ASP output appended by default
Note 1: comments marked by "## COMMENT: "
Note 2: to surpress a prediction of ASP use in the input the keyword no asp
The following information has been received by the server:
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ________________________________________________________________________________ prediction of: - default prediction of: - PHDsec PHDacc PHDhtm ProSite SEG ProDom return msf format # default: single protein sequence description=GCN4_yeast MSEYQPSLFALNPMGFSPLDGSKSTNENVSASTSTAKPMVGQLIFDKFIKTEEDPIIKQD TPSNLDFDFALPQTATAPDAKTVLPIPELDDAVVESFFSSSTDSTPMFEYENLEDNSKEW TSLFDNDIPVTTDDVSLADKAIESTEEVSLVPSNLEVSTTSFLPTPVLEDAKLTQTRKVK KPNSVVKKSHHVGKDDESRLDHLGVVAYNRKQRSIPLSPIVPESSDPAALKRARNTEAAR RSRARKLQRMKQLEDKVEELLSKNYHLENEVARLKKLVGER ____________________________________________________Result of ASP prediction(Malin Young, Kent Kirshenbaum, Stefan Highsmith)
~~~~~~~~~~~~~~~~~~~~~
Kirshenbaum K, Young M and Highsmith S.
Prot. Sci.(1999) 8:1806-1815.
Young M, Kirshenbaum K, Dill KA and Highsmith S.
Prot. Sci.(1999) 8:1752-1764.
________________________________________________________________________________
Ambivalent Sequence Predictor (ASP v1.0) mmy
Parameters:
Window size : 5
Min mu dPr : 9
Z-score cutoff : -1.75
Mean dPr score=14.223, Standard deviation=2.750
....,....1....,....2....,....3....,....4....,....5....,....6
AA |MSEYQPSLFALNPMGFSPLDGSKSTNENVSASTSTAKPMVGQLIFDKFIKTEEDPIIKQD|
prH sec |000011234522222232100111333100001101112100011121100110000000|
prE sec |000111011111100001000000000000000000001234421322200001100011|
prL sec |988877754366677755889777666788888787776655566545688877789978|
ASP sec |........SSS.................................SSSS............|
....,....7....,....8....,....9....,....10...,....11...,....12
AA |TPSNLDFDFALPQTATAPDAKTVLPIPELDDAVVESFFSSSTDSTPMFEYENLEDNSKEW|
prH sec |022211000000000002221000000000000000000001100011122224214788|
prE sec |000012320000000000001553000000001344311010000000110000000000|
prL sec |977666568998999987666336988988997555678888889888667775785210|
ASP sec |............................................................|
....,....13...,....14...,....15...,....16...,....17...,....18
AA |TSLFDNDIPVTTDDVSLADKAIESTEEVSLVPSNLEVSTTSFLPTPVLEDAKLTQTRKVK|
prH sec |875310101112222221100233465544443420000000000000000000000000|
prE sec |113210000000001110000000014444321000000000000144210000000110|
prL sec |001368897787665568888756420001224468898888998744679999898778|
ASP sec |..........................SSSSSSSS..........................|
....,....19...,....20...,....21...,....22...,....23...,....24
AA |KPNSVVKKSHHVGKDDESRLDHLGVVAYNRKQRSIPLSPIVPESSDPAALKRARNTEAAR|
prH sec |000100000000000110121110000000000000000000000067765333368898|
prE sec |000121313232100000000011235531000000000000000000000000000000|
prL sec |989777675656899889877877654468899999998889999932223566631000|
ASP sec |............................................................|
....,....25...,....26...,....27...,....28...,....29...,....30
AA |RSRARKLQRMKQLEDKVEELLSKNYHLENEVARLKKLVGER|
prH sec |88999999999999999999986534688999999998210|
prE sec |00000000000000000000000000000000000000000|
prL sec |11000000000000000000013465310000000001789|
ASP sec |.........................................|
Please note: ASP was designed to identify the location of conformational
switches in amino acid sequences. It is NOT designed to predict whether
a given sequence does or does not contain a switch. For best results,
ASP should be used on sequences of length >150 amino acids with >10
sequence homologues in the SWISS-PROT data bank.
ASP has been validated against a set of globular proteins and may not
be generally applicable. Please see Young et al., Protein Science
8(9):1852-64. 1999. for details and for how best to interpret this
output. We consider ASP to be experimental at this time, and would
appreciate any feedback from our users.