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

NucPred

Fetching P49606 from www.uniprot.org...

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

   1  MLFTMQFTTRSTVASPEQQHQHQQRSISYSDIELGLERISSRDSNGSSNF    50
  51  THRAYPPPLSQQYDDTSTNSFHSSQPDITASSSTLSSRLVSANYSRPRFE   100
 101  HAHTQPPTPDQDRSSSGSGSGSGSRSYFPANSHSDSLPGPSTHSISPSFD   150
 151  EDELRQIMSHIPANQATSSSDGDVGKAVQSANHQDISPFLFQSENAAPFS   200
 201  SSHSNRTSVNPSAASTASPSTSAATRTRPRGGTNASQYNTLDTSFGSIDR   250
 251  PGLSSSRSQYSLRPQTPPSASTSTSTLNGSKDTHASAVKKTRNPFGFLKK   300
 301  KSSAHSNASSNHPTRHDIGSVSSLSSRYGPNAAANVNPMRPPAWLDNHCT   350
 351  LANSNSPSSASLRSHYHQPPASSNPPPWQNPLVSRADSTPSAMSLEDEVE   400
 401  AEHHLKKDPRKRIKGVRHHLAKTTKPGEDADSARDPAFAAQSQSIEQEVE   450
 451  LSLDMNFDQLDDFVDTNAARQRLQGSITESASPSEHRSPNGSEAGVYRSP   500
 501  SPSQTPIAERQTSVTSTVESPSHASEASLAPSGSLRTPSRTTASTSTSSA   550
 551  STVLSDRLPSQVNMLPRNSVPRLSLAEMQNYQSLRKLSNNLIDMSQTQNP   600
 601  SAMGASYRRGSIAAAQAPVDAPQLGVAPRTDSELSDRKDSVVSTHSMRSN   650
 651  HSGISPKTSYANLPSVIQERQKPATALPSAANWTSSITRDKTANGHADHA   700
 701  YQFPPATEYQSNLLLSVRKSSASSGQEPSSSWMAPDSWAVQPDKMRDYLR   750
 751  DDNVGEEEDDDDDQHQARAALATDGKRRGSSSGISSTHASSMFRTSSTDP   800
 801  FKKTASLAGSRRGTDDSVDPLTALPPLPGSKSVDEAAANKVDVLQQTNNL   850
 851  AQSALVQQQSQSQNHHQPSPNVRPTSRGGAGAHMFASAGASAAAAAAGKL   900
 901  GLHRPSKHRMNARPNTAGSVGATRPSTTTLGSTLSAEDDTSINGSIRRDG   950
 951  HPLKRSATANTNNATGTLPRNHFIRVYKTDGTFATLSCSLVSTANEVQTI  1000
1001  LARKSLTTESAAYRLFVRDKGSERPLGISDKPSQLQRRRLIQAGYTENDG  1050
1051  LEDMGRDDLSYLLRFVFRPDSVPTFDSESIGHSEHTFQHLDLHSRNLEMV  1100
1101  PIFLYKHADWIVSLDLSGNPMSDLPLDFVQLCSSLRTLRLSNLALKRIPQ  1150
1151  SVRHSETLTHLDVSNNRIVELAHVSLDLIPELMSLKVQNNRLFDLPSYFS  1200
1201  SISTLRNLNISNNRFEEFPKVICDVPSLVDLDVSFNSITELPAEIANLIN  1250
1251  LERFILAGNELEKLPDSMSELVSLRTIDLRRNKVQDVSSLLGLPRLQNIQ  1300
1301  AESNNIKSFEATLGPQLTQVELGRNPLSKVRIAALTTCDLTSLDLSSTNM  1350
1351  TRLEEGLFPQLPALVKLTLDGNQLVVLPDTLGDLKRLEMLSCSNNLLATL  1400
1401  PESIGDLKALKELLVHNNNLKTLPQTLWLCESLAHINLSSNLLESFPAVP  1450
1451  DIRTDASVGDAAAAAGTSAVIAARKGSTSSSLTHRSNTGGANGNINLSTP  1500
1501  SEVFVAPLSLSLQKLRLGDNRLGDDVFSVLSELTSLEVLNLSFNEIFEIP  1550
1551  DFSLQTLTKLRELYISGNQLSTIPSDDLVVLQELRILHLNCNKLTTLPTE  1600
1601  LGKLKKLANLDVGNNVLKYNIANWHYDWNWNMNPELRYLNLSGNTRLEIK  1650
1651  TKLSDMGFTRKSNISDFSRLTSLRMLGLMDVTMPLHSNATPDESDNRRVR  1700
1701  TSLSQVNGMAYGIADALGKHDNLSVIDLVIPTFRKDEGECIFGLFDGRGH  1750
1751  GAHVGSRIAHHLAEWSGHRLSWEFQKHQNEMTAEPVSVPDALRRAFLRLQ  1800
1801  KDYADALINDGSRKLSEAHAEAAADVTRSSAPAIAAASNKHDWRAGASAI  1850
1851  LAYVVDHTLYIANAGDALAVMSRNGGTAHLISNKHEPFDRAEIERIRSAE  1900
1901  GWVSLRGYVNDMLDVSRSFGYFHLFPIVNAAPAVTTVQLTDSDEFVIIAN  1950
1951  RTLWQYVSYQTAVDIARTQRNDPMIAAQKLRDFAISYGAEESIMVMVISV  2000
2001  GDLFYRSDQRNGGGLNFASYKNSDAIQKAGRRFREELPGDRTLARLDREV  2050
2051  APPIGQVALVFTDIKNSTSLWETNNGMQTAMRLHNYLLRRQLRTIGGYEV  2100
2101  KTEGDAFMVSFPSVSAALLWCFTVQQQLLQEDWPREILDSEDGKEVYDQS  2150
2151  GELIHRGLSVRMGIHWGRPVCEADPITRRMDYFGPMVNRAARISGAADGG  2200
2201  QILASKDVIKELQGLLGTFDESSTAGGAGGEGENLEKTEEELDEDAFRLL  2250
2251  NPNVSRDVVLLRRMGFGLSQLGERRLKGLETPEMLWLVYPKQLAGRLEQA  2300
2301  KTDDAPDAPTAQVYEPTVQLLDIEDVKQVGMLCLRLEYLSNSTVCPGIFA  2350
2351  AKDEADRSQPSTPLDDNGRNPIDGHGTAVPLLSHQARRKGVEAMLTMHPE  2400
2401  LLIYSIRDDATDEELAGILDQLTTRIQNAVSSLMLNMLRDKTANGTKELG  2450
2451  VDPGVLELLMGLLSQPPPRASTSALSLPSPRTSPRNRLLELVP         2493

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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