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

NucPred

Fetching P43583 from www.uniprot.org...

The NucPred score for your sequence is 0.79 (see score help below)

   1  MTANNDDDIKSPIPITNKTLSQLKRFERSPGRPSSSQGEIKRKKSRLYAA    50
  51  DGRPHSPLRARSATPTLQDQKLFNGMDSTSLLNERLQHYTLDYVSDRAQH   100
 101  MKNIYDPSSRWFSRSVRPEFPIEEFLPYKTESHEDQAKYLCHVLVNLYIA   150
 151  ISSLDIQGLISISSKDLADLKKEVDDLALKTDLFRLSNNTAENDLLGNDI   200
 201  ADYDDAEGLEDELDEYFDLAGPDFNATGKITAKSATIVNVNHWTNELKNC   250
 251  LHFDFPVALRKSLATVYYYLSLVQGQKVYRQMHVDMFERLVSLDDDRTNF   300
 301  TELLQKQGLLLDHQIMLNFLCEFLPYPDPDYARYELSSKEDLQLFRLLLK   350
 351  HAHNAKPFFDKSKESLLVDTMNFLLSSLAPSTMMAVMPIVTSVVPYHYHI   400
 401  HSKIIDYFPFCYSIWSSVSANVAIDTHMYDFVGSISKDVHNKILSSEHEK   450
 451  DVVGVEFGEFGIFTDDQMTFMFNRLQGHLRTDGQIHSYSRTVKPFVYAIN   500
 501  GSKKDRFFEKLVSLAKAIETFIHPSNNGFWTKPNAKFVHAFIKSYHGRVK   550
 551  YEEDICARGVTNGICLTSFCHEEIVEIFLNIISLGSQNKNPDIANYYISC   600
 601  FAYLLELDPSNAYLIYDKILIDLYDTLADQFINSRHRIISSLKQFTRVIR   650
 651  FIVMDKLYRVHITNVLSMLVSKLDMNDTNLTSNLINGIVSIAAFIPIQDL   700
 701  TGEDDYISFESDTLPLVQQHFYHIKCGESSKTFRVDDELLNNAFKASTTV   750
 751  FQSMLKVYVEKIFQLVDVDLEDSLVTKINQTTMILQESMDDKIFNYFASL   800
 801  LQRNFWSNDSFKEKDPNYELVTIPLAALVRRNNGLSKELVRTLLFHIKEQ   850
 851  IKRGAGSVRSTSEIQQRDVKLVLYLTALNDVLRQCHESLLEYSDELITFM   900
 901  KYLYDNVTNPPLDVITSIVIHSALATLCTTEITDCRLFPEDSKIPEKDRW   950
 951  GGLQFDPRRFDKQHLSFQWHVPSSDEITLSISILESLSEYCINNVEELMK  1000
1001  APRHDSEYGDMIQKYVLVMTHTLSGSSLLFDPDFNKYRTQSNLSYREKLI  1050
1051  LLKNIRENNCDPQELDIDIEQIRSGKDDEDYIESKDIEAGLNAGVSDVVQ  1100
1101  LRDEFPDELIVDEEVVSEMPSGVNTPIAGTHGTDNSAMSSDLAFRDLDIY  1150
1151  TCNYYFGNTTEEKLQNPQYLQVHRVRARIGHFFHKLYVFLSTNFENNTNM  1200
1201  FQILLHGLKVWFTDLGQETVFNEDPNAFIDVDFLENVQSLSHVNEPFTRT  1250
1251  NFAIRANSLHQSRVLLHSTNRKASKLENLLLVDIIQLATSLYPDIYKPAQ  1300
1301  GTLVHCMKQLVGSYGVVINKIIPSLEKAIKDHDYMKIQVILNVLLIKKIH  1350
1351  RKLMTDYKDIGRLIFLLIECCRVNELEIGMYADKILTDIVIGIKIPSSVC  1400
1401  VISDQAFLPLAPPDGTINLQVEAVKLAKKKKREYYLSLLVDLQDKLLDKL  1450
1451  DNEKDMGWKIRMFILRFVTQIQSNLESKPDKRAVFSIISQISTKHPEIIH  1500
1501  LVVKSLLSTCNKIISLSDYEYDITRAYKNEFNPSFVEILDTSTTSFPKTF  1550
1551  TEEMNNFDNPKYFIDLRAYVGWLCWGRLMYVMSPKALKLNLRENELEVLK  1600
1601  TAGHLLTREFLRDVTMNLVQDNETRGVFSSGNVSFFSLVILLISSGFCEL  1650
1651  NMSDLFELCESYYNKDDKASMIMSVEIVAGLVCGSKFMSVSDLDKRDTFI  1700
1701  ENFLAKCLDYELNHDAFEIWSTLAWWLPAVVDLRRSKTFFCHFINADGMF  1750
1751  DRESDAATHQTSKIYMLRSILMSMEFRAPDVGKLFDELVFDHPYDQVRQA  1800
1801  VAKLLTTLVQNQSNPSISDPTTLLEAERNDPDGLGLPLKSVPEKVDAYIK  1850
1851  KQFEIIKNLEDSVVGLNPQQFIKTDYFYRTSTIFYWIKEMARGPNKVLLV  1900
1901  PYLVDYVLPFLIGLVKHKDVCALASLDPVRLYAGLGYMPIRKNHVAAIVD  1950
1951  YVCSSNVALSSNQTKLQLAFIQHFLSAELLQLTEEEKNKILEFVVSNLYN  2000
2001  EQFVEVRVRAASILSDIVHNWKEEQPLLSLIERFAKGLDVNKYTSKERQK  2050
2051  LSKTDIKIHGNVLGLGAIISAFPYVFPLPPWIPKQLSNLSSWARTSGMTG  2100
2101  QAAKNTISEFKKVRADTWKFDRASFNTEELEDLEGVLWRSYYA         2143

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.