20 years of the SMART protein domain annotation resource
Nucleic Acids Res., 2017 SMART (Simple Modular Architecture Research Tool) is a web resource (http://smart.embl.de) for the identification and annotation of protein domains and the analysis of protein domain architectures.
Ivica Letunic, P. Bork
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Databases of ligand-binding pockets and protein-ligand interactions
Computational and Structural Biotechnology JournalMany research groups and institutions have created a variety of databases curating experimental and predicted data related to protein-ligand binding. The landscape of available databases is dynamic, with new databases emerging and established databases ...
Kristy A. Carpenter, Russ B. Altman
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MisPred: a resource for identification of erroneous protein sequences in public databases [PDF]
, 2013 Correct prediction of the structure of protein-coding genes of higher eukaryotes is still a difficult task; therefore, public databases are heavily contaminated with mispredicted sequences.
Nagy, Alinda, Patthy, László
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An automated method for finding molecular complexes in large protein interaction networks
BMC Bioinformatics, 2003 BackgroundRecent advances in proteomics technologies such as two-hybrid, phage display and mass spectrometry have enabled us to create a detailed map of biomolecular interaction networks. Initial mapping efforts have already produced a wealth of data. As
Gary D. Bader, Christopher W. V. Hogue
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Moonlighting Proteins Database [PDF]
Biophysical Journal, 2011 Moonlighting proteins comprise an interesting subset of multifunctional proteins in which the two functions are found in a single polypeptide chain. They do not include proteins that are multifunctional due to gene fusions, families of homologous proteins, splice variants, or promiscuous enzyme activities.
Mani, Mathew, Jeffery, Constance
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EcoCyc: fusing model organism databases with systems biology. [PDF]
, 2012 EcoCyc (http://EcoCyc.org) is a model organism database built on the genome sequence of Escherichia coli K-12 MG1655. Expert manual curation of the functions of individual E.
Bonavides-Martínez, César +23 more
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1st INCF Workshop on Genetic Animal Models for Brain Diseases [PDF]
, 2011 The INCF Secretariat organized a workshop to focus on the “role of neuroinformatics in the processes of building, evaluating, and using genetic animal models for brain diseases” in Stockholm, December 13–14, 2009.
Holm Graessner, Olaf Riess
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The HHpred interactive server for protein homology detection and structure prediction
Nucleic Acids Res., 2005 HHpred is a fast server for remote protein homology detection and structure prediction and is the first to implement pairwise comparison of profile hidden Markov models (HMMs).
J. Söding, A. Biegert, A. Lupas
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The Alliance for Cellular Signaling Plasmid Collection: A Flexible Resource for Protein Localization Studies and Signaling Pathway Analysis [PDF]
, 2007 Cellular responses to inputs that vary both temporally and spatially are determined by complex relationships between the components of cell signaling networks.
Bryan, Heather +28 more
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The Universal Protein Resource (UniProt)
Nucleic Acids Res., 2004 The Universal Protein Resource (UniProt) provides the scientific community with a single, centralized, authoritative resource for protein sequences and functional information.
A. Bairoch +14 more
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