GENIUS II: a high-throughput database system for linking ORFs in complete genomes to known protein three-dimensional structures

GENIUS II: a high-throughput database system for linking ORFs in complete genomes to known protein three-dimensional structures

GENIUS II is an automated database system in which open reading frames (ORFs) in complete genomes are assigned to known protein three-dimensional (3D) structures. The system uses the multiple intermediate sequence search method in which query and target sequences are linked by intermediate sequences...

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Veröffentlicht in:Bioinformatics 2004-03, Vol.20 (4), p.596-598
Hauptverfasser: Yabuki, Yukimitsu, Mukai, Yuri, Swindells, Mark B., Suwa, Makiko
Format: Artikel
Sprache:eng
Schlagworte:
Algorithms
Amino Acid Sequence
Biological and medical sciences
Database Management Systems
Databases, Protein
Fundamental and applied biological sciences. Psychology
General aspects
Genome
Information Storage and Retrieval - methods
Mathematics in biology. Statistical analysis. Models. Metrology. Data processing in biology (general aspects)
Molecular Sequence Data
Open Reading Frames - genetics
Protein Conformation
Proteins - analysis
Proteins - chemistry
Proteins - genetics
Sequence Alignment - methods
Sequence Analysis, Protein - methods
Statistics as Topic
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Beschreibung
Zusammenfassung:GENIUS II is an automated database system in which open reading frames (ORFs) in complete genomes are assigned to known protein three-dimensional (3D) structures. The system uses the multiple intermediate sequence search method in which query and target sequences are linked by intermediate sequences gathered by PSI-BLAST search. By applying the system to 129 complete genomes, 43.8% on average of the ORFs in the genomes were assigned to known 3D structures and the results are available for free at GENIUS II web site. Availability: http://genius.cbrc.jp Supplementary information: http://genius.cbrc.jp/summary_linking.html
ISSN:1367-4803
1460-2059
1367-4811
DOI:10.1093/bioinformatics/btg478