PIGSPro: prediction of immunoGlobulin structures v2

By Rosalba Lepore, Pier Paolo Olimpieri, Mario Abdel Messih, Anna Tramontano. 2017

56 citations recorded by the source corpus.

Abstract PIGSpro is a significant upgrade of the popular PIGS server for the prediction of the structure of immunoglobulins. The software has been completely rewritten in python following a similar pipeline as in the original method, but including, at various steps, relevant modifications found to improve its prediction accuracy, as demonstrated here. The steps of the pipeline include the selection of the appropriate framework for predicting the conserved regions of the molecule by homology; the target template alignment for this portion of the molecule; the selection of the main chain conformation of the hypervariable loops according to the canonical structure model, the prediction of the third loop of the heavy chain (H3) for which complete canonical structures are not available and the packing of the light and heavy chain if derived from different templates. Each of these steps has been improved including updated methods developed along the years. Last but not least, the user interface has been completely redesigned and an automatic monthly update of the underlying database has been implemented. The method is available as a web server at http://biocomputing.it/pigspro.

Subfields: Molecular Biology, Radiology, Nuclear Medicine and Imaging

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Molecular Biology

1. Torsten Schwede
2. Gabriel Studer
3. Lorenza Bordoli
4. Andrew M. Waterhouse
5. Rafal Gumienny
6. Martino Bertoni
7. Stefan Bienert
8. Gerardo Tauriello

In Radiology, Nuclear Medicine and Imaging

1. A. Teplyakov
2. Torsten Schwede
3. Gary Gilliland
4. Dennis R. Goulet
5. M. Chiu

Citations in the corpus

• SWISS-MODEL: homology modelling of protein structures and complexes (2018, positive): “If a matching sequence signal is detected, data can be sent to the Prediction of Immunoglobulin Structure server PIGSPro (44–46) where the model of the antibody is generated according to the canonical structure method (47–49).”
• Antibody Structure and Function: The Basis for Engineering Therapeutics (2019, background): “The participants included Accelrys, Inc. [46], Chemical Computer Group (CCG) [47], Schrödinger [48], Jeff Gray’s lab at John Hopkins University [49] Macromoltek [50], Astellas Pharma/Osaka University [51], and Prediction of ImmunoGlobulin Structure (PIGS) [52,53].”