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

NucPred

Fetching O88269 from www.uniprot.org...

The NucPred score for your sequence is 0.37 (see score help below)

   1  MNGEHSMATPGESCAGLRVWNQTEQEPVAYHLLNLCFLRAAGSWVPPMYL    50
  51  WVLGPIYLLYIHRHGCCYLRMSRLFKIKMVLGFALILLYTFNAAVPLWRI   100
 101  HRGMPQAPELLIHPTVWLTTMSFATFLIHMERKKGVRASGLLFGYWLLCC   150
 151  LVPAIDTVQQASAGSFRQEPLHHLATYLCLSLVVAELVLSCLVDQPPFFS   200
 201  EDSKPLNPCPEAEASFPSKAMFWWASGLLWKGYRKLLGPKDLWSLERENS   250
 251  SEELVSQLEREWRRNFSELPGHKGHSGMGTPETEAFLQPERSQRGPLLRA   300
 301  IWRVFRSTFLLGTLSLVISDAFRFAVPKLLSLFLEFMGDLESSAWTGWLL   350
 351  AVLMFLSACLQTLFEQQYMYRVKVLQMRLRTAITGLVYRKVLVLSSGSRK   400
 401  SSAAGDVVNLVSVDVQRLVESILHLNGLWLLFLWIIVCFVYLWQLLGPSA   450
 451  LTAVAVFLSLLPLNFFITKKRSFHQEEQMRQKASRARLTSSMLRTVRTIK   500
 501  SHGWECAFLERLLHIRGQELGALKTSAFLFSVSLVSFQVSTFLVALVVFA   550
 551  VHTLVAEDNAMDAEKAFVTLTVLSILNKAQAFLPFSVHCLVQARVSFDRL   600
 601  AAFLCLEEVDPNGMVLSPSRCSSKDRISIHNGTFAWSQESPPCLHGINLT   650
 651  VPQGCLLAVVGPVGAGKSSLLSALLGELLKVEGSVSIEGSVAYVPQEAWV   700
 701  QNTSVVENVCFRQELDLPWLQEVLEACALGSDVASFPAGVHTPVGEQGMN   750
 751  LSGGQKQRLSLARAVYRRAAVYLMDDPLAALDAHVSQEVFKQVIGPSGLL   800
 801  QGTTRILVTHTLHVLPQADQILVLANGTIAEMGSYQDLLHRNGALVGLLD   850
 851  GARQPAGEGEGEAHAAATSDDLGGFSGGGTPTRRPERPRPSDAAPVKGST   900
 901  SEAQMEPSLDDVEVTGLTAGEDSVQYGRVKSATYLSYLRAVGTPLCTYTL   950
 951  FLFLCQQVASFCQGYWLSLWADDPVVDGKQMHSALRGSIFGLLGCLQAIG  1000
1001  LFASMAAVFLGGARASCLLFRSLLWDVARSPIGFFERTPVGNLLNRFSKE  1050
1051  TDIVDVDIPDKMRTLLTYAFGLLEVGLAVSMATPLAIVAILPLMLLYAGF  1100
1101  QSLYVATCCQLRRLESASYSSVCSHLAETFQGSQVVRAFQAQGPFTAQHD  1150
1151  ALMDENQRISFPRLVADRWLAANLELLGNGLVFVAATCAVLSKAHLSAGL  1200
1201  AGFSVSAALQVTQTLQWVVRSWTDLENSMVAVERVQDYVHTPKEAPWRLP  1250
1251  SSAAQPLWPCGGQIEFRDFGLRHRPELPMAVQGVSLKIHAGEKVGIVGRT  1300
1301  GAGKSSLTWGLLRLQEATEGGIWIDGVPITDMGLHTLRSRITIIPQDPVL  1350
1351  FPGSLRMNLDLLQENTDEGIWAALETVQLKAFVTSLPGQLQYECSGQGDD  1400
1401  LSVGQKQLLCLARALLRKTQILILDEATASVDPGTEIQMQAALERWFAQC  1450
1451  TVLLIAHRLRSVMNCARVLVMDEGQVAESGSPAQLLAQKGLFYRLAQESG  1500
1501  LA                                                  1502

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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