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| About this site |
| This Web resource provides data and information relevant to SARS coronavirus (SARS-CoV). It includes links to the most recent sequence data, publications, and results of pre-computed sequence analysis, i.e., genomic, protein, and 3D structure. Links are provided to other SARS-related resources. |
The first complete sequence of SARS-CoV was produced by the BCCA Genome Sciences Centre, Canada, and submitted to GenBank prior to publication as a raw nucleotide sequence under accession number AY274119; the NCBI Viral Genomes Group annotated the sequence and released it as Entrez Genomes NC_004718.
Nucleotide sequence analysis
Pairwise global alignments of SARS-CoV RefSeq NC_004718 with other available for this virus genomic sequences are pre-computed using "band" version of Needleman-Wunsch algorithm. The alignments are updated weekly.
| Graphical representation of pairwise global alignments anchored to SARS-CoV RefSeq NC_004718 highlights differences (mutations, deletions, and insertions) between the sequences. |
| Text representation of the same global pairwise alignments has more display options. Clicking on the number allows one to change the anchored genome. |
Protein sequence analysis
| The sequences of coronavirus proteins were retrieved from the RefSeq collection of complete genomes via Entrez. The alignments were constructed using the ClustalX program and, in some cases, manually edited. Similarities are highlighted by colors, if at least 80% of residues in a column are identical or fall into at least one of the following amino acid groups: aromatic (FHWY), aliphatic (ILVA), hydrophobic (ACFILMVWY), alcohol (STC), charged (DEHKR), polar (CDEHKNQRST), tiny (AGS), small (ACDGNPSTV), or bulky (EFIKLMQRWY). Pre-computed alignments of SARS-CoV protein sequences are accessible from the column "mA" of the table. |
| SARS protein sequences were compared by BLAST/PSI-BLAST to sequences for which 3D structure is known. SARS proteins for which related 3D-structures were found are listed. The links present sequence alignments and mapping onto the related 3D structure using the Cn3D molecular graphics viewer. Additional related structures were selected from the VAST 3D-structure neighbors of the proteins identified by BLAST/PSI-BLAST |
Comments and suggestions to: [genomes@ncbi.nlm.nih.gov]
Revised: January 8, 2003.