Ecosyste.ms: Papers
An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.
Projects: pypi: PeptideBuilder
https://packages.ecosyste.ms/registries/pypi.org/packages/PeptideBuilder
Create peptide PDB files with specified geometry
5 versions
Latest release: about 1 year ago
220 downloads last month
Papers Mentioning PeptideBuilder 11
10.1371/journal.pone.0256990
Differentiable molecular simulation can learn all the parameters in a coarse-grained force field for proteinsCited by: 11
Author(s): Joe G Greener, David T. Jones
Software Mentions: 7
Published: about 3 years ago
10.1371/journal.pone.0205179
Large-scale docking predicts that sORF-encoded peptides may function through protein-peptide interactions in Arabidopsis thalianaCited by: 10
Author(s): Rashmi R. Hazarika, Nikolina Šoštarić, Yi‐Feng Sun, Vera van Noort
Software Mentions: 4
Published: about 6 years ago
10.7717/peerj.5745
The BackMAP Python module: how a simpler Ramachandran number can simplify the life of a protein simulatorCited by: 2
Author(s): Ranjan V. Mannige
Software Mentions: 3
Published: about 6 years ago
10.1186/1471-2105-11-531
BALL - biochemical algorithms library 1.3Cited by: 63
Author(s): Andreas Hildebrandt, Anna Katharina Dehof, Alexander Rurainski, Andreas Bertsch, Marcel Schumann, Nora C. Toussaint, A. Moll, Daniel Stöckel, Stefan Nickels, Sabine C. Mueller, Hans‐Peter Lenhof, Oliver Kohlbacher
Software Mentions: 2
Published: about 14 years ago
10.7717/peerj.80
PeptideBuilder: A simple Python library to generate model peptidesCited by: 58
Author(s): Matthew Tien, Dariya K. Sydykova, Austin G. Meyer, Claus O. Wilke
Software Mentions: 1
Published: over 11 years ago
10.7717/peerj.277
FragBuilder: an efficient Python library to setup quantum chemistry calculations on peptides modelsCited by: 6
Author(s): Anders S. Christensen, Thomas Hamelryck, Jan H. Jensen
Software Mentions: 1
Published: over 10 years ago
10.7717/peerj.3327
An exhaustive survey of regular peptide conformations using a new metric for backbone handedness (<i>h</i>)Cited by: 12
Author(s): Ranjan V. Mannige
Software Mentions: 1
Published: over 7 years ago
10.3390/molecules24020277
PeptoGrid—Rescoring Function for AutoDock Vina to Identify New Bioactive Molecules from Short Peptide LibrariesCited by: 13
Author(s): Arthur O. Zalevsky, Alexander Zlobin, V. Gedzun, Roman V. Reshetnikov, Maxim L. Lovat, А. В. Малышев, Igor I. Doronin, Gennady A. Babkin, Andrey V. Golovin
Software Mentions: 1
Published: almost 6 years ago
10.1371/journal.pone.0160023
The Ramachandran Number: An Order Parameter for Protein GeometryCited by: 23
Author(s): Ranjan V. Mannige, Joyjit Kundu, Stephen Whitelam
Software Mentions: 1
Published: over 8 years ago
10.1186/1472-6807-7-13
Rappertk: a versatile engine for discrete restraint-based conformational sampling of macromoleculesCited by: 7
Author(s): Swanand Gore, Anjum M. Karmali, Tom L. Blundell
Software Mentions: 1
Published: almost 18 years ago
10.3389/fchem.2021.598802
A Simplified Amino Acidic Alphabet to Unveil the T-Cells Receptors Antigens: A Computational PerspectiveCited by: 0
Author(s): Raffaele Iannuzzi, Grazisa Rossetti, Andrea Spitaleri, Raoul J. P. Bonnal, Massimiliano Pagani, Luca Mollica
Software Mentions: 1
Published: over 3 years ago