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

NucPred

Fetching Q9Z0Y8 from www.uniprot.org...

The NucPred score for your sequence is 0.67 (see score help below)

   1  MADSNLPPSSAAAPAPEPGITEQPGPRSPPPSPPGLEEPLEGTNPDVPHP    50
  51  DLAPVAFFCLRQTTSPRNWCIKMVCNPWFECVSMLVILLNCVTLGMYQPC   100
 101  DDMECLSDRCKILQVFDDFIFIFFAMEMVLKMVALGIFGKKCYLGDTWNR   150
 151  LDFFIVMAGMVEYSLDLQNINLSAIRTVRVLRPLKAINRVPSMRILVNLL   200
 201  LDTLPMLGNVLLLCFFVFFIFGIIGVQLWAGLLRNRCFLEENFTIQGDVA   250
 251  LPPYYQPEEDDEMPFICSLTGDNGIMGCHEIPPLKEQGRECCLSKDDVYD   300
 301  FGAGRQDLNASGLCVNWNRYYNVCRTGNANPHKGAINFDNIGYAWIVIFQ   350
 351  VITLEGWVEIMYYVMDAHSFYNFIYFILLIIVGSFFMINLCLVVIATQFS   400
 401  ETKQREHRLMLEQRQRYLSSSTVASYAEPGDCYEEIFQYVCHILRKAKRR   450
 451  ALGLYQALQNRRQAMGPGTPAPAKPGPHAKEPSHCKLCPRHSPLDPTPHT   500
 501  LVQPISAILASDPSSCPHCQHEAGRRPSGLGSTDSGQEGSGSGGSAEAEA   550
 551  NGDGPQSSEDGVSSDLGKEEEQEDGAARLCGDVWRETREKLRGIVDSKYF   600
 601  NRGIMMAILVNTVSMGIEHHEQPEELTNILEICNVVFTSMFALEMILKLA   650
 651  AFGLFDYLRNPYNIFDSIIVIISIWEIVGQADGGLSVLRTFRLLRVLKLV   700
 701  RFMPALRRQLVVLMKTMDNVATFCMLLMLFIFIFSILGMHIFGCKFSLRT   750
 751  DTGDTVPDRKNFDSLLWAIVTVFQILTQEDWNVVLYNGMASTTPWASLYF   800
 801  VALMTFGNYVLFNLLVAILVEGFQAEGDANRSYSDEDQSSSNLEEFDKLP   850
 851  EGLDNSRDLKLCPIPMTPNGHLDPSLPLGAHLGPAGTMGTAPRLSLQPDP   900
 901  VLVALDSRKSSVMSLGRMSYDQRSLSSSRSSYYGPWGRSGTWASRRSSWN   950
 951  SLKHKPPSAEHESLLSGEGGGSCVRACEGAREEAPTRTAPLHAPHAHHAH  1000
1001  HGPHLAHRHRHHRRTLSLDTRDSVDLGELVPVVGAHSRAAWRGAGQAPGH  1050
1051  EDCNGRMPNIAKDVFTKMDDCRDRGEDEEEIDYTLCFRVRKMIDVYKPDW  1100
1101  CEVREDWSVYLFSPENKFRILCQTIIAHKLFDYVVLAFIFLNCITIALER  1150
1151  PQIEAGSTERIFLTVSNYIFTAIFVGEMTLKVVSLGLYFGEQAYLRSSWN  1200
1201  VLDGFLVFVSIIDIVVSVASAGGAKILGVLRVLRLLRTLRPLRVISRAPG  1250
1251  LKLVVETLISSLKPIGNIVLICCAFFIIFGILGVQLFKGKFYHCLGVDTR  1300
1301  NITNRSDCVAANYRWVHHKYNFDNLGQALMSLFVLASKDGWVNIMYNGLD  1350
1351  AVAVDQQPVTNHNPWMLLYFISFLLIVSFFVLNMFVGVVVENFHKCRQHQ  1400
1401  EAEEARRREEKRLRRLEKKRRKAQRLPYYATYCPTRLLIHSMCTSHYLDI  1450
1451  FITFIICLNVVTMSLEHYNQPTSLETALKYCNYMFTTVFVLEAVLKLVAF  1500
1501  GLRRFFKDRWNQLDLAIVLLSVMGITLEEIEINAALPINPTIIRIMRVLR  1550
1551  IARVLKLLKMATGMRALLDTVVQALPQVGNLGLLFMLLFFIYAALGVELF  1600
1601  GKLVCNDENPCEGMSRHATFENFGMAFLTLFQVSTGDNWNGIMKDTLRDC  1650
1651  THDERSCLSSLQFVSPLYFVSFVLTAQFVLINVVVAVLMKHLDDSNKEAQ  1700
1701  EDAEMDAEIELEMAHGLGPCPGPCPGPCPCPWPLAPVLARGCPLVLLGAT  1750
1751  GARIGRGRCWRRHRESPVPSTRYSPAQETLWLDSVSLIIKDSLEGELTII  1800
1801  DNLSGSVFHHYASPDGCGKCHHDKQEVQLAETEAFSLNSDRSSSILLGDD  1850
1851  LSLEDPTACPPGRKDSKGELDPPEPMRVGDLGECFFPLSSTAVSPDPENF  1900
1901  LCEMEEIPFNPVQSWLKHDSSQAPPSPFSPDGSSPLLQMPAEFFHPAVSA  1950
1951  SQKGPEKGTGTGTLPKIALQGSWASLRSPSVNCTLLRQATGSDTSLDASP  2000
2001  SSSAGSLQTTLEDSLTLSDSPRRALGPPVQVPGPRASLSPATRRRLSLRG  2050
2051  RGLFSLRGLRAHQRSHSSGGSTSPGCTHHDSMDPSDEEGRGGAGGGGAGS  2100
2101  EHSETLSSLSLTSLFCLPPTLPPPGLTPARKFNSTSSLAAGPGRPGSTVS  2150
2151  ARGLVRSPSWAADRSKDPPGQAQLVSGLGSSAPGPQPPPGESTDAASKRK  2200
2201  R                                                   2201

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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