Task 3: odba human Sequence-based predictions

secondary structure

To predict secondary structure we use the following tools and compare the results:

-reprof
-psipred
-DSSP_Server

reprof

to run reprof from the command line the following command is used:

reprof -i seq.fasta

reprof then calculates the secondary structure prediction and provides an output file "seq.fasta.reprof" Result:

MAVAIAAARVWRLNRGLSQAALLLLRQPGARGLARSHPPR
LLHHHHHHHHHHHHLLLLHHHHHHHLLLLLLLELLLLLLL

QQQQFSSLDDKPQFPGASAEFIDKLEFIQPNVISGIPIYR
LHLLLLLLLLLLLLLLLLHHHHHHHHLLLLLLELLLLEEE

VMDRQGQIINPSEDPHLPKEKVLKLYKSMTLLNTMDRILY
EELLLLLEELLLLLLLLLHHHHHHHHHHHHHHHLHLHHEE

ESQRQGRISFYMTNYGEEGTHVGSAAALDNTDLVFGQYRE
ELLLLLEEEEEEELLLLLLLLELLLLELLLLLEEEEEELL

AGVLMYRDYPLELFMAQCYGNISDLGKGRQMPVHYGCKER
LLEEEELLLLHHHHHHHHHLLHLLLLLLLLLLLELLLLLL

HFVTISSPLATQIPQAVGAAYAAKRANANRVVICYFGEGA
EEEEELLLHHHHLHHHHHHHHHHHHLLLLEEEEEEELLLL

ASEGDAHAGFNFAATLECPIIFFCRNNGYAISTPTSEQYR
LLLLLLLLLLEEEEELLLLEEEEEELLLEEELLLLLLLEL

GDGIAARGPGYGIMSIRVDGNDVFAVYNATKEARRRAVAE
LLLEELLLLLEEEEEEEELLLLEEEEELLLHHHHHHHHHL

NQPFLIEAMTYRIGHHSTSDDSSAYRSVDEVNYWDKQDHP
LLLEEEEHEEEEELLLLLLLLLLHLLLLLLLLLLLLLLLL

ISRLRHYLLSQGWWDEEQEKAWRKQSRRKVMEAFEQAERK
HHHHHHHHHLLLLLLHHHHHHHHHHHHHHHHHHHHHHHLL

PKPNPNLLFSDVYQEMPAQLRKQQESLARHLQTYGEHYPL
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DHFDK
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