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

NucPred

Fetching P35556 from www.uniprot.org...

The NucPred score for your sequence is 0.60 (see score help below)

   1  MGRRRRLCLQLYFLWLGCVVLWAQGTAGQPQPPPPKPPRPQPPPQQVRSA    50
  51  TAGSEGGFLAPEYREEGAAVASRVRRRGQQDVLRGPNVCGSRFHSYCCPG   100
 101  WKTLPGGNQCIVPICRNSCGDGFCSRPNMCTCSSGQISSTCGSKSIQQCS   150
 151  VRCMNGGTCADDHCQCQKGYIGTYCGQPVCENGCQNGGRCIGPNRCACVY   200
 201  GFTGPQCERDYRTGPCFTQVNNQMCQGQLTGIVCTKTLCCATIGRAWGHP   250
 251  CEMCPAQPQPCRRGFIPNIRTGACQDVDECQAIPGICQGGNCINTVGSFE   300
 301  CRCPAGHKQSETTQKCEDIDECSIIPGICETGECSNTVGSYFCVCPRGYV   350
 351  TSTDGSRCIDQRTGMCFSGLVNGRCAQELPGRMTKMQCCCEPGRCWGIGT   400
 401  IPEACPVRGSEEYRRLCMDGLPMGGIPGSAGSRPGGTGGNGFAPSGNGNG   450
 451  YGPGGTGFIPIPGGNGFSPGVGGAGVGAGGQGPIITGLTILNQTIDICKH   500
 501  HANLCLNGRCIPTVSSYRCECNMGYKQDANGDCIDVDECTSNPCTNGDCV   550
 551  NTPGSYYCKCHAGFQRTPTKQACIDIDECIQNGVLCKNGRCVNTDGSFQC   600
 601  ICNAGFELTTDGKNCVDHDECTTTNMCLNGMCINEDGSFKCICKPGFVLA   650
 651  PNGRYCTDVDECQTPGICMNGHCINSEGSFRCDCPPGLAVGMDGRVCVDT   700
 701  HMRSTCYGGIKKGVCVRPFPGAVTKSECCCANPDYGFGEPCQPCPAKNSA   750
 751  EFHGLCSSGVGITVDGRDINECALDPDICANGICENLRGSYRCNCNSGYE   800
 801  PDASGRNCIDIDECLVNRLLCDNGLCRNTPGSYSCTCPPGYVFRTETETC   850
 851  EDINECESNPCVNGACRNNLGSFNCECSPGSKLSSTGLICIDSLKGTCWL   900
 901  NIQDSRCEVNINGATLKSECCATLGAAWGSPCERCELDTACPRGLARIKG   950
 951  VTCEDVNECEVFPGVCPNGRCVNSKGSFHCECPEGLTLDGTGRVCLDIRM  1000
1001  EQCYLKWDEDECIHPVPGKFRMDACCCAVGAAWGTECEECPKPGTKEYET  1050
1051  LCPRGAGFANRGDVLTGRPFYKDINECKAFPGMCTYGKCRNTIGSFKCRC  1100
1101  NSGFALDMEERNCTDIDECRISPDLCGSGICVNTPGSFECECFEGYESGF  1150
1151  MMMKNCMDIDECERNPLLCRGGTCVNTEGSFQCDCPLGHELSPSREDCVD  1200
1201  INECSLSDNLCRNGKCVNMIGTYQCSCNPGYQATPDRQGCTDIDECMIMN  1250
1251  GGCDTQCTNSEGSYECSCSEGYALMPDGRSCADIDECENNPDICDGGQCT  1300
1301  NIPGEYRCLCYDGFMASMDMKTCIDVNECDLNSNICMFGECENTKGSFIC  1350
1351  HCQLGYSVKKGTTGCTDVDECEIGAHNCDMHASCLNIPGSFKCSCREGWI  1400
1401  GNGIKCIDLDECSNGTHQCSINAQCVNTPGSYRCACSEGFTGDGFTCSDV  1450
