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

NucPred

Fetching Q6BV76 from www.uniprot.org...

The NucPred score for your sequence is 0.92 (see score help below)

   1  MSSFDINKLVSCLQSTKIKDRNDGLSSVENLLNSKFKLNPKQFDVLVISM    50
  51  FTLIENEQISYLKNKASSAEFRLSYGSNCLKLLIEKSLDYNQELRNSNKP   100
 101  IKMKYKFYMSIIHSIRNYYFIEDNILEPCALDFTKILSSITSQGFFKEHL   150
 151  NYEDWLHIYNLLIKSSSFILDELTKINMHEKLLVEIFTSLHFLIQADSSI   200
 201  SVNYLQLVSSSVPNNYFKLLKILSKTCNFFKKESMLTVLLFKIINKLIIT   250
 251  LCTENFKFVNKLIQISIKLMISFHQTQLDSLQVQFLIFMNLSATHSFLNL   300
 301  HNFPKLIGDSSIISDDPFDSRQDISIRSSEDSSKTNQSIDSITDGDNDEV   350
 351  ILYNVGILIQNLVSKLYSSNNQVKSEDINFMRKPTDDKNWFKLRSIYLRV   400
 401  SEYDEPDSLQPWLFNAGLSKFINSYFEFKKSLYEHNTINSLNTFNASIVR   450
 451  SDSIHQNKRQKLNILSEALYHSNNILDFCNKLIIDKTDYKVQQTGMQILT   500
 501  FYLEVYSPRVEISPLRNITSNNDVKLSGSSSTKNSSILDMSDSTLLNSTF   550
 551  DFPLTTNDSESQFNVNLIFKNVINAFDTDELNYWSLMATRAIIYDSLQRS   600
 601  IKIEEKYFFQLLKIALQLIKNKEVSRISCSLVYSIISRHSNEGLNKIMEK   650
 651  SLIIQIDNLIDLSEISGPFSICEESFQLWYSINKLVRNINLARNFILAER   700
 701  IQAWLISKWDIAANINIGFWYSNPSSHFEFVNFICWLCGINIEQSNQQNL   750
 751  LDLYCGVLNEANIFMNSYNELEVFFLNNCNVRDNTSSWIEIDIDNLSENK   800
 801  TSDDLLIRIIETGKNYLKEESVSVEAFEWAILEFRIVRLLKDHDIHNQLI   850
 851  NSIQYQASDLLECINVMNATSNISDFIKVLSRTNFMLMKGGSIEIISTSF   900
 901  ELGNFFDKISGNGLMYNANQRLLQQDQCSNNDNIDMFHDEFTSTNEPKTN   950
 951  FQTESKSTILNCINLGYVDVSCVQALKCLLIRNKIQGDSSVKTFDLIVKF  1000
1001  LESLRSPEVLYCLFYLCRLLESGDLERSEIPIVSWTRIIRILGEGPLTNF  1050
1051  DLERDELTIIIVSKLLTISFPIWHDNPDDAFKKDCLDMCSWLLQCGTKNL  1100
1101  ILTEASCIEFLIFMIAYSRYNNQTIIENNEIKSLFIKTFTKSTNNIKIKI  1150
1151  LPSLVNYLKSISVTDQMAIYKELFLNFDTPQQSIETCGTFCLFFCILSEA  1200
1201  SIQVTIAVIFNFMEYSRFEYFLPYIKGAFSLIYKRLNLKSTKELFNLFKY  1250
1251  EILKSWWSYNFDIKQFPYDLFDYDDISSFLSSNCKELIAVSISNANNSNS  1300
1301  GFLEMISSVKETDLASLVFDSLTLAIPLAYTREGIRNDMFKKLSDILKDQ  1350
1351  YRLQMKEKVTTIIFEVIKFTDMSNEKYIRDLGPKNEVTLQLFKNNSQILE  1400
1401  TPGSVSISLHSSLDLIRGLVEKYSVNPKSFWQVNVLYFLFRHISIILHNS  1450
