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

NucPred

Fetching P26362 from www.uniprot.org...

The NucPred score for your sequence is 0.72 (see score help below)

   1  MQRSPIEKANAFSKLFFRWPRPILKKGYRQKLELSDIYQIPSSDSADELS    50
  51  EMLEREWDRELATSKKNPKLVNALRRCFFWRFLFYGILLYFVEFTKAVQP   100
 101  LCLGRIIASYNAKNTYEREIAYYLALGLCLLFVVRTLFLHPAVFGLQHLG   150
 151  MQMRIALFSLIYKKILKMSSRVLDKIDTGQLVSLLSNNLNKFDEGVAVAH   200
 201  FVWIAPVQVVLLMGLIWNELTEFVFCGLGFLIMLALFQAWLGKKMMQYRD   250
 251  KRAGKINERLAITSEIIDNIQSVKVYCWEDAMEKIIDDIRQVELKLTRKV   300
 301  AYCRYFSSSAFFFSGFFVVFLSVVPYAFIHTIKLRRIFTTISYNIVLRMT   350
 351  VTRQFPSAIQTWYDSLGAIRKIQDFLHKDEHKTVEYNLTTKEVEMVNVTA   400
 401  SWDEGIGELFEKVKQNDSERKMANGDDGLFFSNFSLHVTPVLKNISFKLE   450
 451  KGELLAIAGSTGSGKSSLLMMIMGELEPSDGKIKHSGRISYSPQVPWIMP   500
 501  GTIKDNIIFGLSYDEYRYTSVVNACQLEEDITVFPNKDKTVLGDGGITLS   550
 551  GGQRARISLARALYKDADLYLLDSPFSHLDVTTEKDIFESCLCKLMVNKT   600
 601  RILVTSKLEHLKKADKILLLHEGHCYFYGTFSELQGEKPDFSSQLLGSVH   650
 651  FDSFSAERRNSILTETFRRCSVSSGDGAGLGSYSETRKASFKQPPPEFNE   700
 701  KRKSSLIVNPITSNKKFSLVQTAMSYPQTNGMEDATSEPGERHFSLIPEN   750
 751  ELGEPTKPRSNIFKSELPFQAHRRQSVLALMTHSSTSPNKIHARRSAVRK   800
 801  MSMLSQTNFASSEIDIYSRRLSEDGSFEISEEINEEDLKECFADEEEIQN   850
 851  VTTTWSTYLRYVTTNRNLVFVLILCLVIFLAEVAASLAGLWIISGLAINT   900
 901  GSQTNDTSTDLSHLSVFSKFITNGSHYYIFYIYVGLADSFLALGVIRGLP   950
 951  LVHTLVTVSKDLHKQMLHSVLQGPMTAFNKMKAGRILNRFIKDTAIIDDM  1000
1001  LPLTVFDFVQLILIVVGAICVVSVLQPYTLLAAIPVAVIFIMLRAYFLRT  1050
1051  SQQLKQLESEARSPIFSHLITSLRGLWTVRAFGRQSYFETLFHKALNLHT  1100
1101  ANWFLYLSTLRWFQMRIDIVFVLFFIAVTFIAIATHDVGEGQVGIILTLA  1150
1151  MNITSTLQWAVNSSIDVDGLMRSVSRVFKYIDIPPEGSETKNRHNANNPS  1200
1201  DVLVIENKHLTKEWPSGGQMMVNNLTAKYTSDGRAVLQDLSFSVNAGQRV  1250
1251  GLLGRTGAGKSTLLSALLRLLSTEGEIQIDGISWNSVSLQKWRKAFGVIP  1300
1301  QKVFVFSGTFRKNLDPYEQWSDEEIWKVTEEVGLKSMIEQFPDKLNFVLV  1350
1351  DGGYILSNGHKQLMCLARSILSKAKILLLDEPTAHLDPVTFQIIRKTLKH  1400
1401  TFSNCTVILSEHRVEALLECQQFLVIEGCSVKQFDALQKLLTEASLFKQV  1450
1451  FGHLDRAKLFTAHRRNSSKRKTRPKISALQEEAEEDLQETRL          1492

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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