Literature DB >> 26873783

3DBIONOTES: A unified, enriched and interactive view of macromolecular information.

D Tabas-Madrid1, J Segura2, R Sanchez-Garcia1, J Cuenca-Alba1, C O S Sorzano1, J M Carazo1.   

Abstract

With the advent of high throughput techniques like Next Generation Sequencing, the amount of biological information for genes and proteins is growing faster than ever. Structural information is also rapidly growing, especially in the cryo Electron Microscopy area. However, in many cases, the proteomic and genomic data are spread in multiple databases and with no simple connection to structural information. In this work we present a new web platform that integrates EMDB/PDB structures and UniProt sequences with different sources of protein annotations. The application provides an interactive interface linking sequence and structure, including EM maps, presenting the different sources of information at sequence and structural level. The web application is available at http://3dbionotes.cnb.csic.es.
Copyright © 2016 The Authors. Published by Elsevier Inc. All rights reserved.

Keywords:  Database integration; Protein annotations; Protein sequence; Protein structure

Mesh:

Substances:

Year:  2016        PMID: 26873783     DOI: 10.1016/j.jsb.2016.02.007

Source DB:  PubMed          Journal:  J Struct Biol        ISSN: 1047-8477            Impact factor:   2.867


  4 in total

1.  BIPSPI: a method for the prediction of partner-specific protein-protein interfaces.

Authors:  Ruben Sanchez-Garcia; C O S Sorzano; J M Carazo; Joan Segura
Journal:  Bioinformatics       Date:  2019-02-01       Impact factor: 6.937

2.  3DBIONOTES v3.0: crossing molecular and structural biology data with genomic variations.

Authors:  Joan Segura; Ruben Sanchez-Garcia; C O S Sorzano; J M Carazo
Journal:  Bioinformatics       Date:  2019-09-15       Impact factor: 6.937

3.  3DBIONOTES v2.0: a web server for the automatic annotation of macromolecular structures.

Authors:  Joan Segura; Ruben Sanchez-Garcia; Marta Martinez; Jesus Cuenca-Alba; Daniel Tabas-Madrid; C O S Sorzano; J M Carazo
Journal:  Bioinformatics       Date:  2017-11-15       Impact factor: 6.937

4.  3DCONS-DB: A Database of Position-Specific Scoring Matrices in Protein Structures.

Authors:  Ruben Sanchez-Garcia; Carlos Oscar Sanchez Sorzano; Jose Maria Carazo; Joan Segura
Journal:  Molecules       Date:  2017-12-15       Impact factor: 4.411

  4 in total

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