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

NucPred

Fetching Q14966 from www.uniprot.org...

The NucPred score for your sequence is 0.99 (see score help below)

   1  MSRPRFNPRGDFPLQRPRAPNPSGMRPPGPFMRPGSMGLPRFYPAGRARG    50
  51  IPHRFAGHESYQNMGPQRMNVQVTQHRTDPRLTKEKLDFHEAQQKKGKPH   100
 101  GSRWDDEPHISASVAVKQSSVTQVTEQSPKVQSRYTKESASSILASFGLS   150
 151  NEDLEELSRYPDEQLTPENMPLILRDIRMRKMGRRLPNLPSQSRNKETLG   200
 201  SEAVSSNVIDYGHASKYGYTEDPLEVRIYDPEIPTDEVENEFQSQQNISA   250
 251  SVPNPNVICNSMFPVEDVFRQMDFPGESSNNRSFFSVESGTKMSGLHISG   300
 301  GQSVLEPIKSVNQSINQTVSQTMSQSLIPPSMNQQPFSSELISSVSQQER   350
 351  IPHEPVINSSNVHVGSRGSKKNYQSQADIPIRSPFGIVKASWLPKFSHAD   400
 401  AQKMKRLPTPSMMNDYYAASPRIFPHLCSLCNVECSHLKDWIQHQNTSTH   450
 451  IESCRQLRQQYPDWNPEILPSRRNEGNRKENETPRRRSHSPSPRRSRRSS   500
 501  SSHRFRRSRSPMHYMYRPRSRSPRICHRFISRYRSRSRSRSPYRIRNPFR   550
 551  GSPKCFRSVSPERMSRRSVRSSDRKKALEDVVQRSGHGTEFNKQKHLEAA   600
 601  DKGHSPAQKPKTSSGTKPSVKPTSATKSDSNLGGHSIRCKSKNLEDDTLS   650
 651  ECKQVSDKAVSLQRKLRKEQSLHYGSVLLITELPEDGCTEEDVRKLFQPF   700
 701  GKVNDVLIVPYRKEAYLEMEFKEAITAIMKYIETTPLTIKGKSVKICVPG   750
 751  KKKAQNKEVKKKTLESKKVSASTLKRDADASKAVEIVTSTSAAKTGQAKA   800
 801  SVAKVNKSTGKSASSVKSVVTVAVKGNKASIKTAKSGGKKSLEAKKTGNV   850
 851  KNKDSNKPVTIPENSEIKTSIEVKATENCAKEAISDAALEATENEPLNKE   900
 901  TEEMCVMLVSNLPNKGYSVEEVYDLAKPFGGLKDILILSSHKKAYIEINR   950
 951  KAAESMVKFYTCFPVLMDGNQLSISMAPENMNIKDEEAIFITLVKENDPE  1000
1001  ANIDTIYDRFVHLDNLPEDGLQCVLCVGLQFGKVDHHVFISNRNKAILQL  1050
1051  DSPESAQSMYSFLKQNPQNIGDHMLTCSLSPKIDLPEVQIEHDPELEKES  1100
1101  PGLKNSPIDESEVQTATDSPSVKPNELEEESTPSIQTETLVQQEEPCEEE  1150
1151  AEKATCDSDFAVETLELETQGEEVKEEIPLVASASVSIEQFTENAEECAL  1200
1201  NQQMFNSDLEKKGAEIINPKTALLPSDSVFAEERNLKGILEESPSEAEDF  1250
1251  ISGITQTMVEAVAEVEKNETVSEILPSTCIVTLVPGIPTGDEKTVDKKNI  1300
1301  SEKKGNMDEKEEKEFNTKETRMDLQIGTEKAEKNEGRMDAEKVEKMAAMK  1350
1351  EKPAENTLFKAYPNKGVGQANKPDETSKTSILAVSDVSSSKPSIKAVIVS  1400
1401  SPKAKATVSKTENQKSFPKSVPRDQINAEKKLSAKEFGLLKPTSARSGLA  1450
1451  ESSSKFKPTQSSLTRGGSGRISALQGKLSKLDYRDITKQSQETEARPSIM  1500
1501  KRDDSNNKTLAEQNTKNPKSTTGRSSKSKEEPLFPFNLDEFVTVDEVIEE  1550
1551  VNPSQAKQNPLKGKRKETLKNVPFSELNLKKKKGKTSTPRGVEGELSFVT  1600
1601  LDEIGEEEDAAAHLAQALVTVDEVIDEEELNMEEMVKNSNSLFTLDELID  1650
1651  QDDCISHSEPKDVTVLSVAEEQDLLKQERLVTVDEIGEVEELPLNESADI  1700
1701  TFATLNTKGNEGDTVRDSIGFISSQVPEDPSTLVTVDEIQDDSSDLHLVT  1750
1751  LDEVTEEDEDSLADFNNLKEELNFVTVDEVGEEEDGDNDLKVELAQSKND  1800
1801  HPTDKKGNRKKRAVDTKKTKLESLSQVGPVNENVMEEDLKTMIERHLTAK  1850
1851  TPTKRVRIGKTLPSEKAVVTEPAKGEEAFQMSEVDEESGLKDSEPERKRK  1900
1901  KTEDSSSGKSVASDVPEELDFLVPKAGFFCPICSLFYSGEKAMTNHCKST  1950
1951  RHKQNTEKFMAKQRKEKEQNEAEERSSR                        1978

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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