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

NucPred

Fetching P21783 from www.uniprot.org...

The NucPred score for your sequence is 0.82 (see score help below)

   1  MDRIGLAVLLCSLPVLTQGLRCTQTAEMCLNGGRCEMTPGGTGVCLCGNL    50
  51  YFGERCQFPNPCTIKNQCMNFGTCEPVLQGNAIDFICHCPVGFTDKVCLT   100
 101  PVDNACVNNPCRNGGTCELLNSVTEYKCRCPPGWTGDSCQQADPCASNPC   150
 151  ANGGKCLPFEIQYICKCPPGFHGATCKQDINECSQNPCKNGGQCINEFGS   200
 201  YRCTCQNRFTGRNCDEPYVPCNPSPCLNGGTCRQTDDTSYDCTCLPGFSG   250
 251  QNCEENIDDCPSNNCRNGGTCVDGVNTYNCQCPPDWTGQYCTEDVDECQL   300
 301  MPNACQNGGTCHNTYGGYNCVCVNGWTGEDCSENIDDCANAACHSGATCH   350
 351  DRVASFYCECPHGRTGLLCHLDNACISNPCNEGSNCDTNPVNGKAICTCP   400
 401  PGYTGPACNNDVDECSLGANPCEHGGRCTNTLGSFQCNCPQGYAGPRCEI   450
 451  DVNECLSNPCQNDSTCLDQIGEFQCICMPGYEGLYCETNIDECASNPCLH   500
 501  NGKCIDKINEFRCDCPTGFSGNLCQHDFDECTSTPCKNGAKCLDGPNSYT   550
 551  CQCTEGFTGRHCEQDINECIPDPCHYGTCKDGIATFTCLCRPGYTGRLCD   600
 601  NDINECLSKPCLNGGQCTDRENGYICTCPKGTTGVNCETKIDDCASNLCD   650
 651  NGKCIDKIDGYECTCEPGYTGKLCNININECDSNPCRNGGTCKDQINGFT   700
 701  CVCPDGYHDHMCLSEVNECNSNPCIHGACHDGVNGYKCDCEAGWSGSNCD   750
 751  INNNECESNPCMNGGTCKDMTGAYICTCKAGFSGPNCQTNINECSSNPCL   800
 801  NHGTCIDDVAGYKCNCMLPYTGAICEAVLAPCAGSPCKNGGRCKESEDFE   850
 851  TFSCECPPGWQGQTCEIDMNECVNRPCRNGATCQNTNGSYKCNCKPGYTG   900
 901  RNCEMDIDDCQPNPCHNGGSCSDGINMFFCNCPAGFRGPKCEEDINECAS   950
 951  NPCKNGANCTDCVNSYTCTCQPGFSGIHCESNTPDCTESSCFNGGTCIDG  1000
1001  INTFTCQCPPGFTGSYCQHDINECDSKPCLNGGTCQDSYGTYKCTCPQGY  1050
1051  TGLNCQNLVRWCDSSPCKNGGKCWQTNNFYRCECKSGWTGVYCDVPSVSC  1100
1101  EVAAKQQGVDIVHLCRNSGMCVDTGNTHFCRCQAGYTGSYCEEQVDECSP  1150
1151  NPCQNGATCTDYLGGYSCECVAGYHGVNCSEEINECLSHPCQNGGTCIDL  1200
1201  INTYKCSCPRGTQGVHCEINVDDCTPFYDSFTLEPKCFNNGKCIDRVGGY  1250
1251  NCICPPGFVGERCEGDVNECLSNPCDSRGTQNCIQLVNDYRCECRQGFTG  1300
1301  RRCESVVDGCKGMPCRNGGTCAVASNTERGFICKCPPGFDGATCEYDSRT  1350
1351  CSNLRCQNGGTCISVLTSSKCVCSEGYTGATCQYPVISPCASHPCYNGGT  1400
1401  CQFFAEEPFFQCFCPKNFNGLFCHILDYEFPGGLGKNITPPDNDDICENE  1450
1451  QCSELADNKVCNANCNNHACGWDGGDCSLNFNDPWKNCTQSLQCWKYFND  1500
1501  GKCDSQCNNTGCLYDGFDCQKVEVQCNPLYDQYCKDHFQDGHCDQGCNNA  1550
1551  ECEWDGLDCANMPENLAEGTLVLVVLMPPERLKNNSVNFLRELSRVLHTN  1600
1601  VVFKKDSKGEYKIYPYYGNEEELKKHHIKRSTDYWSDAPSAIFSTMKESI  1650
1651  LLGRHRRELDEMEVRGSIVYLEIDNRQCYKSSSQCFNSATDVAAFLGALA  1700
1701  SLGSLDTLSYKIEAVKSENMETPKPSTLYPMLSMLVIPLLIIFVFMMVIV  1750
1751  NKKRRREHGQLWFPDGFIPKEPSKKKRRDRLGEDSVGLKPIKNMTDGSFM  1800
1801  DDNQNEWGDEETLENKRFRFEEQVILPELVDDKTDPRQWTRQHLDAADLR  1850
1851  ISSMAPTPPQGEIEADCMDVNVRGPDGFTPLMIASCSGGGLETGNSEEEE  1900
1901  DASANMISDFIGQGAQLHNQTDRTGETALHLAARYARADAAKRLLESSAD  1950
1951  ANVQDNMGRTPLHAAVAADAQGVFQILIRNRATDLDARMFDGTTPLILAA  2000
2001  RLAVEGMVEELINAHADVNAVDEFGKSALHWAAAVNNVDAAAVLLKNSAN  2050
2051  KDMQNNKEETSLFLAAREGSYETAKVLLDHYANRDITDHMDRLPRDIAQE  2100
2101  RMHHDIVHLLDEYNLVKSPTLHNGPLGATTLSPPICSPNGYMGNMKPSVQ  2150
2151  SKKARKPSIKGNGCKEAKELKARRKKSQDGKTTLLDSGSSGVLSPVDSLE  2200
2201  STHGYLSDVSSPPLMTSPFQQSPSMPLNHLTSMPESQLGMNHINMATKQE  2250
2251  MAAGSNRMAFDAMVPRLTHLNASSPNTIMSNGSMHFTVGGAPTMNSQCDW  2300
2301  LARLQNGMVQNQYDPIRNGIQQGNAQQAQALQHGLMTSLHNGLPATTLSQ  2350
2351  MMTYQAMPNTRLANQPHLMQAQQMQQQQNLQLHQSMQQQHHNSSTTSTHI  2400
2401  NSPFCSSDISQTDLQQMSSNNIHSVMPQDTQIFAASLPSNLTQSMTTAQF  2450
2451  LTPPSQHSYSSPMDNTPSHQLQVPDHPFLTPSPESPDQWSSSSPHSNMSD  2500
2501  WSEGISSPPTSMQPQRTHIPEAFK                            2524

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.