PON-Diso

PON-Diso is a machine learning based prediction method, which is developed using Random Forest classifier on AAIndex features and Evolutionary features. PON-Diso is a method to predict changes in disorder regions contained in protein caused by amino acid substitutions.

Instructions for submitting queries

PON-Diso allows users to submit queries in three formats.

1) Identifier submission
2) Sequence submission

The users are required to submit protein identifier(s) and variation(s) in fasta-like format. Ensembl protein identifier, NCBI protein ID and UniProtKB/Swiss-Prot accession can be used as identifiers. The identifier should be preceded by greater than sign (>). Multiple variations in a single protein or in multiple proteins can be submitted in a single query.

Example:
#Ensembl protein identifier
>ENSP00000288602
G10V
Q94E
#UniProtKB/Swiss-Prot accession identifier
>Q16518
P363T
R44Q
#GI number for protein sequence
>6980459
W28L

This format requires users to submit fasta-format amino acid sequence(s) and variation(s) (in fasta-like format) corresponding to the sequence(s). Each sequence should have a header line starting with greater than sign (>) followed by description. The sequence in upper-case characters follows the header line. No characters except the universal 20 amino acid codes are accepted in the sequence(s). The variation(s) corresponding to a sequence should contain the same header line as the sequence. Variation(s) follow the header line and only one variation is allowed per line. The sequence(s) and variation(s) can be pasted in the correponding text-boxes or separate files containing sequence(s) and variation(s) can be submitted.

Example sequences:
>ADA_HUMAN
MAQTPAFDKPKVELHVHLDGSIKPETILYYGRRRGIALPANTAEGLLNVIGMDKPLTLPD
FLAKFDYYMPAIAGCREAIKRIAYEFVEMKAKEGVVYVEVRYSPHLLANSKVEPIPWNQA
EGDLTPDEVVALVGQGLQEGERDFGVKARSILCCMRHQPNWSPKVVELCKKYQQQTVVAI
DLAGDETIPGSSLLPGHVQAYQEAVKSGIHRTVHAGEVGSAEVVKEAVDILKTERLGHGY
HTLEDQALYNRLRQENMHFEICPWSSYLTGAWKPDTEHAVIRLKNDQANYSLNTDDPLIF
KSTLDTDYQMTKRDMGFTEEEFKRLNINAAKSSFLPEDEKRELLDLLYKAYGMPPSASAG
QNL
>Retinal pigment
MSIQVEHPAGGYKKLFETVEELSSPLTAHVTGRIPLWLTGSLLRCGPGLFEVGSEPFYHL
FDGQALLHKFDFKEGHVTYHRRFIRTDAYVRAMTEKRIVITEFGTCAFPDPCKNIFSRFF
SYFRGVEVTDNALVNVYPVGEDYYACTETNFITKINPETLETIKQVDLCNYVSVNGATAH
PHIENDGTVYNIGNCFGKNFSIAYNIVKIPPLQADKEDPISKSEIVVQFPCSDRFKPSYV
HSFGLTPNYIVFVETPVKINLFKFLSSWSLWGANYMDCFESNETMGVWLHIADKKRKKYL
NNKYRTSPFNLFHHINTYEDNGFLIVDLCCWKGFEFVYNYLYLANLRENWEEVKKNARKA
PQPEVRRYVLPLNIDKADTGKNLVTLPNTTATAILCSDETIWLEPEVLFSGPRQAFEFPQ
INYQKYCGKPYTYAYGLGLNHFVPDRLCKLNVKTKETWVWQEPDSYPSEPIFVSHPDALE
EDDGVVLSVVVSPGAGQKPAYLLILNAKDLSEVARAEVEINIPVTFHGLFKKS

Example variations:
>ADA_HUMAN
R101H
R101L
S291L
>Retinal pigment
G75R
R97P

Email:

Users are required to submit a valid email address where the results will be sent when they are ready.

Citation

Ali, H., Urolagin, S., Gurarslan, Ö. and Vihinen, M. (2014), Performance of Protein Disorder Prediction Programs on Amino Acid Substitutions. Hum. Mutat., 35: 794-804. doi: 10.1002/humu.22564

If you have any queries, please feel free to contact us.