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

NucPred

Fetching O00468 from www.uniprot.org...

The NucPred score for your sequence is 0.39 (see score help below)

   1  MAGRSHPGPLRPLLPLLVVAACVLPGAGGTCPERALERREEEANVVLTGT    50
  51  VEEILNVDPVQHTYSCKVRVWRYLKGKDLVARESLLDGGNKVVISGFGDP   100
 101  LICDNQVSTGDTRIFFVNPAPPYLWPAHKNELMLNSSLMRITLRNLEEVE   150
 151  FCVEDKPGTHFTPVPPTPPDACRGMLCGFGAVCEPNAEGPGRASCVCKKS   200
 201  PCPSVVAPVCGSDASTYSNECELQRAQCSQQRRIRLLSRGPCGSRDPCSN   250
 251  VTCSFGSTCARSADGLTASCLCPATCRGAPEGTVCGSDGADYPGECQLLR   300
 301  RACARQENVFKKFDGPCDPCQGALPDPSRSCRVNPRTRRPEMLLRPESCP   350
 351  ARQAPVCGDDGVTYENDCVMGRSGAARGLLLQKVRSGQCQGRDQCPEPCR   400
 401  FNAVCLSRRGRPRCSCDRVTCDGAYRPVCAQDGRTYDSDCWRQQAECRQQ   450
 451  RAIPSKHQGPCDQAPSPCLGVQCAFGATCAVKNGQAACECLQACSSLYDP   500
 501  VCGSDGVTYGSACELEATACTLGREIQVARKGPCDRCGQCRFGALCEAET   550
 551  GRCVCPSECVALAQPVCGSDGHTYPSECMLHVHACTHQISLHVASAGPCE   600
 601  TCGDAVCAFGAVCSAGQCVCPRCEHPPPGPVCGSDGVTYGSACELREAAC   650
 651  LQQTQIEEARAGPCEQAECGSGGSGSGEDGDCEQELCRQRGGIWDEDSED   700
 701  GPCVCDFSCQSVPGSPVCGSDGVTYSTECELKKARCESQRGLYVAAQGAC   750
 751  RGPTFAPLPPVAPLHCAQTPYGCCQDNITAARGVGLAGCPSACQCNPHGS   800
 801  YGGTCDPATGQCSCRPGVGGLRCDRCEPGFWNFRGIVTDGRSGCTPCSCD   850
 851  PQGAVRDDCEQMTGLCSCKPGVAGPKCGQCPDGRALGPAGCEADASAPAT   900
 901  CAEMRCEFGARCVEESGSAHCVCPMLTCPEANATKVCGSDGVTYGNECQL   950
 951  KTIACRQGLQISIQSLGPCQEAVAPSTHPTSASVTVTTPGLLLSQALPAP  1000
1001  PGALPLAPSSTAHSQTTPPPSSRPRTTASVPRTTVWPVLTVPPTAPSPAP  1050
1051  SLVASAFGESGSTDGSSDEELSGDQEASGGGSGGLEPLEGSSVATPGPPV  1100
1101  ERASCYNSALGCCSDGKTPSLDAEGSNCPATKVFQGVLELEGVEGQELFY  1150
1151  TPEMADPKSELFGETARSIESTLDDLFRNSDVKKDFRSVRLRDLGPGKSV  1200
1201  RAIVDVHFDPTTAFRAPDVARALLRQIQVSRRRSLGVRRPLQEHVRFMDF  1250
1251  DWFPAFITGATSGAIAAGATARATTASRLPSSAVTPRAPHPSHTSQPVAK  1300
1301  TTAAPTTRRPPTTAPSRVPGRRPPAPQQPPKPCDSQPCFHGGTCQDWALG  1350
1351  GGFTCSCPAGRGGAVCEKVLGAPVPAFEGRSFLAFPTLRAYHTLRLALEF  1400
1401  RALEPQGLLLYNGNARGKDFLALALLDGRVQLRFDTGSGPAVLTSAVPVE  1450
1451  PGQWHRLELSRHWRRGTLSVDGETPVLGESPSGTDGLNLDTDLFVGGVPE  1500
1501  DQAAVALERTFVGAGLRGCIRLLDVNNQRLELGIGPGAATRGSGVGECGD  1550
1551  HPCLPNPCHGGAPCQNLEAGRFHCQCPPGRVGPTCADEKSPCQPNPCHGA  1600
1601  APCRVLPEGGAQCECPLGREGTFCQTASGQDGSGPFLADFNGFSHLELRG  1650
1651  LHTFARDLGEKMALEVVFLARGPSGLLLYNGQKTDGKGDFVSLALRDRRL  1700
1701  EFRYDLGKGAAVIRSREPVTLGAWTRVSLERNGRKGALRVGDGPRVLGES  1750
1751  PKSRKVPHTVLNLKEPLYVGGAPDFSKLARAAAVSSGFDGAIQLVSLGGR  1800
1801  QLLTPEHVLRQVDVTSFAGHPCTRASGHPCLNGASCVPREAAYVCLCPGG  1850
1851  FSGPHCEKGLVEKSAGDVDTLAFDGRTFVEYLNAVTESELANEIPVPETL  1900
1901  DSGALHSEKALQSNHFELSLRTEATQGLVLWSGKATERADYVALAIVDGH  1950
1951  LQLSYNLGSQPVVLRSTVPVNTNRWLRVVAHREQREGSLQVGNEAPVTGS  2000
2001  SPLGATQLDTDGALWLGGLPELPVGPALPKAYGTGFVGCLRDVVVGRHPL  2050
2051  HLLEDAVTKPELRPCPTP                                  2068

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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