SBC logo Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden.

NucPred

Fetching Q07652 from www.uniprot.org...

The NucPred score for your sequence is 0.89 (see score help below)

   1  MALYNPIPVRQNCFTVNRSLFIFGEDNIVRKYAKKLIDWPPFEYMILATI    50
  51  IANCIVLALEQHLPEDDKTPMSRRLEKTEPYFIGIFCFEAGIKIVALGFI   100
 101  FHKGSYLRNGWNVMDFIVVLSGILATAGTHFNTHVDLRTLRAVRVLRPLK   150
 151  LVSGIPSLQIVLKSIMKAMVPLLQIGLLLFFAILMFAIIGLEFYSGKLHR   200
 201  ACFMNNSGILEGFDPPHPCGVQGCPAGYECKDWIGPNDGITQFDNILFAV   250
 251  LTVFQCITMEGWTTVLYNTNDALGATWNWLYFIPLIIIGSFFVLNLVLGV   300
 301  LSGEFAKERERVENRRAFMKLRRQQQIERELNGYRAWIDKAEEVMLAEEN   350
 351  KNSGTSALEVLRRATIKRSRTEAMTRDSSDEHCVDISSVGTPLARASIKS   400
 401  TKVDGASYFRHKERLLRISIRHMVKSQVFYWIVLSVVALNTACVAIVHHN   450
 451  QPQWLTHLLYYAEFLFLGLFLLEMSLKMYGMGPRLYFHSSFNCFDFGVTV   500
 501  GSIFEVVWAIFRPGTSFGISVLRALRLLRIFKITKYWASLRNLVVSLMSS   550
 551  MKSIISLLFLLFLFIVVFALLGMQLFGGRFNFNDGTPSANFDTFPAAIMT   600
 601  VFQILTGEDWNEVMYNGIRSQGGVSSGMWSAIYFIVLTLFGNYTLLNVFL   650
 651  AIAVDNLANAQELTKDEQEEEEAFNQKHALQKAKEVSPMSAPNMPSIERD   700
 701  RRRRHHMSMWEPRSSHLRERRRRHHMSVWEQRTSQLRRHMQMSSQEALNK   750
 751  EEAPPMNPLNPLNPLSPLNPLNAHPSLYRRPRPIEGLALGLGLEKCEEER   800
 801  ISRGGSLKGDIGGLTSVLDNQRSPLSLGKREPPWLPRSCHGNCDPTQQET   850
 851  GGGETVVTFEDRARHRQSQRRSRHRRVRTEGKESASASRSRSASQERSLD   900
 901  EGVSIDGEKEHEPQSSHRSKEPTIHEEERTQDLRRTNSLMVPRGSGLVGA   950
 951  LDEAETPLVQPQPELEVGKDAALTEQEAEGSSEQALLADVQLDVGRGISQ  1000
1001  SEPDLSCMTTNMDKATTESTSVTVAIPDVDPLVDSTVVNISNKTDGEASP  1050
1051  LKEAETKEEEEEVEKKKQKKEKRETGKAMVPHSSMFIFSTTNPIRKACHY  1100
1101  IVNLRYFEMCILLVIAASSIALAAEDPVLTNSERNKVLRYFDYVFTGVFT  1150
1151  FEMVIKMIDQGLILQDGSYFRDLWNILDFVVVVGALVAFALANALGTNKG  1200
1201  RDIKTIKSLRVLRVLRPLKTIKRLPKLKAVFDCVVTSLKNVFNILIVYKL  1250
1251  FMFIFAVIAVQLFKGKFFYCTDSSKDTEKECIGNYVDHEKNKMEVKGREW  1300
1301  KRHEFHYDNIIWALLTLFTVSTGEGWPQVLQHSVDVTEEDRGPSRSNRME  1350
1351  MSIFYVVYFVVFPFFFVNIFVALIIITFQEQGDKMMEECSLEKNERACID  1400
1401  FAISAKPLTRYMPQNRHTFQYRVWHFVVSPSFEYTIMAMIALNTVVLMMK  1450
1451  YYSAPWTYELALKYLNIAFTMVFSLECVLKVIAFGFLNYFRDTWNIFDFI  1500
1501  TVIGSITEIILTDSKLVNTSGFNMSFLKLFRAARLIKLLRQGYTIRILLW  1550
1551  TFVQSFKALPYVCLLIAMLFFIYAIIGMQVFGNIKLDEESHINRHNNFRS  1600
1601  FFGSLMLLFRSATGEAWQEIMLSCLGEKGCEPDTTAPSGQNESERCGTDL  1650
1651  AYVYFVSFIFFCSFLMLNLFVAVIMDNFEYLTRDSSILGPHHLDEFVRVW  1700
1701  AEYDRAACGRIHYTEMYEMLTLMSPPLGLGKRCPSKVAYKRLVLMNMPVA  1750
1751  EDMTVHFTSTLMALIRTALDIKIAKGGADRQQLDSELQKETLAIWPHLSQ  1800
1801  KMLDLLVPMPKASDLTVGKIYAAMMIMDYYKQSKVKKQRQQLEEQKNAPM  1850
1851  FQRMEPSSLPQEIISNAKALPYLQQDPVSGLSGRSGYPSMSPLSPQEIFQ  1900
1901  LACMDPADDGQFQEQQSLVVTDPSSMRRSFSTIRDKRSNSSWLEEFSMER  1950
1951  SSENTYKSRRRSYHSSLRLSAHRLNSDSGHKSDTHRSGGRERGRSKERKH  2000
2001  LLSPDVSRCNSEERGTQADWESPERRQSRSPSEGRSQTPNRQGTGSLSES  2050
2051  SIPSISDTSTPRRSRRQLPPVPPKPRPLLSYSSLMRHTGGISPPPDGSEG  2100
2101  GSPLASQALESNSACLTESSNSLHPQQGQHPSPQHYISEPYLALHEDSHA  2150
2151  SDCGEEETLTFEAAVATSLGRSNTIGSAPPLRHSWQMPNGHYRRRRLGGL  2200
2201  GLAMMCGAVSDLLSDTEEDDKC                              2222

Positively and negatively influencing subsequences are coloured according to the following scale:

(non-nuclear) negative ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| positive (nuclear)

with NucPred



If you find NucPred useful, please cite this paper:
NucPred - Predicting Nuclear Localization of Proteins. Brameier M, Krings A, Maccallum RM. Bioinformatics, 2007. PubMed id: 17332022
The authors also look forward to your comments and suggestions.

What does the NucPred score mean?

You have to decide on a NucPred score threshold. Sequences which score greater than or equal to this threshold are predicted to spend some time in the nucleus. Higher thresholds yield fewer predicted nuclear proteins, but these predictions are more accurate (you can have higher confidence in them). The table below gives more details of the performance of NucPred estimated using the sequences it was trained on (by cross-validation). Another benchmark is available in the Bioinformatics 2007 paper.

NucPred score threshold Specificity Sensitivity
see above fraction of proteins predicted to be nuclear that actually are nuclear fraction of true nuclear proteins that are predicted (coverage)
0.10 0.45 0.88
0.20 0.52 0.83
0.30 0.57 0.77
0.40 0.63 0.69
0.50 0.70 0.62
0.60 0.71 0.53
0.70 0.81 0.44
0.80 0.84 0.32
0.90 0.88 0.21
1.00 1.00 0.02

Sequences which score >= 0.8 with NucPred and which are predicted by PredictNLS to contain an NLS have been shown to be 93% correct with a coverage of 16%. (PredictNLS by itself is 87% correct with 26% coverage on the same data.)

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