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Bioinformatics (Oxford, England), ISSN 1367-4803, 11/2015, Volume 31, Issue 21, pp. 3460 - 3467
Journal Article
Nucleic Acids Research, ISSN 0305-1048, 01/2015, Volume 43, Issue 1, pp. D376 - D381
The latest version of the CATH-Gene3D protein structure classification database (4.0, http://www.cathdb.info) provides annotations for over 235 000 protein... 
PROTEIN | BIOCHEMISTRY & MOLECULAR BIOLOGY | SUPERFAMILIES | PREDICTION | Protein Structure, Tertiary - genetics | Proteins - classification | Internet | Databases, Protein | Genomics | Molecular Sequence Annotation | Database Issue
Journal Article
Nucleic Acids Research, ISSN 0305-1048, 01/2017, Volume 45, Issue 1, pp. D289 - D295
The latest version of the CATH-Gene3D protein structure classification database has recently been released (version 4.1, http://www.cathdb.info). The resource... 
CLASSIFICATION | BIOCHEMISTRY & MOLECULAR BIOLOGY | PROGRAM | SUPERFAMILIES | Computational Biology - methods | Proteins - metabolism | Databases, Protein | Models, Molecular | Software | Structure-Activity Relationship | Proteins - chemistry | Web Browser | Database Issue
Journal Article
Current Opinion in Genetics & Development, ISSN 0959-437X, 2015, Volume 35, pp. 40 - 49
Whilst ∼93% of domain superfamilies appear to be relatively structurally and functionally conserved based on the available data from the CATH-Gene3D domain... 
Medical Education | EVOLUTION | FUNCTIONAL DIVERSITY | SPECIFICITY | PROMISCUITY | ANNOTATIONS | SEQUENCE | GENETICS & HEREDITY | TREE | LARGE-SCALE | DIVERGENCE | IDENTIFICATION | CELL BIOLOGY | Protein Structure, Tertiary | Models, Molecular | Amino Acid Sequence | Proteins - classification | Proteins - metabolism
Journal Article
Current Opinion in Structural Biology, ISSN 0959-440X, 06/2016, Volume 38, pp. 44 - 52
Domains are the functional building blocks of proteins. In this work we discuss how domains can contribute to the evolution of new functions. Domains... 
ROBUSTNESS | EVOLUTION | DATABASE | BIOCHEMISTRY & MOLECULAR BIOLOGY | SEQUENCE | CLASSIFICATION | SUPERFAMILY | LARGE-SCALE | MECHANISMS | FUSIONS | PLASTICITY | CELL BIOLOGY | Neoplasms - metabolism | Protein Domains | Animals | Proteins - metabolism | Proteins - chemistry | Humans | Genomics
Journal Article
by Jiang, Yuxiang and Oron, Tal Ronnen and Clark, Wyatt T and Bankapur, Asma R and Anea, D', Daniel and Lepore, Rosalba and Funk, Christopher S and Kahanda, Indika and Verspoor, Karin M and Ben-Hur, Asa and Koo, Da Chen Emily and Penfold-Brown, Duncan and Shasha, Dennis and Youngs, Noah and Bonneau, Richard and Lin, Alexana and Sahraeian, Sayed M.E and Martelli, Pier Luigi and ti, Giuseppe and Casadio, Rita and Cao, Renzhi and Zhong, Zhaolong and Cheng, Jianlin and Altenhoff, Aian and Skunca, Nives and Dessimoz, Christophe and Dogan, Tunca and Hakala, Kai and Kaewphan, Suwisa and Mehryary, Farrokh and Salakoski, Tapio and Ginter, Filip and Fang, Hai and Smithers, Ben and Oates, Matt and Gough, Julian and Törönen, Petri and Koskinen, Patrik and Holm, Liisa and Chen, Ching Tai and Hsu, Wen Lian and Bryson, Kevin and Cozzetto, Domenico and Minneci, Federico and Jones, David T and Chapman, Samuel and BKC, Dukka and Khan, Ishita K and Kihara, Daisuke and Ofer, Dan and Rappoport, Nadav and Stern, Amos and Cibrian-Uhalte, Elena and Denny, Paul and Foulger, Rebecca E and Hieta, Reija and Legge, Duncan and Lovering, Ruth C and Magrane, Michele and Melidoni, Anna N and Mutowo-Meullenet, Prudence and Pichler, Klemens and Shypitsyna, Aleksana and Li, Biao and Zakeri, Pooya and ElShal, Sarah and Tranchevent, Léon Charles and Das, Sayoni and Dawson, Natalie L and Lee, David and Lees, Jonathan G and Sillitoe, Ian and Bhat, Prajwal and Nepusz, Tamás and Romero, Alfonso E and Sasidharan, Rajkumar and Yang, Haixuan and Paccanaro, Alberto and Gillis, Jesse and Sedeño-Cortés, Aiana E and Pavlidis, Paul and Feng, Shou and Cejuela, Juan M and Goldberg, Tatyana and Hamp, Tobias and Richter, Lothar and Salamov, Asaf and Gabaldon, Toni and Marcet-Houben, Marina and Supek, Fran and Gong, Qingtian and Ning, Wei and Zhou, Yuanpeng and Tian, Weidong and Falda, Marco and Fontana, Paolo and Lavezzo, Enrico and Toppo, Stefano and Ferrari, Carlo and Giollo, Manuel and ...
Genome Biology, ISSN 1474-7596, 2016, Volume 17, Issue 1, p. 184
Journal Article
Bioinformatics, ISSN 1367-4803, 12/2015, Volume 31, Issue 21, pp. 3460 - 3467
Motivation: Computational approaches that can predict protein functions are essential to bridge the widening function annotation gap especially since <1.0% of... 
DETERMINANTS | BIOCHEMICAL RESEARCH METHODS | GENE ONTOLOGY | PREDICTION | EVOLUTION | DATABASE | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | FAMILIES | SEQUENCE | MATHEMATICAL & COMPUTATIONAL BIOLOGY | GENERATION | RESIDUES | TOOL | Proteins | Residues | Annotations | Mathematical analysis | Coherence | Classification | Mathematical models | Bioinformatics
Journal Article
Nucleic Acids Research, ISSN 0305-1048, 2016, Volume 44, Issue 1, pp. D404 - D409
Gene3D http://gene3d.biochem.ucl.ac.uk is a database of domain annotations of Ensembl and UniProtKB protein sequences. Domains are predicted using a library of... 
PROTEIN | DATABASE | ANNOTATIONS | BIOCHEMISTRY & MOLECULAR BIOLOGY | SUPERFAMILIES | Databases, Protein | Humans | Molecular Sequence Annotation | Models, Molecular | Protein Interaction Domains and Motifs | Protein Structure, Tertiary - genetics | Internet | Database Issue
Journal Article
Scientific Reports, ISSN 2045-2322, 12/2017, Volume 7, Issue 1, pp. 10102 - 14
Protein domains mediate drug-protein interactions and this principle can guide the design of multi-target drugs i.e. polypharmacology. In this study, we... 
DATABASE | FAMILIES | MULTIDISCIPLINARY SCIENCES | PROTEIN NETWORK | DRUG DISCOVERY | SUPERFAMILIES | CLASSIFICATION | INTERACTION NETWORKS | CATH | DRUGGABLE GENOME | PARADIGM | Drugs | Proteins | Side effects | Drug development | Protein interaction | Protein families | Binding sites | Structure-function relationships
Journal Article
BBA - Proteins and Proteomics, ISSN 1570-9639, 05/2013, Volume 1834, Issue 5, pp. 874 - 889
Journal Article