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

NucPred

Fetching P13395 from www.uniprot.org...

The NucPred score for your sequence is 0.94 (see score help below)

   1  MENFTPKEVKILETVEDIQERREQVLSRYNDFKIETRQKREKLEDSRRFQ    50
  51  YFKRDADELESWIHEKLQAASEESYRDPTNLQAKIQKHQAFEAEVSAHSN   100
 101  AIVSLDNTGQEMINQQHFASESIQVRLDELHKLWELLLSRLAEKGLKLQQ   150
 151  ALVLVQFLRQCEEVMFWIKDKETFVTADEFGQDLEHVEVLQRKFDEFQKD   200
 201  MASQEYRVTEVNQLADKLVQDGHPERDTITKRKEELNEAWQRLKQLAIVR   250
 251  QEKLFGAHEIQRFNRDADETVAWIAEKDVVLSSDDYGRDLASVQALQRKH   300
 301  EGVERDLAALEDKVSTLGAEAQRLCSIHADHSDQIRDKQAEIANYWQSLT   350
 351  TKARERKQKLDESYYLHRFLADFRDLVSWINGMKAIISADELAKDVAGAE   400
 401  ALLERHQEHKGEIDAREDSFKLTTESGQKLLEREHYAAAEIQEKLAALEN   450
 451  DKSSLLSLWEDRRILYEQCMDLQLFYRDTEQADTWMAKQEAFLANEDLGD   500
 501  SLDSVEALIKKHEDFEKSLAAQEEKIKALDIFATKLIDGQHYAADDVAQR   550
 551  RQMLLARRAALQEKSSKRRQLLEDSNRYQQFERDCDETKGWISEKLKFAT   600
 601  DDSYLDPTNLNGKMQKHQNFEHELNANKSRIEDITNVGTELIEKQHYAAD   650
 651  QINTRMQEIVVLWETLVQASDKKGTKLNEACQQQQFNRTIEDIELWLSEI   700
 701  EGQLLSEDHGKDLTSVQNLQKKHALLEADVMAHQDRIESIKVAANKFIES   750
 751  GHFDADNIRNKEGNLSARYAALAAPMGERKQHLLDSLQVQQLFRDLEDEA   800
 801  AWIREKEPIAASTNRGRDLIGVQNLIKKHQAVLAEINNHEARLLNVISSG   850
 851  ENMLKDQPFASDDIRQRLEALQEQWNTLKEKSSQRKQDLDDSLQAHQYFA   900
 901  DANEAESWMREKEPIATGSDYGKDEDSSEALLKKHEALVSDLEAFGNTIQ   950
 951  ALQEQAKNCRQQETPVVDITGKECVVALYDYTEKSPREVSMKKGDVLTLL  1000
1001  NSNNKDWWKVEVNDRQGFVPAAYIKKIDAGLSASQQNLVDNHSIAKRQNQ  1050
1051  INSQYDNLLALARERQNKLNETVKAYVLVREAADLAQWIRDKENHAQIAD  1100
1101  VVGEDLEEVEVLQKKFDDFNDDLKANEVRLANMNEIAVQLTSLGQTEAAL  1150
1151  KIQTQMQDLNEKWNNLQTLTAEKASQLGSAHEVQRFHRDIDETKDWIAEK  1200
1201  ANALNNDDLGKDLRSVQTLQRKHEGVERDLAALRDKIRQLDETANRLMQS  1250
1251  HPDTAEQTYAKQKEINEMWDQIITKSTARKEKLLDSYDLQRFLSDYRDLL  1300
1301  AWINSMMSLVTSDELANDVTGAEALIERHQEHRTEIDARAGTFGAFEQFG  1350
1351  NELLQANHYASPEIKEKIEDLAKAREDLEKAWTERRLQLEQNLDLQLYMR  1400
1401  DCELAESWMSAREAFLNADDDANAGGNVEALIKKHEDFDKAINGHEQKIA  1450
1451  ALQTVADQLIAQNHYASNLVDEKRKQVLERWRHLKEGLIEKRSRLGDEQT  1500
1501  LQQFSRDADEIENWIAEKLQLATEESYKDPANIQSKHQKHQAFEAELAAN  1550
1551  ADRIQSVLAMGGNLIDKKQCSGSEDAVQKRLTQIADQWEYLTHKTTEKSL  1600
1601  KLKEANKQRTYIAAVKDLDFWLGEVESLLTTEDSGKDLASVQNLMKKHQL  1650
1651  VEADIVAHEDRIKDMNNQADSLVESGQFDTAGIQEKRQSINERYERICNL  1700
1701  AAHRQARLNEALTLHQFFRDIADEESWIKEKKLLVGSDDYGRDLTGVQNL  1750
1751  KKKHKRLEAELGSHEPAIQAVQEAGEKLMDVSNLGVPEIEQRLKALNQAW  1800
1801  AELKNLAATRGQKLDESLTYQQFLAQVEEEEAWITEKQQLLSVEDYGDSM  1850
1851  AAVQGLLKKHDAFETDFTAHKDRCSLICDQGSELVEAKNHHGESIAQRCQ  1900
1901  QLRLKLDNLSALAARRKGALLDNSAYLQFMWKADVVESWIDDKENYVRSD  1950
1951  EFGRDLSTVQTLLTKQETFDAGLNAFEQEGIHNITALKDQLINASHAQSP  2000
2001  AILKRHGDVIARWQKLRDASNTRKDRLLAMQEQFRQIEELYLTFAKKASA  2050
2051  FNSWFENAEEDLTDPVRCNSIEEIRALRDAHAQFQASLSSAEADFKALAA  2100
2101  LDQKIKSFNVGPNPYTWFTMEALEETWRNLQKIIEERDGELAKEAKRQEE  2150
2151  NDKLRKEFAKHANLFHQWLTETRTSMMEGSGSLEQQLEALRVKATEVRAR  2200
2201  RVDLKKIEELGALLEEHLILDNRYTEHSTVGLAQQWDQLDQLSMRMQHNL  2250
2251  EQQIQARNHSGVSEDSLKEFSMMFKHFDKDKSGKLNHQEFKSCLRALGYD  2300
2301  LPMVEEGQPDPEFEAILDVVDPNRDGYVSLQEYIAFMISKETENVQSYEE  2350
2351  IENAFRAITAADRPYVTKEELYCNLTKDMADYCVQRMKPFSEPRSGQPIK  2400
2401  DALDYIDFTRTLFQN                                     2415

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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