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

NucPred

Fetching Q759G7 from www.uniprot.org...

The NucPred score for your sequence is 1.00 (see score help below)

   1  MTKANGAEQLADWKFQYDLLTNELFHLHEFTSLLEFDPAFRHESDSFARF    50
  51  LADKHLELRMEEDAGAPGLEESSAMRRIRRRQKRGRGEEEGNALLKGVEE   100
 101  LVEQKYADLRARLDRPMLKQGPRKRKQPGDAAKTALPHDSKKRKSAVVRK   150
 151  ETNDEEHLKEEKSASPTVWSPESPQRDTYRTIHPSGDHEGYQSSSSDSFY   200
 201  FTTSSEDEEPTVKRSLKRKKAPVRRIKLIVHPPKQTVTNPLHILKPECSS   250
 251  LHEFLQSYKSLDEDISIEEFDSYIASQRKVVSAIRKGLKSGVLTYDRHTD   300
 301  SIQGISLKDVQNSQANKPEPITTFYQEQEKHTLRDHLNNHGVVMSRMFQD   350
 351  RKRGRIARARKISQMIEQHFKHVAGAEERKTKEEEKRRRALARAAVQAVK   400
 401  KRWNLAERAYKVLKKDEEDQLKRIQGKEHLSKMLEQSTQLLGAQLNQNDD   450
 451  SDDETSSQVLSENESSLGDEEMSSSSELDDSEVEAGEDDSKLTVEQLRAK   500
 501  YSALEHITIDGRSQNSEVSSMTENPEEDPQEYKILLSEREKAELHRTFET   550
 551  EENNILDEDHSSSSSFSESEISQTSSSENESLINSNSSQTPGLASLFGNV   600
 601  AEELSDDAHYSTEESLSSTPNEDQEGVQPNADAVSNMEIDSLEMQDKDES   650
 651  TNLEKLSVVDVPVPPLLRGTLRTYQKQGLNWLASLYNNNTNGILADEMGL   700
 701  GKTIQTIALLAYLACEKENWGPHLIIVPTSVLLNWEMEFKRFAPGFKVLS   750
 751  YYGSPQQRKEKRRGWNKLDAFHVCITSYQLVVHDQHSFKRKKWQYMILDE   800
 801  AHNIKNFKSTRWQALLNFNTRRRLLLTGTPLQNNIAELWSLLYFLMPQTA   850
 851  LENGKISGFADLDAFQQWFGKPVDKIIAANDSEHDDETRRTVSKLHQVLR   900
 901  PYLLRRLKADVEKQMPAKYEHILYCRLSKRQRFLYDDFMSRAQTKATLAS   950
 951  GNFMSIINCLMQLRKVCNHPDLFEVRPILTSFCMDRSVMSNYAHLNQLVL  1000
1001  KNLNKHALDTVVNLQCTNLAFTQNDFNMETHYADSCARLQCVRQFSEAVE  1050
1051  KLRKDASLPDAKDDPNVLNYQDMHEFYTGYTVRKRLRLIDQYRHTFYLNS  1100
1101  LRCEKRPVYGINLVRLVSVHHRPPLECNVMSELMKPLETRLVTHKRIIDE  1150
1151  FAIITPTAITLDTRVLSLGLDSEAAVHPVIKSDINTQLSRMKNPFHLLQT  1200
1201  KLSIAFPDKSLLQYDCGKLQSLAVLLRRLKEEGHRALIFTQMTKVLDILE  1250
1251  QFLNYHGYLYMRLDGATKIEDRQILTERFNTDPRITVFILSSRSGGLGIN  1300
1301  LTGADTVIFYDSDWNPAMDKQCQDRCHRIGQTRDVHIYRFVSEHTIESNI  1350
1351  LKKANQKRQLDNIVIQKGEFTTDYFSRLSVKDLLGSDETEEIADERPLLE  1400
1401  DPATTADSKKLERLLAQAEDEDDVKAARLAMKEVDVDDRDFRESSTCANP  1450
1451  SPDEDVDEEPVEDEYEGTRHVEEYMIRFIANGYLYD                1486

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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