1451  VNVEQKLLCLRKFKLLIILGHKNIFSLQLANLLITTLSPFLKESDLHEDV  1500
1501  ANILSIFRIQKLGKYDESEFLPFIVKLVSCLVEVDGTITSINSRLLKTLE  1550
1551  EYVTLSNKNRKVHVILQASMNVLKSKPIELTSSDIEFFLNDEAELKLCTM  1600
1601  GVSNKHVMKLVSSIFMIVEFYDETRLHENVVKLLLNQKDTQQSKKFKLWS  1650
1651  AEYLANYYLNGGLNNKISHIVSLVENDTLLEDTFESDISSMDNILNEILR  1700
1701  YIVSDNLEIAACAESILGVLIWKFKTRKSDVQKFLNFDKHENDYASFIVP  1750
1751  LDFHSCILLNSNDDELRILGHSIKEIISNLGQSLEGISFETWTSRLFLSI  1800
1801  TQELAKFTSIAPLFSSFATKVDSFSKTVLPGFICYYLNTTGKEGASQVIK  1850
1851  LLSEFAKLRSYESDFIELLMQILLKIRIGAKKSIPIFMEVYSSLNINYFY  1900
1901  EIAAKHKYFKTALMLFEDDVSKHEKHIDWSSNSRLLSNIYESIDNEDLIF  1950
1951  GLPEETSLEYAINMINRRNETSDQLKFDSGLFDTNISFDLERRNTGILNS  2000
2001  MVRNGFLGVSKLVSKSLNNVDTNNASFEWAWKLNCWDIPCPREANEEHQL  2050
2051  IYKTLKQIHDYPSFASESCQESLLQTLHIKDAIINCCSSPKELRLNIERW  2100
2101  LISLTCISNIRDVLRYKESDFRISLHEFSQRTDWFEQADFDMSENILLAR  2150
2151  KAALQITGDLSSDCMSLKKESIWLCVLHDLIRYNSIAIIAKESQKSVNSI  2200
2201  VMINEISKTKFSESDHLLRDSISQLTKYQIARTLWQQGHTSIPVIMLKES  2250
2251  QQNEAINTSISSMNITPSLINANLVDWMSNSRQDLASNIMAKYVLPTADM  2300
2301  VTYVKELDQKAKVYEILANFCETQFRSLSLNDHVYKLEKSVDLKKSEIEE  2350
2351  LKSHYSRMPVAADEKKNAQRYYSKLKAQYIGELSDLNSLKGSICEFSDKA  2400
2401  VEFYLKSILTDGDNDENLDKFFALWLEHSNKDDLHVSISDNVLSLPNHKL  2450
2451  ISWSTQLISRLSSEPSKFQNLLKSLIVGLCYDHPYHSLYGLISLKKHESY  2500
2501  ANKSSNVLLISKSVAATDIWQQLLTRGDNKINEILLNIEKFCNESIKLAE  2550
2551  YKVSKGKSIQLDSLKIGNYWLQVLPHIPPPTINLPVDLSTRYNNVIYFDR  2600
2601  VVPKVSIATSGLSLPKIATFYLSNGSEHKVLLKHGTDDLRQDSIMEQVFE  2650
2651  KVNNIFRKDKETRKRELKVRTYNAVPLGPETGIIEFVPNSIALIDVIRPY  2700
2701  HSKIDTLKADKARDLMKTCQSEDKTERYKTYDKISKKISPVLKYFFFDNY  2750
2751  VAPDIWFDTRTSYTRGIATTSMVGHILGLGDRHCNNILLDKTSGEPIHID  2800
2801  LGVAFDQGKRLPIPETVPFRLTRDIVDGFGITGVNGVFDKSCEHTYRVLR  2850
2851  QNKDHILAILDVLRWDPLYSWSLSPIRRKKLQNEGDRNEVGNLKPQEDGS  2900
2901  EGGRAVLMVSDKLTAGGLSVEAIVRELVQEATSPHNLALIYCGWCPFY    2948

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.