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

NucPred

Fetching Q8VHX6 from www.uniprot.org...

The NucPred score for your sequence is 0.26 (see score help below)

   1  MMNNSNYSDASGLGLVDEADEMPSTEKDLAEDAPWKKIQQNTFTRWCNEH    50
  51  LKCVGKRLTDLQRDLSDGLRLIALLEVLSQKRMYRKFHPRPNFRQMKLEN   100
 101  VSVALEFLEREHIKLVSIDSKAIVDGNLKLILGLIWTLILHYSISMPMWE   150
 151  DEDDEDARKQTPKQRLLGWIQNKVPQLPITNFNRDWQDGKALGALVDNCA   200
 201  PGLCPDWEAWDPNQPVQNAREAMQQADDWLGVPQVIAPEEIVDPNVDEHS   250
 251  VMTYLSQFPKAKLKPGAPVRSKQLNPKKAIAYGPGIEPQGNTVLQPAHFT   300
 301  VQTVDAGVGEVLVYIEDPEGHTEEAKVVPNNDKDRTYAVSYVPKVAGLHK   350
 351  VTVLFAGQNIERSPFEVNVGMALGDANKVSARGPGLEPVGNVANKPTYFD   400
 401  IYTAGAGTGDVAVVIVDPQGRRDTVEVALEDKGDNTFRCTYRPVMEGPHT   450
 451  VHVAFAGAPITRSPFPVHVAEACNPNACRASGRGLQPKGVRVKEVADFKV   500
 501  FTKGAGSGELKVTVKGPKGTEEPVKVREAGDGVFECEYYPVVPGKYVVTI   550
 551  TWGGYAIPRSPFEVQVSPEAGAQKVRAWGPGLETGQVGKSADFVVEAIGT   600
 601  EVGTLGFSIEGPSQAKIECDDKGDGSCDVRYWPTEPGEYAVHVICDDEDI   650
 651  RDSPFIAHIQPAPPDCFPDKVKAFGPGLEPTGCIVDRPAEFTIDARAAGK   700
 701  GDLKLYAQDADGCPIDIKVIPNGDGTFRCSYVPTKPIKHTIIVSWGGVNV   750
 751  PKSPFRVNVGEGSHPERVKVYGPGVEKTGLKANEPTYFTVDCSEAGQGDV   800
 801  SIGIKCAPGVVGPVEADIDFDIIKNDNDTFTVKYTPPGAGHYTIMVLFAN   850
 851  QEIPASPFHIKVDPSHDASKVKAEGPGLSRTGVEVGKPTHFTVLTKGAGK   900
 901  AKLDVHFAGAAKGEAVRDFEIIDNHDYSYTVKYTAVQQGNMAVTVTYGGD   950
 951  PVPKSPFVVNVAPPLDLSKVKVQGLNSKVAVGQEQAFSVNTRGAGGQGQL  1000
1001  DVRMTSPSRRPIPCKLEPGGGAEAQAVRYMPPEEGPYKVDITYDGHPVPG  1050
1051  SPFAVEGVLPPDPSKVCAYGPGLKGGLVGTPAPFSIDTKGAGTGGLGLTV  1100
1101  EGPCEAKIECQDNGDGSCAVSYLPTEPGEYTINILFAEAHIPGSPFKATI  1150
1151  QPVFDPSKVRASGPGLERGKAGEAATFTVDCSEAGEAELTIEILSDAGVK  1200
1201  AEVLIQNNADGTYHITYSPAFPGTYTITIKYGGHPIPKFPTRVHVQPAVD  1250
1251  TSGIKVSGPGVEPHGVLREVTTEFTVDARSLTATGGNHVTARVLNPSGAK  1300
1301  TDTYVTDNGDGTYRVQYTAYEEGVHLVEVLYDEVAVPKSPFRVGVTEGCD  1350
1351  PTRVRAFGPGLEGGLVNKANRFTVETRGAGTGGLGLAIEGPSEAKMSCKD  1400
1401  NKDGSCTVEYIPFTPGDYDVNITFGGQPIPGSPFRVPVKDVVDPGKVKCS  1450
1451  GPGLGTGVRARVPQTFTVDCSQAGRAPLQVAVLGPTGVAEPVEVRDNGDG  1500
1501  THTVHYTPATDGPYTVAVKYADQEVPRSPFKIKVLPSHDASKVRASGPGL  1550
1551  NASGIPASLPVEFTIDARDAGQGLLTVQILDPEGKPKKANIRDNGDGTYT  1600
1601  VSYLPDMSGRYTITIKYGGDEIPYSPFRIHALPTGDASKCLVTVSIGGHG  1650
1651  LGACLGPRIQIGEETVITVDAKAAGKGKVTCTVSTPDGAELDVDVVENHD  1700
1701  GTFDIYYTAPEPGKYVITIRFGGEHIPNSPFHVLACDPLPHVEEPAEMLQ  1750
1751  MRQPYAPLRPGTCPTHWATEEPVVPVEPLESMLRPFNLVIPFTVQKGELT  1800
1801  GEVRMPSGKTARPNITDNKDGTITVRYAPTEKGLHQMGIKYDGNHIPGSP  1850
1851  LQFYVDAINSRHVSAYGPGLSHGMVNKPATFTIVTKDAGEGGLSLAVEGP  1900
1901  SKAEITCKDNKDGTCTVSYLPTAPGDYSIIVRFDDKHIPGSPFTAKITGD  1950
1951  DSMRTSQLNVGTSTDVSLKITEGDLSQLTASIRAPSGNEEPCLLKRLPNR  2000
2001  HIGISFTPKEVGEHVVSVRKSGKHVTNSPFKILVGPSEIGDASKVRVWGK  2050
2051  GLSEGQTFQVAEFIVDTRNAGYGGLGLSIEGPSKVDINCEDMEDGTCKVT  2100
2101  YCPTEPGTYIINIKFADKHVPGSPFTVKVTGEGRMKESITRRRQAPSIAT  2150
2151  IGSTCDLNLKIPGNWFQMVSAQERLTRTFTRSSHTYTRTERTEISKTRGG  2200
2201  ETKREVRVEESTQVGGDPFPAVFGDFLGRERLGSFGSITRQQEGEASSQD  2250
2251  MTAQVTSPSGKTEAAEIVEGEDSAYSVRFVPQEMGPHTVTVKYRGQHVPG  2300
2301  SPFQFTVGPLGEGGAHKVRAGGTGLERGVAGVPAEFSIWTREAGAGGLSI  2350
2351  AVEGPSKAEIAFEDRKDGSCGVSYVVQEPGDYEVSIKFNDEHIPDSPFVV  2400
2401  PVASLSDDARRLTVTSLQETGLKVNQPASFAVQLNGARGVIDARVHTPSG  2450
2451  AVEECYVSELDSDKHTIRFIPHENGVHSIDVKFNGAHIPGSPFKIRVGEQ  2500
2501  SQAGDPGLVSAYGPGLEGGTTGVSSEFIVNTQNAGSGALSVTIDGPSKVQ  2550
2551  LDCRECPEGHVVTYTPMAPGNYLIAIKYGGPQHIVGSPFKAKVTGPRLSG  2600
2601  GHSLHETSTVLVETVTKSSSSRGASYSSIPKFSSDASKVVTRGPGLSQAF  2650
2651  VGQKNSFTVDCSKAGTNMMMVGVHGPKTPCEEVYVKHMGNRVYNVTYTVK  2700
2701  EKGDYILIVKWGDESVPGSPFKVNVP                          2726

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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