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

NucPred

Fetching Q5XPK0 from www.uniprot.org...

The NucPred score for your sequence is 0.81 (see score help below)

   1  MPLVRFKIRNELSLGGPEIQRSASVEDEEPKAILGAVEVAGLIGILRQLG    50
  51  DLAEFSAEVFNGLQEEVTVTASRCQKLTSRVRRIESALSPLEKAVLSQTS   100
 101  HIHFAYTAGSEWHPRIRNGHSHFVQSDLPLCVMESYEQCRDPPPLHLLDR   150
 151  FAVGGPGSCLRKYSDPTFFRKELSNPSKTDDIKVQRDQAHRKRKKKRLPQ   200
 201  RNICRSNAVSTSDETNGAHLSSFTDDRPTTSRSTSTVDMPRSSNMQDLSD   250
 251  IVDQSYLQGQSGAQEQSEAQVQSDFQESSKARDSITGSGYIEYVINQSPV   300
 301  DKPEVKLVEGFLSGSLCPADRIGSTVPEGCIEVVDDNILYSPSEDLLVPS   350
 351  ASNVCDEKKETLESMVEKSRKDDEPSELHESKFGPVTPDRVRQNQRDFDR   400
 401  TYILFDEVDIVGEKQSKSQANNIDGTLGIENEGEDKSEQESEADEFVDAR   450
 451  NTIESESESDIDGVPKPKLEHYFGDISTYCSEDANSDNNDGSEDITYEEM   500
 501  AHDPRHENSEDESCSGSYLPEDSNVSSCLSDPVCEETLFHDENSQKPWEF   550
 551  FTMCPSLLAEKAVPDVTILREEPVMAHPLFAGDSANEKISSEERIISCPS   600
 601  LKDAIPAEKILPEEHLVNYPSLEAIPHEKILPGESIAKYPSFAEIIPQEK   650
 651  ILSEKSLEEAVLDNMTPAGEPDAAHPSFPKAVQDKKISPEVLDSKIFSVP   700
 701  KAVSQEPISLEEFVRIHPCLAEAVPDERFLIEEPPSTCLSLTKAMPTEIL   750
 751  LPEKTLESSHYLEELPEEDILQEKSVDSTHPSCAKAAAETNLSPEVLDST   800
 801  KLSVAEAVPQEQVSLEEFVGINPCLVEAVPDERLLPEEPDTTYLSLTKAV   850
 851  AIEKVLSEELLETYPSLAELPEEEFLQEETDDATHTSEAVSDEEISQEVS   900
 901  DSTNLSLEEALPLEHISHEEFVGIDQCLVEVAPEERFLPEEPVITCLSLT   950
 951  MEGVLSEKSPETYPSLSELPEEKILDEEADDAMHPCLSEAVSDEQSSPNV  1000
1001  LGSTNSPVAEAVPQAQISVEEFVGIDPCLVEAVPDMRDLPEEHITSCIYL  1050
1051  TNVVPIEEVLPEEPFEACASLGKLPKDKISQEESDEATHTLSCAKAESDE  1100
1101  HVSLEVLNSTNLSAAEAIPNEQVTLDEFVGIDPCLGEVVLDEEVLPEQLD  1150
1151  TTCRSLTKAAPIMTIFPEEPPEVYPSLEELPEEKIAQEEEVDDATHPYFS  1200
1201  EAVCDEKIPPLEDPGSTHPSLEESVPYEEASHEELVGTNPFLESAFPNEI  1250
1251  GFPDEPGVTYRSSAEAVSKEKNLPEESLPTYPSWAEVVPDEKISREELDS  1300
1301  TYPSSAEAVFDENISGSEAPGSTTETGRQNKTFPEKTFATENSLNEAVFD  1350
1351  EKIPGSEASTSTTETGPHNKTFPEEPFAMENFLNEAVFDEKIPGSEAPVS  1400
1401  TTETGLHNETFTEEPVATDISLNEAVFGEIIPGSEAPGSATETGLHNKTF  1450
1451  PEKPFATDLSLKEAVFDEKIPGSEASSSTTETSPHNKTFPRETITTDLSS  1500
1501  TEAVFDEKITGSGVPSFTTETGSHNKCFPEEPVPKENILPKEPAAAYLAL  1550
1551  AEGIPDQKVFLDDAALLLFAEAIFDQKFSPEVPDSTYPSLKEPEMHVAAP  1600
1601  CVVTDLPAKNIKVKEGEVHNEPYTASDVSMNQKSGLLEPESTERTFPSSG  1650
1651  GTVTISPDTQNSLPNGTSVESISIWSNGGLLGLAPLKPPVFAEPNSGSQH  1700
1701  IKHEINEASVLSTRKQESSSRSVENAEKSSLPLIVSDPTSQQQSNMSSLS  1750
1751  PMQSTGTSFRVFGLSHRLLMAGFRGNSSSTCKFESVPSSSYDTRVAAIED  1800
1801  RTQQSPGGSSFEEQLDYESSLFGSPTSSPPVEHMKISFNPIEASPVPKLK  1850
1851  LRIPCQPRYNGENADMFPSFQLVPEASNSDDGDDNSDTFCQSSPCVSDYC  1900
1901  LSDSELWESDESPRISVSSLKQVEERSRHGDMGSFSGSFLDLPCYDAVDH  1950
1951  QSTFSRLEQEQVPEYKPSVSEIIRAWPPNQPKSSPCNEANVDANTVSKKT  2000
2001  QDQSLGLVATDDEGGDSVCLDEHKTKGI                        2028

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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