3dswap-pred - Prediction of 3D domain swapping from protein sequence:
FASTA format description
A sequence in FASTA format begins with a single-line description,
followed by lines of sequence data. The description line is
distinguished from the sequence data by a greater-than (">") symbol
in the first column.
Examples from positive dataset
Example 1:
>11BA_A
KESAAAKFERQHMDSGNSPSSSSNYCNLMMCCRKMTQGKCKPVNTFVHESLADVKAVCSQKKVTCKNGQTNCYQS
KSTMRITDCRETGSSKYPNCAYKTTQVEKHIIVACGGKPSVPVHFDASV
Example 2:
>1E7D_A
MLLTGKLYKEEKQKFYDAQNGKCLICQRELNPDVQANHLDHDHELNGPKAGKVRGLLCNLCNAAEGQMKHKFNRS
GLKGQGVDYLEWLENLLTYLKSDYTQNNIHPNFVGDKSKEFSRLGKEEMMAEMLQRGFEYNESDTKTQLIASFKK
QLRKSLK
>1BH5:D|PDBID|CHAIN|SEQUENCE
AEPQPPSGGLTDEAALSCCSDADPSTKDFLLQETMLRVKDPKKSLDFYTRVLGMTLIQKCDFPIMKFSLYFLAYEDKNDI
PKEKDEKIAWALSRKATLELTHNWGTEDDETQSYHNGNSDPRGFGHIGIAVPDVYSACKRFEELGVKFVKKPDDGKMKGL
AFIQDPDGYWIQILNPNKMATLM
Examples from negative dataset
Example 4:
>d1a26a1
KSKLAKPIQDLIKMIFDVESMKKAMVEFEIDLQKMPLGKLSKRQIQSAYSILNEVQQAVS
DGGSESQILDLSNRFYTLIPHDFGMKKPPLLSNLEYIQAKVQMLDNLLDIEVAYSLLRGG
NEDGDKDPIDINYEK
Example 5:
>d1diva1
RQAAEELANAKKLKEQLEKLTVTIPAKAGEGGRLFGSITSKQIAESLQAQHGLKLDKRKI
ELADAIRALGYTNVPVKLHPEVTATLKVHVTEQK
Example 6:
>d1duvg1
SGFYHKHFLKLLDFTPAELNSLLQLAAKLKADKKSGKEEAKLTGKNIALIFEKDSTRTRC
SFEVAAYDQGARVTYLGPSGSQIGHKESIKDTARVLGRMYDGIQYRGYGQEIVETLAEYA
SVPVWNGLTNEFHPTQLLADLLTMQEHLPG
Sequences are expected to be represented in the standard IUB/IUPAC amino acid single code in single letter (see below). Before submitting a request, any numerical digits in the query sequence should be removed. 3Dswap-Pred accept the following 20 amino acid codes in FASTA Format:
Alanine Ala A
Arginine Arg R
Aspartic Acid Asp D
Asparagine Asn N
Cysteine Cys C
Glutamic Acid Glu E
Glutamine Gln Q
Glycine Gly G
Histidine His H
Isoleucine Ile I
Leucine Leu L
Lysine Lys K
Methionine Met M
Phenylalanine Phe F
Proline Pro P
Serine Ser S
Threonine Thr T
Tryptophan Trp W
Tyrosine Tyr Y
Valine Val V
Contact:
Prof. R. Sowdhamini (Contact : mini@ncbs.res.in)
3dswap-pred - Team:
K. Shameer, G. Pugalenthi & Prof. R. Sowdhamini
