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BLAST

About BLAST

<td id="blast-threshold">The expectation value (E) threshold is a statistical measure of the number of expected matches in a random database. The lower the e-value, the more likely the match is to be significant. E-values between 0.1 and 10 are generally dubious, and over 10 are unlikely to have biological significance. In all cases, those matches need to be verified manually. You may need to increase the E threshold if you have a very short query sequence, to detect very weak similarities, or similarities in a short region, or if your sequence has a low complexity region and you use the "filter" option</td><p><a href='/help/sequence-searches' target='_top'>More...</a></p>E-Thresholdi

<td id="blast-matrix">The matrix assigns a probability score for each position in an alignment. The BLOSUM matrix assigns a probability score for each position in an alignment that is based on the frequency with which that substitution is known to occur among consensus blocks within related proteins. BLOSUM62 is among the best of the available matrices for detecting weak protein similarities. The PAM set of matrices is also available. If "Auto" is set, the matrix will be selected depending on the query sequence length.</td><p><a href='/help/sequence-searches' target='_top'>More...</a></p>Matrixi

<td id="blast-filter">Low-complexity regions (e.g. stretches of cysteine in <a href="http://www.uniprot.org/uniprot/Q03751">Q03751</a>, or hydrophobic regions in membrane proteins) tend to produce spurious, insignificant matches with sequences in the database which have the same kind of low-complexity regions, but are unrelated biologically. If "Filter low complexity regions" is selected, the query sequence will be run through the program SEG, and all amino acids in low-complexity regions will be replaced by X's. </td><p><a href='/help/sequence-searches' target='_top'>More...</a></p>Filteringi

<td id="blast-gapped">This will allow gaps to be introduced in the sequences when the comparison is done.</td><p><a href='/help/sequence-searches' target='_top'>More...</a></p>Gappedi

<td id="blast-numal">Limits the number of returned alignments.</td><p><a href='/help/sequence-searches' target='_top'>More...</a></p>Hitsi

Sequence feature

Entry & position(s)P08254[212 - 223]
Description
Feature keyHelix
Feature identifier
        10         20         30         40         50
MKSLPILLLL CVAVCSAYPL DGAARGEDTS MNLVQKYLEN YYDLKKDVKQ 
        60         70         80         90        100
FVRRKDSGPV VKKIREMQKF LGLEVTGKLD SDTLEVMRKP RCGVPDVGHF 
       110        120        130        140        150
RTFPGIPKWR KTHLTYRIVN YTPDLPKDAV DSAVEKALKV WEEVTPLTFS 
       160        170        180        190        200
RLYEGEADIM ISFAVREHGD FYPFDGPGNV LAHAYAPGPG INGDAHFDDD 
       210        220        230        240        250
EQWTKDTTGT NLFLVAAHEI GHSLGLFHSA NTEALMYPLY HSLTDLTRFR 
       260        270        280        290        300
LSQDDINGIQ SLYGPPPDSP ETPLVPTEPV PPEPGTPANC DPALSFDAVS 
       310        320        330        340        350
TLRGEILIFK DRHFWRKSLR KLEPELHLIS SFWPSLPSGV DAAYEVTSKD 
       360        370        380        390        400
LVFIFKGNQF WAIRGNEVRA GYPRGIHTLG FPPTVRKIDA AISDKEKNKT 
       410        420        430        440        450
YFFVEDKYWR FDEKRNSMEP GFPKQIAEDF PGIDSKIDAV FEEFGFFYFF 
       460        470 
TGSSQLEFDP NAKKVTHTLK SNSWLNC
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