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

NucPred

Fetching P50748 from www.uniprot.org...

The NucPred score for your sequence is 0.65 (see score help below)

   1  MWNDIELLTNDDTGSGYLSVGSRKEHGTALYQVDLLVKISSEKASLNPKI    50
  51  QACSLSDGFIIVADQSVILLDSICRSLQLHLVFDTEVDVVGLCQEGKFLL   100
 101  VGERSGNLHLIHVTSKQTLLTNAFVQKANDENRRTYQNLVIEKDGSNEGT   150
 151  YYMLLLTYSGFFCITNLQLLKIQQAIENVDFSTAKKLQGQIKSSFISTEN   200
 201  YHTLGCLSLVAGDLASEVPVIIGGTGNCAFSKWEPDSSKKGMTVKNLIDA   250
 251  EIIKGAKKFQLIDNLLFVLDTDNVLSLWDIYTLTPVWNWPSLHVEEFLLT   300
 301  TEADSPSSVTWQGITNLKLIALTASANKKMKNLMVYSLPTMEILYSLEVS   350
 351  SVSSLVQTGISTDTIYLLEGVCKNDPKLSEDSVSVLVLRCLTEALPENRL   400
 401  SRLLHKHRFAEAESFAIQFGLDVELVYKVKSNHILEKLALSSVDASEQTE   450
 451  WQQLVDDAKENLHKIQDDEFVVNYCLKAQWITYETTQEMLNYAKTRLLKK   500
 501  EDKTALIYSDGLKEVLRAHAKLTTFYGAFGPEKFSGSSWIEFLNNEDDLK   550
 551  DIFLQLKEGNLVCAQYLWLRHRANFESRFDVKMLESLLNSMSASVSLQKL   600
 601  CPWFKNDVIPFVRRTVPEGQIILAKWLEQAARNLELTDKANWPENGLQLA   650
 651  EIFFTAEKTDELGLASSWHWISLKDYQNTEEVCQLRTLVNNLRELITLHR   700
 701  KYNCKLALSDFEKENTTTIVFRMFDKVLAPELIPSILEKFIRVYMREHDL   750
 751  QEEELLLLYIEDLLNRCSSKSTSLFETAWEAKAMAVIACLSDTDLIFDAV   800
 801  LKIMYAAVVPWSAAVEQLVKQHLEMDHPKVKLLQESYKLMEMKKLLRGYG   850
 851  IREVNLLNKEIMRVVRYILKQDVPSSLEDALKVAQAFMLSDDEIYSLRII   900
 901  DLIDREQGEDCLLLLKSLPPAEAEKTAERVIIWARLALQEEPDHSKEGKA   950
 951  WRMSVAKTSVDILKILCDIQKDNLQKKDECEEMLKLFKEVASLQENFEVF  1000
1001  LSFEDYSNSSLVADLREQHIKAHEVAQAKHKPGSTPEPIAAEVRSPSMES  1050
1051  KLHRQALALQMSKQELEAELTLRALKDGNIKTALKKCSDLFKYHCNADTG  1100
1101  KLLFLTCQKLCQMLADNVPVTVPVGLNLPSMIHDLASQAATICSPDFLLD  1150
1151  ALELCKHTLMAVELSRQCQMDDCGILMKASFGTHKDPYEEWSYSDFFSED  1200
1201  GIVLESQMVLPVIYELISSLVPLAESKRYPLESTSLPYCSLNEGDGLVLP  1250
1251  VINSISALLQNLQESSQWELALRFVVGSFGTCLQHSVSNFMNATLSEKLF  1300
1301  GETTLVKSRHVVMELKEKAVIFIRENATTLLHKVFNCRLVDLDLALGYCT  1350
1351  LLPQKDVFENLWKLIDKAWQNYDKILAISLVGSELASLYQEIEMGLKFRE  1400
1401  LSTDAQWGIRLGKLGISFQPVFRQHFLTKKDLIKALVENIDMDTSLILEY  1450
1451  CSTFQLDCDAVLQLFIETLLHNTNAGQGQGDASMDSAKRRHPKLLAKALE  1500
1501  MVPLLTSTKDLVISLSGILHKLDPYDYEMIEVVLKVIERADEKITNININ  1550
1551  QALSILKHLKSYRRISPPVDLEYQYMLEHVITLPSAAQTRLPFHLIFFGT  1600
1601  AQNFWKILSTELSEESFPTLLLISKLMKFSLDTLYVSTAKHVFEKKLKPK  1650
1651  LLKLTQAKSSTLINKEITKITQTIESCLLSIVNPEWAVAIAISLAQDIPE  1700
1701  GSFKISALKFCLYLAERWLQNIPSQDEKREKAEALLKKLHIQYRRSGTEA  1750
1751  VLIAHKLNTEEYLRVIGKPAHLIVSLYEHPSINQRIQNSSGTDYPDIHAA  1800
1801  AKEIAEVNEINLEKVWDMLLEKWLCPSTKPGEKPSELFELQEDEALRRVQ  1850
1851  YLLLSRPIDYSSRMLFVFATSTTTTLGMHQLTFAHRTRALQCLFYLADKE  1900
1901  TIESLFKKPIEEVKSYLRCITFLASFETLNIPITYELFCSSPKEGMIKGL  1950
1951  WKNHSHESMAVRLVTELCLEYKIYDLQLWNGLLQKLLGFNMIPYLRKVLK  2000
2001  AISSIHSLWQVPYFSKAWQRVIQIPLLSASCPLSPDQLSDCSESLIAVLE  2050
2051  CPVSGDLDLIGVARQYIQLELPAFALACLMLMPHSEKRHQQIKNFLGSCD  2100
2101  PQVILKQLEEHMNTGQLAGFSHQIRSLILNNIINKKEFGILAKTKYFQML  2150
2151  KMHAMNTNNITELVNYLANDLSLDEASVLITEYSKHCGKPVPPDTAPCEI  2200
2201  LKMFLSGLS                                           2209

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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