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

NucPred

Fetching P13608 from www.uniprot.org...

The NucPred score for your sequence is 0.42 (see score help below)

   1  MTTLLLVFVTLRVITAAISVEVSEPDNSLSVSIPEPSPLRVLLGSSLTIP    50
  51  CYFIDPMHPVTTAPSTAPLAPRIKWSRISKEKEVVLLVATEGRVRVNSAY   100
 101  QDKVTLPNYPAIPSDATLEIQNMRSNDSGILRCEVMHGIEDSQATLEVVV   150
 151  KGIVFHYRAISTRYTLDFDRAQRACLQNSAIIATPEQLQAAYEDGFHQCD   200
 201  AGWLADQTVRYPIHTPREGCYGDKDEFPGVRTYGIRDTNETYDVYCFAEE   250
 251  MEGEVFYATSPEKFTFQEAANECRRLGARLATTGQLYLAWQGGMDMCSAG   300
 301  WLADRSVRYPISKARPNCGGNLLGVRTVYLHANQTGYPDPSSRYDAICYT   350
 351  GEDFVDIPESFFGVGGEEDITIQTVTWPDVELPLPRNITEGEARGSVILT   400
 401  AKPDFEVSPTAPEPEEPFTFVPEVRATAFPEVENRTEEATRPWAFPREST   450
 451  PGLGAPTAFTSEDLVVQVTLAPGAAEVPGQPRLPGGVVFHYRPGSSRYSL   500
 501  TFEEAKQACLRTGAIIASPEQLQAAYEAGYEQCDAGWLQDQTVRYPIVSP   550
 551  RTPCVGDKDSSPGVRTYGVRPPSETYDVYCYVDRLEGEVFFATRLEQFTF   600
 601  WEAQEFCESQNATLATTGQLYAAWSRGLDKCYAGWLADGSLRYPIVTPRP   650
 651  ACGGDKPGVRTVYLYPNQTGLLDPLSRHHAFCFRGVSAAPSPEEEEGSAP   700
 701  TAGPDVEEWMVTQVGPGVAAVPIGEETTAIPGFTVEPENKTEWELAYTPA   750
 751  GTLPLPGIPPTWPPTGEATEEHTEGPSATEVPSASEKPFPSEEPFPPEEP   800
 801  FPSEKPFPPEELFPSEKPFPSEKPFPSEEPFPSEKPFPPEELFPSEKPIP   850
 851  SEEPFPSEEPFPSEKPFPPEEPFPSEKPIPSEEPFPSEKPFPSEEPFPSE   900
 901  EPSTLSAPVPSRTELPSSGEVSGVPEISGDFTGSGEISGHLDFSGQPSGE   950
 951  SASGLPSEDLDSSGLTSTVGSGLPVESGLPSGEEERITWTSAPKVDRLPS  1000
1001  GGEGPEVSGVEDISGLPSGGEVHLEISASGVEDISGLPSGGEVHLEISAS  1050
1051  GVEDLSRIPSGEGPEISASGVEDISGLPSGEEGHLEISASGVEDLSGIPS  1100
1101  GEGPEVSASGVEDLIGLPSGEGPEVSASGVEDLSRLPSGEGPEVSASGVE  1150
1151  DLSGLPSGEGPEVSVSGVEDLSRLPSGEGPEVSASGVEDLSRLPSGEGPE  1200
1201  ISVSGVEDISILPSGEGPEVSASGVEDLSVLPSGEGHLEISTSGVEDLSV  1250
1251  LPSGEGHLETSSGVEDISRLPSGEGPEVSASGVEDLSVLPSGEDHLEISA  1300
1301  SGVEDLGVLPSGEDHLEISASGVEDISRLPSGEGPEVSASGVEDLSVLPS  1350
1351  GEGHLEISASGVEDLSRLPSGGEDHLETSASGVGDLSGLPSGREGLEISA  1400
1401  SGAGDLSGLTSGKEDLTGSASGALDLGRIPSVTLGSGQAPEASGLPSGFS  1450
1451  GEYSGVDLESGPSSGLPDFSGLPSGFPTVSLVDTTLVEVVTATTAGELEG  1500
1501  RGTIDISGAGETSGLPFSELDISGGASGLSSGAELSGQASGSPDISGETS  1550
1551  GLFGVSGQPSGFPDISGETSGLLEVSGQPSGFYGEISGVTELSGLASGQP  1600
1601  EISGEASGILSGLGPPFGITDLSGEAPGIPDLSGQPSGLPEFSGTASGIP  1650
1651  DLVSSAVSGSGESSGITFVDTSLVEVTPTTFKEEEGLGSVELSGLPSGEL  1700
1701  GVSGTSGLADVSGLSSGAIDSSGFTSQPPEFSGLPSGVTEVSGEASGAES  1750
1751  GSSLPSGAYDSSGLPSGFPTVSFVDRTLVESVTQAPTAQEAGEGPSGILE  1800
1801  LSGAPSGAPDMSGDHLGSLDQSGLQSGLVEPSGEPASTPYFSGDFSGTTD  1850
1851  VSGESSAATSTSGEASGLPEVTLITSELVEGVTEPTVSQELGQRPPVTYT  1900
1901  PQLFESSGEASASGDVPRFPGSGVEVSSVPESSGETSAYPEAEVGASAAP  1950
1951  EASGGASGSPNLSETTSTFHEADLEGTSGLGVSGSPSAFPEGPTEGLATP  2000
2001  EVSGESTTAFDVSVEASGSPSATPLASGDRTDTSGDLSGHTSGLDIVIST  2050
2051  TIPESEWTQQTQRPAEARLEIESSSPVHSGEESQTADTATSPTDASIPAS  2100
2101  AGGTDDSEATTTDIDECLSSPCLNGATCVDAIDSFTCLCLPSYQGDVCEI  2150
2151  QKLCEEGWTKFQGHCYRHFPDRATWVDAESQCRKQQSHLSSIVTPEEQEF  2200
2201  VNNNAQDYQWIGLNDKTIEGDFRWSDGHSLQFENWRPNQPDNFFATGEDC  2250
2251  VVMIWHEKGEWNDVPCNYQLPFTCKKGTVACGEPPVVEHARIFGQKKDRY  2300
2301  EINALVRYQCTEGFIQGHVPTIRCQPSGHWEEPRITCTDPATYKRRLQKR  2350
2351  SSRPLRRSHPSTAH                                      2364

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.