Proteomic Analysis Using Internet Resources Sequence and Alignment

The Protein Information Resources (PIR) (Wu et al., 2002) of NBRF in collaboration with MIPS and JIPID produces the annotated protein sequence database in the PIR-MIPS International Protein Sequence Database (PSD). The PSD is a comprehensive annotated and nonredundant protein sequence database. Its annotation includes concurrent cross-references to other sequence, structure, genomic and citatation databases, as well as functional descriptions and structural features. The PIR-International database is accessible at the PIR site, http //pir, georgetown.edu, and at the MIPS site, http //www.mips.biochem.mpg.de. 

The PIR site also provides facilities for sequence similarity search (BLAST or FASTA), alignment (ClustalW), and analysis (ProClass, ProtFam, RESID, SSEARCH) of proteins. To perform the similarity search, select Blast or Fasta to 

drjW-1 F l- poVl I T llrtirtfd-H. dii-1-IH-ilihL Tk TnCC Hi l f PfrTJCr 

Query 121 PDVMSPKETRFTCKGRKVLQFLGTSTFSQYTWNQIAVAKIDPSAPLDTVCLLGCGVSTG 180 M +RFTC+G+ + FLGTSTFSQYTW++1+VAKID ++PL+ VCL+GCG STG Sbjct 121 RGTMQDGTSRFTCRGKPIHHFLGTSTFSQYTWDEISVAKIDAASPLEKVCLIGCGFSTG 180 

SWISS-PROT (Hofmann et al., 1999) is a curated protein sequence database maintained by the Swiss Institute of Bioinfornmatics and is a collaborative partner of EMBL. The database consists of SWISS-PROT and TrEMBL, which consists of entries in SWISS-PROT-like format derived from the translation of all CDS in the 

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PROTEOMIC ANALYSIS USING INTERNET RESOURCES SEQUENCE AND ALIGNMENT... 

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