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

NucPred

Fetching Q8NF50 from www.uniprot.org...

The NucPred score for your sequence is 0.93 (see score help below)

   1  MATLPSAERRAFALKINRYSSAEIRKQFTLPPNLGQYHRQSISTSGFPSL    50
  51  QLPQFYDPVEPVDFEGLLMTHLNSLDVQLAQELGDFTDDDLDVVFTPKEC   100
 101  RTLQPSLPEEGVELDPHVRDCVQTYIREWLIVNRKNQGSPEICGFKKTGS   150
 151  RKDFHKTLPKQTFESETLECSEPAAQAGPRHLNVLCDVSGKGPVTACDFD   200
 201  LRSLQPDKRLENLLQQVSAEDFEKQNEEARRTNRQAELFALYPSVDEEDA   250
 251  VEIRPVPECPKEHLGNRILVKLLTLKFEIEIEPLFASIALYDVKERKKIS   300
 301  ENFHCDLNSDQFKGFLRAHTPSVAASSQARSAVFSVTYPSSDIYLVVKIE   350
 351  KVLQQGEIGDCAEPYTVIKESDGGKSKEKIEKLKLQAESFCQRLGKYRMP   400
 401  FAWAPISLSSFFNVSTLEREVTDVDSVVGRSSVGERRTLAQSRRLSERAL   450
 451  SLEENGVGSNFKTSTLSVSSFFKQEGDRLSDEDLFKFLADYKRSSSLQRR   500
 501  VKSIPGLLRLEISTAPEIINCCLTPEMLPVKPFPENRTRPHKEILEFPTR   550
 551  EVYVPHTVYRNLLYVYPQRLNFVNKLASARNITIKIQFMCGEDASNAMPV   600
 601  IFGKSSGPEFLQEVYTAVTYHNKSPDFYEEVKIKLPAKLTVNHHLLFTFY   650
 651  HISCQQKQGASVETLLGYSWLPILLNERLQTGSYCLPVALEKLPPNYSMH   700
 701  SAEKVPLQNPPIKWAEGHKGVFNIEVQAVSSVHTQDNHLEKFFTLCHSLE   750
 751  SQVTFPIRVLDQKISEMALEHELKLSIICLNSSRLEPLVLFLHLVLDKLF   800
 801  QLSVQPMVIAGQTANFSQFAFESVVAIANSLHNSKDLSKDQHGRNCLLAS   850
 851  YVHYVFRLPEVQRDVPKSGAPTALLDPRSYHTYGRTSAAAVSSKLLQARV   900
 901  MSSSNPDLAGTHSAADEEVKNIMSSKIADRNCSRMSYYCSGSSDAPSSPA   950
 951  APRPASKKHFHEELALQMVVSTGMVRETVFKYAWFFFELLVKSMAQHVHN  1000
1001  MDKRDSFRRTRFSDRFMDDITTIVNVVTSEIAALLVKPQKENEQAEKMNI  1050
1051  SLAFFLYDLLSLMDRGFVFNLIRHYCSQLSAKLSNLPTLISMRLEFLRIL  1100
1101  CSHEHYLNLNLFFMNADTAPTSPCPSISSQNSSSCSSFQDQKIASMFDLT  1150
1151  SEYRQQHFLTGLLFTELAAALDAEGEGISKVQRKAVSAIHSLLSSHDLDP  1200
1201  RCVKPEVKVKIAALYLPLVGIILDALPQLCDFTVADTRRYRTSGSDEEQE  1250
1251  GAGAINQNVALAIAGNNFNLKTSGIVLSSLPYKQYNMLNADTTRNLMICF  1300
1301  LWIMKNADQSLIRKWIADLPSTQLNRILDLLFICVLCFEYKGKQSSDKVS  1350
1351  TQVLQKSRDVKARLEEALLRGEGARGEMMRRRAPGNDRFPGLNENLRWKK  1400
1401  EQTHWRQANEKLDKTKAELDQEALISGNLATEAHLIILDMQENIIQASSA  1450
1451  LDCKDSLLGGVLRVLVNSLNCDQSTTYLTHCFATLRALIAKFGDLLFEEE  1500
1501  VEQCFDLCHQVLHHCSSSMDVTRSQACATLYLLMRFSFGATSNFARVKMQ  1550
1551  VTMSLASLVGRAPDFNEEHLRRSLRTILAYSEEDTAMQMTPFPTQVEELL  1600
1601  CNLNSILYDTVKMREFQEDPEMLMDLMYRIAKSYQASPDLRLTWLQNMAE  1650
1651  KHTKKKCYTEAAMCLVHAAALVAEYLSMLEDHSYLPVGSVSFQNISSNVL  1700
1701  EESVVSEDTLSPDEDGVCAGQYFTESGLVGLLEQAAELFSTGGLYETVNE  1750
1751  VYKLVIPILEAHREFRKLTLTHSKLQRAFDSIVNKDHKRMFGTYFRVGFF  1800
1801  GSKFGDLDEQEFVYKEPAITKLPEISHRLEAFYGQCFGAEFVEVIKDSTP  1850
1851  VDKTKLDPNKAYIQITFVEPYFDEYEMKDRVTYFEKNFNLRRFMYTTPFT  1900
1901  LEGRPRGELHEQYRRNTVLTTMHAFPYIKTRISVIQKEEFVLTPIEVAIE  1950
1951  DMKKKTLQLAVAINQEPPDAKMLQMVLQGSVGATVNQGPLEVAQVFLAEI  2000
2001  PADPKLYRHHNKLRLCFKEFIMRCGEAVEKNKRLITADQREYQQELKKNY  2050
2051  NKLKENLRPMIERKIPELYKPIFRVESQKRDSFHRSSFRKCETQLSQGS   2099

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.