This book describes approaches for recognizing and classifying proteins into families of evolutionary related proteins. Reviewing all the major resources for classifying protein families, the book combines descriptions of general philosophies of protein family classification systems with detailed descriptions and examples of selected families found in different biological systems. Scientists in diverse areas of biology and protein science will learn how to use the various resources and databases and gain valuable insight into how proteins evolve and how new functional repertoires emerge. INDICE: Introduction. Christine Orengo and Alex Bateman Section 1. Concepts underlying protein family classification 1. Automated sequence based approaches for identifying domain families Liisa Holm and Andreas Heger 2. Sequence classification of protein families: Pfam and other resources Alex Bateman 3. Classifying proteins into domain structure families Alison Cuff, Alexey G. Murzin and Christine Orengo 4. Structural annotations of genomes with SUPERFAMILY and Gene3D Julian Gough, Corin Yeats and Christine Orengo 5. Phylogenomic databases and orthology prediction Kimmen Sjölander Section 2. In depth reviews of protein families 6. The Nucleophilic Attack 6–bladed β–Propeller (N6P) Superfamily Michael A. Hicks, Alan E. Barber II, and Patricia C. Babbitt 7. Structural elaboration of the HUP domain superfamily Benoit H. Dessailly and Christine A. Orengo 8. The NAD Binding Domain And The Short–Chain Dehydrogenase/Reductase (SDR) Superfamily Nicholas Furnham, Gemma L. Holliday & Janet M. Thornton 9. The Globin Family Arthur M. Lesk and Juliette T.J. Lecomte Section 3. Review of protein families in important biological systems 10. Functional adaptation and plasticity in cytoskeletal protein domains: Lessons from the erythrocyte model Anthony J. Baines 11. Unusual species distribution and horizontal transfer of peptidases Neil D. Rawlings 12. Deducing Transport Protein Evolution Based on Sequence, Structure, and Function Steven T. Wakabayashi, Maksim A. Shlykov, Ujjwal Kumar, Vamsee S. Reddy, Ankur Malhotra, Erik L. Clarke, Jonathan S. Chen, Rostislav Castillo, Russell De La Mare, Eric I. Sun and Milton H. Saier, Jr 13. CRISPR–Cas systems and Cas protein families Kira S. Makarova, Daniel H. Haft, Eugene V. Koonin 14. Families of sequence–specific DNA–binding Domains in Transcription Factors across the Tree of Life Varodom Charoensawan and Sarah Teichmann 15. Evolution of Eukaryotic chromatin proteins and transcription factors L.Aravind, Vivek Anantharaman, Saraswathi Abhiman and Lakshminarayan M. Iyer
- ISBN: 978-0-470-62422-7
- Editorial: Wiley–Blackwell
- Encuadernacion: Cartoné
- Páginas: 600
- Fecha Publicación: 01/01/2014
- Nº Volúmenes: 1
- Idioma: Inglés