1451  DECAENINLCENGQCLNVPGAYRCECEMGFTPASDSRSCQDIDECSFQNI  1500
1501  CVFGTCNNLPGMFHCICDDGYELDRTGGNCTDIDECADPINCVNGLCVNT  1550
1551  PGRYECNCPPDFQLNPTGVGCVDNRVGNCYLKFGPRGDGSLSCNTEIGVG  1600
1601  VSRSSCCCSLGKAWGNPCETCPPVNSTEYYTLCPGGEGFRPNPITIILED  1650
1651  IDECQELPGLCQGGNCINTFGSFQCECPQGYYLSEDTRICEDIDECFAHP  1700
1701  GVCGPGTCYNTLGNYTCICPPEYMQVNGGHNCMDMRKSFCYRSYNGTTCE  1750
1751  NELPFNVTKRMCCCTYNVGKAWNKPCEPCPTPGTADFKTICGNIPGFTFD  1800
1801  IHTGKAVDIDECKEIPGICANGVCINQIGSFRCECPTGFSYNDLLLVCED  1850
1851  IDECSNGDNLCQRNADCINSPGSYRCECAAGFKLSPNGACVDRNECLEIP  1900
1901  NVCSHGLCVDLQGSYQCICHNGFKASQDQTMCMDVDECERHPCGNGTCKN  1950
1951  TVGSYNCLCYPGFELTHNNDCLDIDECSSFFGQVCRNGRCFNEIGSFKCL  2000
2001  CNEGYELTPDGKNCIDTNECVALPGSCSPGTCQNLEGSFRCICPPGYEVK  2050
2051  SENCIDINECDEDPNICLFGSCTNTPGGFQCLCPPGFVLSDNGRRCFDTR  2100
2101  QSFCFTNFENGKCSVPKAFNTTKAKCCCSKMPGEGWGDPCELCPKDDEVA  2150
2151  FQDLCPYGHGTVPSLHDTREDVNECLESPGICSNGQCINTDGSFRCECPM  2200
2201  GYNLDYTGVRCVDTDECSIGNPCGNGTCTNVIGSFECNCNEGFEPGPMMN  2250
2251  CEDINECAQNPLLCAFRCMNTFGSYECTCPIGYALREDQKMCKDLDECAE  2300
2301  GLHDCESRGMMCKNLIGTFMCICPPGMARRPDGEGCVDENECRTKPGICE  2350
2351  NGRCVNIIGSYRCECNEGFQSSSSGTECLDNRQGLCFAEVLQTICQMASS  2400
2401  SRNLVTKSECCCDGGRGWGHQCELCPLPGTAQYKKICPHGPGYTTDGRDI  2450
2451  DECKVMPNLCTNGQCINTMGSFRCFCKVGYTTDISGTSCIDLDECSQSPK  2500
2501  PCNYICKNTEGSYQCSCPRGYVLQEDGKTCKDLDECQTKQHNCQFLCVNT  2550
2551  LGGFTCKCPPGFTQHHTACIDNNECGSQPSLCGAKGICQNTPGSFSCECQ  2600
2601  RGFSLDATGLNCEDVDECDGNHRCQHGCQNILGGYRCGCPQGYIQHYQWN  2650
2651  QCVDENECSNPNACGSASCYNTLGSYKCACPSGFSFDQFSSACHDVNECS  2700
2701  SSKNPCNYGCSNTEGGYLCGCPPGYYRVGQGHCVSGMGFNKGQYLSLDTE  2750
2751  VDEENALSPEACYECKINGYSKKDSRQKRSIHEPDPTAVEQISLESVDMD  2800
2801  SPVNMKFNLSHLGSKEHILELRPAIQPLNNHIRYVISQGNDDSVFRIHQR  2850
2851  NGLSYLHTAKKKLMPGTYTLEITSIPLYKKKELKKLEESNEDDYLLGELG  2900
2901  EALRMRLQIQLY                                        2912

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.