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

NucPred

Fetching O01510 from www.uniprot.org...

The NucPred score for your sequence is 0.87 (see score help below)

   1  MITSRNNDIGNLIEQFRQRDTPQKERKAILARIEEILQTTKNVESLCVKW    50
  51  TYLLDNLCWPSLTKHDRNDMKTLAGKVIRLVGVLLFDTESYPEFLIYLGT   100
 101  LYQSVTKKSEETRADIVFSVYFIVGVISQKTENRLIATDTENVEKSLDWI   150
 151  IKVLPNSSISVYNHCLKGFVLVANTFPNVYAAMFESTLRAILTNLPDFNS   200
 201  HEKNFELLIDTVMRFSDQLNEKPHLAEEMVRIIRPDIKKNGLGNMRELKK   250
 251  RMKLTMALVKMAKSQKMLEETNQMISEMSIELEENGGKWSSASLITIVCD   300
 301  VFNELLILGKDDVKLQKGVEESLCNVLKDLNLSNQSTMEKQAFFNSLAKI   350
 351  VKQLPAESQVKTRVHQIVFNTETGLFTPKNRDNRMFGHNMIYKDLINLVS   400
 401  VLLTPTSLNHLQATYTDLRKIMIDSMSRLKQSEDTPYSDNIRWNESILLL   450
 451  FFSSLQSISCAKSSLIVMMGIRPSIFEFFSSELPLTEYWLASNHPEVYHL   500
 501  FITIFVGHLKAHDFYIVQSDYIVRGDSIGQSIGQTKRDYARKQVVALQKI   550
 551  INNFGDKLWKKTRLMISSWLHSLIATACEHQIGSDSFSQREWVRLRNTVI   600
 601  HQSVLTWNNECVNQALTILSTATKWSELTSDIHRDIADKTKKAKWKEATT   650
 651  IWESGDCNTYIRQSMSTVYQMSQERQQKTITSTSFGAEEFIIITNFLLKQ   700
 701  ATPTTFKKGQNSWMDEVLETFTQGCRTLEKPDSYVPETFIEKWDWIINQT   750
 751  ANFCIVNKMKTPLGKPMQTFAAFENEIKRLAKEVIVRKNSDKKLNKSSTE   800
 801  DPNQSPPLKYSVQWLRVHLLLKLIVVLEKLMNSAIHGGSSVFNLTEIPVS   850
 851  SRQFFTVNAASCEVWLNRVYYPALLVAYFNGYYGLVIRFGSNALSHFARQ   900
 901  KDGDNDKKIVNGVCTASLMSLSMAVLGEPMEIVGLRRKVREEFGTDMGQS   950
 951  LMEALGEMANARYETALVALEAVLVTDAATNETLKMIIQLAMVDILNRIR  1000
1001  LPQATDYYKVVLFGEESNDSTITEDFRSVELLTKFEKLNNTVNEKRQVVD  1050
1051  WSARERFQFVESAFSQTMRRTELLDIQKDFSAMGALALSADSSCKLYSDI  1100
1101  SSTSLIIANLVNKMTGVSQWKNKLTDTEIFDRNEEGNDGDKLAICRKLMH  1150
1151  WGRHTKSNRGQSCAAHSEIIRLSRKTSNCELAFFHINSAIRGEKLAAWQR  1200
1201  LEVERQRLKLVKTQNLDVRIREMNEVFGSLAEVFTTSCQLKSDFQMVDGM  1250
1251  IKEKMISEGYNEDIAKREEHMSRASIQLADFFQSLPELENVLAPNLFPTI  1300
1301  IWSELQRRSDSLSAGYHGIVGSLFHLASEMCPSLAKAHLKMARWAYEIAK  1350
1351  IKNFPAENLSFYKFGKDETENEELLKSLEATSLVNLEKLVRAAISDDLRA  1400
1401  NNILAPNSHFMHIWKMVRDHRTKFLSIAVTSYFQFIQNMSGDCDNLPYSK  1450
1451  KEETTLATLRILELLVKHGDVLIDVINDGLNKTNVHIWKEILPQLFARLS  1500
1501  HPSEHIRKTLVDLISKICTAAPHAVVFQVVSGAASSSTDGEELEEQQNDD  1550
1551  RNRVRACCEKLETNMSQSYPNLVKDVRQFVAELERINLLNEEKWSVVMGT  1600
1601  MEHEMEKRLSLIRTENAKTESALHLTASVKNDIIVKRTQLLTRQIFDVLD  1650
1651  ELYQQTVIEPPKSKNEEEFVTAFAEVLTNAFQESRISRTTSPEKSWIPFK  1700
1701  NLIANFVHRNSKKGMQTFETEDISPYLASLSNSCVPMPGQESVEFDRVVS  1750
1751  ISRVARQVTILPTKTRPKKLGFVGSDGKQVAFLFKGREDLHLDERVMQFL  1800
1801  RLCNVMLQPGKGKHRQSVAAYQAHHYAVIPLGPRSGLIKWVEGATPMFHI  1850
1851  YRKWQMKEKALKQATKKNGETVPEIERPSNMYHNMIRLAFADHKIDSSIT  1900
1901  SDRSKWPAEILEEVFESLTAKTPTDLISRELWMRANDATTWWSVTKRYSR  1950
1951  SLAVMSMVGSVLGLGDRHLDNLLVDLKWGHVVHIDYNICFDKGKNLRIPE  2000
2001  TVPFRLTRNMRHALGPSEMYGTFRESCVHVLSTLRSGHQVLTMLLDAFVF  2050
2051  DPLVDWTSHEHTATSGVSLALQLAVYGSNWKTKAKERLTDAMELLNLRMS  2100
2101  EVQTLWLANRDDLLHWMKQVTECLLIENSMLGANAIYAQQRVKAGTELRE  2150
2151  AVTRHHALAKELRPLIRVIGKEREEFADYLKFYKQALFDPLLKGHSALRN  2200
2201  ELDIDTCVYNFNIVMQNIDNVFGALVNLSFTPIETITSRTSQQEFKPPPG  2250
2251  LENVWVVKQDQQENSQAREVVRRVERRLNGWLDGSAGPDRKLSPREEADI  2300
2301  LIAEATSTPNLSQMYEGWTAWV                              2322

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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