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BlastP simply compares a protein query to a protein database. PSI-BLAST allows the user to build a PSSM (position-specific scoring matrix) using the results of the first BlastP run. PHI-BLAST performs the search but limits alignments to those that match a pattern in the query.
The Basic Local Alignment Search Tool (BLAST) finds regions of local similarity between sequences. The program compares nucleotide or protein sequences to sequence databases and calculates the statistical significance of matches.
The Basic Local Alignment Search Tool (BLAST) finds regions of local similarity between protein or nucleotide sequences. The program compares nucleotide or protein sequences to sequence in a database and calculates the statistical significance of the matches.
The Protein database is a collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB. Protein sequences are the fundamental determinants of biological structure and function.
BLASTp (Protein BLAST): compares one or more protein query sequences to a subject protein sequence or a database of protein sequences. This is useful when trying to identify a protein (see From sequence to protein and gene below).
The Basic Local Alignment Search Tool (BLAST) is the most widely used sequence similarity tool. There are versions of BLAST that compare protein queries to protein databases, nucleotide queries to nucleotide databases, as well as versions that translate nucleotide queries or databases in all six frames and compare to protein databases or queries.
Protein BLAST (BLASTp) New ClusteredNR database: faster searches and more informative BLAST results. Reduced redundancy. Faster searches. More diverse proteins and organisms in your BLAST results.
Nucleotide BLAST: In this section of the tutorial you will use Protein Kinase Inhibitor alpha (PKI alpha) from mouse as the query in the search. Go to Entrez and search for protein kinase inhibitor, NM_008862, in the core nucleotide database.
Smart Blast searches a protein query against the landmark database. Enter Protein Query Sequence. Enter one protein accession, gi, or FASTA sequence [?]
Today, one of the most common tools used to examine DNA and protein sequences is the Basic Local Alignment Search Tool, also known as BLAST (Altschul et al., 1990). BLAST is a computer...