agents: Membrane Rigidifying Peptides

(2012) John M. Harrington et al.   PLoS One

Brainpeps: the blood–brain barrier peptide database

(2011) Sylvia Van Dorpe et al.   Brain Structure & Function

SwissParam: A fast force field generation tool for small organic molecules

(2011) Vincent Zoete et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

In silico predictions of 3D structures of linear and cyclic peptides with natural and non-proteinogenic residues

(2011) Jérôme Beaufays et al.   JOURNAL OF PEPTIDE SCIENCE

Open Babel: An open chemical toolbox

(2011) Noel M O'Boyle et al.   Journal of Cheminformatics

In silico designing and optimization of anti-breast cancer antibody mimetic oligopeptide targeting HER-2 in women

(2010) Bashir A. Akhoon et al.   JOURNAL OF MOLECULAR GRAPHICS & MODELLING

Post-translational Modifications Differentially Affect IgG1 Conformation and Receptor Binding

(2010) Damian Houde et al.   MOLECULAR & CELLULAR PROTEOMICS

Predicting the structures of 18 peptides using Geocore

(2010) Kohki Ishikawa et al.   PROTEIN SCIENCE

Strategies to prolong the plasma residence time of peptide drugs

(2010) Lisa Pollaro et al.   MedChemComm

Synthetic therapeutic peptides: science and market

(2009) Patrick Vlieghe et al.   DRUG DISCOVERY TODAY

PEP-FOLD: an online resource for de novo peptide structure prediction

(2009) J. Maupetit et al.   NUCLEIC ACIDS RESEARCH

Generalized Pattern Search Algorithm for Peptide Structure Prediction

(2008) Giuseppe Nicosia et al.   BIOPHYSICAL JOURNAL

Antivirals: current state of the art

(2008) Erik De Clercq   Future Virology

GROMACS 4:  Algorithms for Highly Efficient, Load-Balanced, and Scalable Molecular Simulation

(2008) Berk Hess et al.   Journal of Chemical Theory and Computation