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

NucPred

Fetching Q9JKK8 from www.uniprot.org...

The NucPred score for your sequence is 0.85 (see score help below)

   1  MGDHGLELASMIPALRELGSATPEEYNTVVQKPRQILCQFIDRILTDVNV    50
  51  VALELVKKTDAQPTSVMLLDFIQHIMKSSPLMFVNVNGSQGQNEAKDSCI   100
 101  EFSHWIITRLLRIAATPSCHMLHKKICEVICSLLFLFKSKNPAIFGVLTR   150
 151  ELLYLFEDLIYLHKRNAVGEVMEWPVVVSRFLSRLDEHMGCLQPAPLQFM   200
 201  NVQNVEFIEVTLLMVLIHIVPTVFFRRQELLLWQIGCALLEHGSPKIRSL   250
 251  AISLLTELFELGGLPAQPASTFFSLFLELLQHLVGMDADQLKLYEEPLSK   300
 301  LLKTLFPFEAEAYRNIEPVYLNVLLEKLSVMFEDRVLMRLKSDLLKAALC   350
 351  HLLQYFLTFVPAGYESALQVRKVYVTNICRALVDALGVQKHVGYLLGPFY   400
 401  AALKMESKEIIERIQCQAQQENLSGNNDEVSPKRRKLSSSLSSYKKPSRQ   450
 451  PEEIIHVDMDKKSILWNVLKQKAESLQISLECGTLKNSVAEALEGITVVL   500
 501  QLTALCTVHCSHQDMDGHNVKDHQHKYKKKPPVVVTWMSLDFYTKVLKSC   550
 551  RSLLESVQKLELELVIDSMVRICDALMYMQVKSSFKDHVLEELCGMLSLP   600
 601  WIYSYSDDNSLKMTTFATNLLPLSQRVWDSYSPQAQSKCVFLLTLFPRRI   650
 651  FLEWRTAVYNWALKSSHEVIRASCVKGFFILLHQQNSCNQIPKMLVDRVK   700
 701  DDSDMVKKEFASVLGQLVCTLHGMFYLSSSVEPCFEHMDLFSKNLKATSQ   750
 751  HECSSSQVKASTCKPFLFLLTKNTPSPVKLAFIDNLHHLCKHLDFQEDER   800
 801  EVKAVLGTLLNLMEDPDKDVRIAFSGNIKYILESLNSEDGFVKELFVLRM   850
 851  KEAYTHAQIARNNELKDTLILTTGDIGRAAKGDLIPFALLHLLHCLLSKS   900
 901  ASVSGAAYTEIRALVAAKSVKLQNFFSQYKKPICQFLVESLHSSQMTALP   950
 951  SAPCQSSEIRKQDVAHHREMALNTLSEIANVFDFPDLNRFLTRTLQVLLP  1000
1001  DLAAKASPAASALIRTLGKQLNVSRREILINNFKYIFSHLVCSCSKDELE  1050
1051  RALHYLKNETEIELGSLLRQDFQGLHNELLLRIGEHYQQVFNGLSILASF  1100
1101  ASSDDPYQGPRDITSPELMADYLQPKLLGILAFFNMQLLSSSVGIEDKKM  1150
1151  ALTSLMSLMKLMGPKHVSSVRVKMMTTLRTGLRFKDDFPELCCRAWDCFV  1200
1201  RCLDHAYLGPLLSHVIVALLPLIHMQPKETAAIFHYLIIENRDAVQDFLH  1250
1251  EIYFLPDHPELEKIKAVLQEYRKETSETTDLQTTLQLSMKAIQHENVDVR  1300
1301  IHALTSLKETLYKNQEKLIKYATDSETVEPVISQLVTVILKGCQDANSQA  1350
1351  RLLCGECLGELGAIDPGRLDFSTTETQGKDFTFVTGVEDLSFAYGLLMEL  1400
1401  TRAYLAYADNSRAQDSAAYAIQELLSIYDCREMQSNGPGYQLWKRFPEHV  1450
1451  REILEPHLNTRYKSSQKSTDWSGVTKPIYLSKLGNNFAEWSSSWAGYLIT  1500
1501  KVRDNLASKIFTCCSIMMKHDFKVTIYLLPHILVYVLLGCNQEDQQEVYA  1550
1551  EIMAVLKHDEQHAISTQDSASDLCQLSTQTVFSVLDHLTQWARHKFQALN  1600
1601  AEKLAQNKPKGVSNVNFEDYQSVTRFLDLIPQDTLAVASFRSKAYTRAVM  1650
1651  HFESFITEKKQNIQKHLGFLQKLYAAMHEPDGVAGVSAIRKAEPSLKEQI  1700
1701  LEHESIGLLRDATACYDRAIQLEPDQIIHYHGVVKSMLGLGQLSTVITQV  1750
1751  NGVHANRSEWTDELNTYRVEAAWKLSQWDLVENYLAADGKSTTWSVRLGQ  1800
1801  LLLSAKKRDTTTFYDTLKLVRAEQIVPLSAASFERGSYQRGYEFIVRLHM  1850
1851  LCELEHSLKPLFRKSPGDSCNEDSLNWGARLEMTQNSYRAKEPILALRRA  1900
1901  LLSLNKRPDYNEMVGECWLQSARVARKAGHHQTAYNALLNAGESRLAELY  1950
1951  VERAKWLWSKGDVHQALIVLQKGVELCFPENKSPSESKHMLIHGRATLLV  2000
2001  GRFMEETANFESNAVMKKYKDVTLFLPEWEDGHFYLAKYYDKLMPMVTDN  2050
2051  KMEKQGDLIRYIVLHFGRSLQYGNQFIYQSMPRMLSLWLDFGAKAYEWEK  2100
2101  GGRSDRLQMRNDLAKINSVLTEHTNRLAPYQFLTAFSQLISRICHSHDEV  2150
2151  FVVLMEIIAKVFLAYPQQAMWMMTAVSKSSYPMRVNRCKEILTKAIHMKK  2200
2201  SLEKFVGDATRLTDKLLELCNKSVDGSNSTLSMSTHFKMLKRLVEDPTFS  2250
2251  EILIPLQSVMIPTLPSVLGAHANHDPFPGHWAYLAGFDDVVEILSSLQKP  2300
2301  KKISLKGSDGKFYIMMCKPKDDLRKDCRLMEFNSLINKSLRKDAESRRRE  2350
2351  LHIRTYAVIPLNDECGIIEWVNNTAGLRPILTKIYKEKGVYMTGKELRQC  2400
2401  MLPKSAALSEKLKVFQELLLPRHPPVFHEWFLRTFPDPTSWYSSRSAYCR  2450
2451  STAVMSMVGYILGLGDRHGENILFDSFTGECVHVDFNCLFNKGETFEVPE  2500
2501  IVPFRLTHNMVNGMGPMGTEGLFRRACEVTLRLMRDQREPLMSVLKTFLH  2550
2551  DPLVEGSKPVKGHSKAPLNETGEVVNEKAKTHVLDIEQRLQGVIKTRNRV  2600
2601  TGLPLSIEGHVHYLIQEATDENLLCQMYLGWTPYM                 2635

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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