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

NucPred

Fetching P30072 from www.uniprot.org...

The NucPred score for your sequence is 0.97 (see score help below)

   1  MKEHPFPYKSWILELREIKNSHYFLDSWTKFNSVGSYINIFSHQERFIKL    50
  51  FDPRILSILLSRNSQGSTSNRYFTIKGVILFVVAVLIYRINNRNMVEIKN   100
 101  IYWRGLLPIPMNSIGPRNDTLEELVGSYNINRFIVSLLYLTKGKNISESF   150
 151  FLNLKESTLVLPITKKCSMPESNWGSRWWRNWTGKNRDYSCKISNETVAG   200
 201  IEILFKEKDKKYLEFIFFYYMDDPIRKDRDWELFDRLSPSKRLNKINFYS   250
 251  GPLFEILVKRRIYYLMSAFREKIPIEVVKGFFKQQKVGSTIQSNDIEHVS   300
 301  HFFSRNKRAISLKNSAQFNMWQFRQDLLVSWGENPHESDFLRNVSRANWI   350
 351  WLNNVWLVNKYRFCRKVRNVSSNIKYKYDSTRSRSSFVQVTDSSQLKGSY   400
 401  YKSSGHFYSVISNEDSEYHTLINQREIKPLKSIFFDPSFLQTEATEIESD   450
 451  QLQKRPSGYSSTLFTEHEKQMINHMLPEEIEEFIGNPTRLVHSFLSDRWS   500
 501  ELHLGSNPTERSTRDHKLLKKQQDLSFVPSRRSENKELVNILKIITYLKN   550
 551  TVSIHPISSDPGCDGVLKDEPDMDSSNKISVFNKNTFIYLFHLFHDWNRV   600
 601  GYTLNLHHDFELEERFQEKADLFTLSITEPDLVYHKGFSFSIYMDQKQKM   650
 651  VVFASNNIMEAVNQSRFIRNMIKIQYSTYGYIRNVLHRFFLMNRSDHNLE   700
 701  YEIKRDQIGKDTLNHRTIIKYMINQHLSNFKKSQNKWFNPILFFSRTERS   750
 751  VNRNPDAYRYKRSNGSNNFLEHLEHFVSEQKSHFKFKIVFDLIRFNQYSI   800
 801  DWSAFIDTKDLSKPLRFFLSKLLFFLSNSLPFFCVSFGNIPIHRSEIYIY   850
 851  ELKDPNDQLCNQFLEPIDLKIVHLKKRKPFLLGYHGTSRKLKLLITGGRP   900
 901  FLFNKIPRCMIDSFHTINNRSKSFDNTDSYLSMIFHNKDNWLNLVKPFHR   950
 951  SSLISYFYKANRLQFLNNPHNFCFYCNTRLPFYVEKAHIHNYYFTYGQFL  1000
1001  NILFIRNKIFSLCVDKKKHAFWGGRDTISPIESQVSKIFIPKNFPQSGDE  1050
1051  TYNLSQPFHFPSRYDPFVRLIANIYGTPLTEGQIVNLGRTYCQPLSDMNL  1100
1101  SDSEGKNFHQYLNFNSNMGLIHTPCSDKYLPSEKRKKRSLCINKYKCVEK  1150
1151  GQMYRTFQRKVAFSTLSKWNLFQTYMPWFLTSAGYKYINLIFLDTFSELL  1200
1201  SILSSSKKFVSIFNNIMHGSGISWRIINKKRCLPQWNLISEISSKCLHNL  1250
1251  LLSEETIRQNNESPLISTHLRSPNVREFLYSILFLLLVVGYLVRTHLLFV  1300
1301  SRASSELQTEFKRVKSLMIPSSMIELRKLLNRYPTPASNSFWLKNLFIVA  1350
1351  MEQLVYSLEEIRASGGNLLGPAYGVKSICSKNKYFNINLIDLIPNPINRI  1400
1401  IFSRNMRHLSHTSKEIYSLIRKRKNVNGDWIDDIIESWVANSDSIDDEER  1450
1451  EFLVQFSALTTEKRIYQILLSLTHSDHLSKNDSGYKMIEQPGAIYLRYLV  1500
1501  DIHKKYLLNYECNTSCLVERRVFLAHSQTITYSQTSRGTNTLHFPSQGKP  1550
1551  FSISLALSPSKGILVIGSIGTGRSFLVKYLATNSYVPFITVFLNKFLDNK  1600
1601  PKGFLVDDNDDNDSSDDIYASDDINSDLDTELELITMMNALTMDMMLELD  1650
1651  RFFTTLQLELAKAMSPWIIWIPNIHDLDVNESNYLSFGLLVNHLSERCST  1700
1701  NNIIVIASTHIPKKVDPALLAPNKLNTCIKIRRLLIPQQRKHFCTLSYTR  1750
1751  GFHLENKIFHTNGFGSITMGSSARDLVALTNEALSISITQNKSILDTNTI  1800
1801  RSALHRQTWDLRSGVRSFQDNGILSYQIGRAITQNVLLSNCPIDPISIYM  1850
1851  KKKSCTCNGGDYYFYKWYFGLGTSMKKLTILLYLLSCSAGSVAQDLWSLP  1900
1901  GPAEKNGITSYGLVENDSDLVRGLLEVEGALVGSSRTEKDCSPFDNDRVI  1950
1951  FTLILRPEPGNPLDIIKKGSCSIFDHRFIYEKYESEFEEGYGEGALDPQQ  2000
2001  IEEDLFNHIVWAPRIWRPWGFIFYCIERPNELGFPYWSRSFRGKRIVYDK  2050
2051  DEEGELQENDSELLKSGTVQYQTRDRSSKEQGLLKINQFIWDPADPLFFL  2100
2101  LKDQPPGSVFSHRRFFADEEMSKGLLTSQKDPPTSIYKRWFIKNTQEQHF  2150
2151  ELLINRQRWLRTKSSLSKSNGSFRSNTLFESYQYLSTLFLSNGTLFDKMT  2200
2201  KTLLIKRWLFPDEMQM                                    2216

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.)

Go back to the NucPred Home Page.