A motif-based profile scanning approach for genome-wide prediction of signaling pathways

Nature Biotechnology

Volumn 19, Issue 4, 2001, Pages 348-353

  Yaffe, Michael B ^a,b   Leparc, German G ^a   Lai, Jack ^a   Obata, Toshiyuki ^a   Volinia, Stefano ^a,c,d   Cantley, Lewis C ^a,e  

^a HARVARD INSTITUTES OF MEDICINE   (United States)

^b MASSACHUSETTS INSTITUTE OF TECHNOLOGY   (United States)

^c Dipartimento di Morfologia Ed Embriologia   (Italy)

^d Center for Molecular Genetics Fondazione CARISBO   (Italy)

^e HARVARD MEDICAL SCHOOL   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DATABASE SYSTEMS; DISEASES; DRUG PRODUCTS; HEALTH CARE; MEDICAL APPLICATIONS; PROTEINS;

BIOINFORMATICS;

GENES;

AMINO ACID; EPIDERMAL GROWTH FACTOR RECEPTOR; PEPTIDE LIBRARY; PROTEIN; PROTEIN KINASE; PROTEIN SERINE THREONINE KINASE; PROTEOME;

ALGORITHM; AMINO ACID SEQUENCE; ARTICLE; GENOME; INFORMATION SCIENCE; PREDICTION; PRIORITY JOURNAL; PROTEIN PROTEIN INTERACTION;

ALGORITHMS; AMINO ACID MOTIFS; AMINO ACID SEQUENCE; ANIMALS; CATTLE; DATABASES, FACTUAL; GENOME; HUMANS; INTERNET; MICE; MOLECULAR SEQUENCE DATA; RATS; SERINE; SIGNAL TRANSDUCTION; SOFTWARE; THREONINE; TYROSINE;

EID: 0035072833     PISSN: 10870156     EISSN: None     Source Type: Journal    
DOI: 10.1038/86737     Document Type: Article

References (31)

1. Protein modules and signalling networks
2. Improving the sensitivity of the sequence profile method
3. Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
4. SMART: Identification and annotation of domains from signalling and extracellular protein sequences
5. The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000
6. SH2 domains recognize specific phosphopeptide sequences
7. Recognition of unique carboxyl-terminal motifs by distinct PDZ domains
8. The structural basis for 14-3-3;phosphopeptide binding specificity
9. Pfam 3.1: 1313 multiple alignments and profile HMMs match the majority of proteins
10. Induction of hepatitis A virus-neutralizing antibody by a virus-specific synthetic peptide
11. Conformation of amino acid side chains in proteins
12. Autophosphorylation and protein kinase C phosphorylation of the epidermal growth factor receptor. Effect on tyrosine kinase activity and ligand binding affinity
13. Protein kinase C phosphorylation of the EGF receptor at a threonine residue close to the cytoplasmic face of the plasma membrane
14. Role of threonine residues in regulation of the epidermal growth factor receptor by protein kinase C and mitogen-activated protein kinase
15. Hierarchy of binding sites for Grb2 and Shc on the epidermal growth factor receptor
16. The phospho-tyrosine interaction domain of Shc binds an LXNPXY motif on the epidermal growth factor receptor
17. SH2 domains prevent tyrosine dephosphorylation of the EGF receptor: Identification of Tyr992 as the high-affinity binding site for SH2 domains of phospholipase C gamma
18. Basic local alignment search tool
19. Use of peptide and protein library screening to define optimal substrate motifs for AKT/PKB
20. PROSITE: A dictionary of sites and patterns in proteins
21. Akt promotes cell survival by phosphorylating and inhibiting a Forkhead transcription factor
22. Akt phosphorylation of BAD couples survival signals to the cell-intrinsic death machinery
23. Three-dimensional structure of the tyrosine kinase c-Src
24. PhosphoBase, a database of phosphorylation sites: Release 2.0
25. The use of gene clusters to infer functional coupling
26. Cluster analysis and display of genome-wide expression patterns
27. Protein interaction maps for complete genomes based on gene fusion events
28. A combined algorithm for genome-wide prediction of protein function
29. The use of peptide library for the determination of kinase peptide substrates
30. Mapping specificity determinants for protein-protein association using protein fusions and random peptide libraries