How to Use
PredLactamase process only protein sequence file (fasta file). User have option to cut and paste in the text box or directly upload the sequence file. The limits of PredLactamase is upto 25 sequences at a time. If user submit more than 25 sequences, PredLactamase predict only first 25 sequences. Following figure 1 is an example showing how to submit a query in PredLactamase.
SVM Threshold Value
User also have the option to set the threshold. If user select high threshold, the number of prediction will be low but rate of false positive prediction will also be low. If the user select low threshold, the number of prediction will be high and the false positive prediction will also be high.
Example Sequence
>tr|A2RP81|A2RP81_CITFR PER-2 beta-lactamase OS=Citrobacter freundii GN=blaPER-2 PE=1 SV=1
MNVITKCVFTASALLMLGLSSFVVSAQSPLLKEQIETIVTGKKATVGVAVWGPDDLEPLL
LNPFEKFPMQSVFKLHLAMLVLHQVDQGKLDLNQSVTVNRAAVLQNTWSPMMKDHQGDEF
TVAVQQLLQYSVSHSDNVACDLLFELVGGPQALHAYIQSLGVKEAAVVANEAQMHADDQV
QYQNWTSMKAAAQVLQKFEQKKQLSETSQALLWKWMVETTTGPQRLKGLLPAGTIVAHKT
GTSGVRAGKTAATNDAGVIMLPDGRPLLVAVFVKDSAESERTNEAIIAQVAQAAYQFELK
KLSAVSPD
>tr|C8C0D8|C8C0D8_9ZZZZ CfxA6 beta-lactamase OS=uncultured organism PE=4 SV=1
MSNYSVAELRNMKKNRKKQIVVLCIALVCIFILVFSLSHKSATKGSANPPLTDVLTDSIS
QIVSACPGEIGVAVIINNTDTVSVNNKSIYPMMSVFKVHQALALCNDFDKKGLSLDTLVK
INREKLDPKTWSPMMKDYSAPVISLTVRDLLRYTLSQSDNNASNIMFKNMLNTAQTDSFI
AKLIPRSSFQIAYTEEEMSADHDKAYSNYTSPLGAAMLMNRLFTESLISNEKQDFIKNAL
KECKTGIDRIVAPLLDKEGVVIAHKTGSGNVNENGILAAQNDVAYICLPNKVCYTLAVFV
KDFKGNESQASQFVAHISAVVYSLLINTALN
>tr|A4F9E5|A4F9E5_SACEN Metallo-beta-lactamase OS=Saccharopolyspora erythraea (strain NRRL 23338) GN=blaB3 PE=4 SV=1
MTRWQEVGDGVLVRRYAELDLTVGLVVGSELALVVDTRGDHRQGAELAEAVRQVTPLPWQ
VVLTHAHFDHCFGTGAFLPAPVWAHERCARHLDRTGESQRAEWIAHYREQGREDIADALA
ETTITGPDHLVADAAEIDLGGRTTRLLHLGPGHTDHDLVIAAGDVVFAGDLVEQGAPPDF
GDAHPRHWPSTLDALLALTPATVVPGHGEPVDPDFVRRQRAEIAEVARLCLQMREGAVGE
REAVALSPYPPATTLSAFARVVP
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Figure 1. PredLactamase submission page showing how to insert input sequences.
Prediction Result
In response to the submitted protein sequence(s), PredLactamase generates the prediction result in tabular form. We also provide a job number, if user have any query regarding their result, he/she can contact us. Here is a sample of prediction done in response to query sequences (Figure 2).
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Figure 2. Screenshot of PredLactamase prediction result.