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

NucPred

Fetching P78363 from www.uniprot.org...

The NucPred score for your sequence is 0.52 (see score help below)

   1  MGFVRQIQLLLWKNWTLRKRQKIRFVVELVWPLSLFLVLIWLRNANPLYS    50
  51  HHECHFPNKAMPSAGMLPWLQGIFCNVNNPCFQSPTPGESPGIVSNYNNS   100
 101  ILARVYRDFQELLMNAPESQHLGRIWTELHILSQFMDTLRTHPERIAGRG   150
 151  IRIRDILKDEETLTLFLIKNIGLSDSVVYLLINSQVRPEQFAHGVPDLAL   200
 201  KDIACSEALLERFIIFSQRRGAKTVRYALCSLSQGTLQWIEDTLYANVDF   250
 251  FKLFRVLPTLLDSRSQGINLRSWGGILSDMSPRIQEFIHRPSMQDLLWVT   300
 301  RPLMQNGGPETFTKLMGILSDLLCGYPEGGGSRVLSFNWYEDNNYKAFLG   350
 351  IDSTRKDPIYSYDRRTTSFCNALIQSLESNPLTKIAWRAAKPLLMGKILY   400
 401  TPDSPAARRILKNANSTFEELEHVRKLVKAWEEVGPQIWYFFDNSTQMNM   450
 451  IRDTLGNPTVKDFLNRQLGEEGITAEAILNFLYKGPRESQADDMANFDWR   500
 501  DIFNITDRTLRLVNQYLECLVLDKFESYNDETQLTQRALSLLEENMFWAG   550
 551  VVFPDMYPWTSSLPPHVKYKIRMDIDVVEKTNKIKDRYWDSGPRADPVED   600
 601  FRYIWGGFAYLQDMVEQGITRSQVQAEAPVGIYLQQMPYPCFVDDSFMII   650
 651  LNRCFPIFMVLAWIYSVSMTVKSIVLEKELRLKETLKNQGVSNAVIWCTW   700
 701  FLDSFSIMSMSIFLLTIFIMHGRILHYSDPFILFLFLLAFSTATIMLCFL   750
 751  LSTFFSKASLAAACSGVIYFTLYLPHILCFAWQDRMTAELKKAVSLLSPV   800
 801  AFGFGTEYLVRFEEQGLGLQWSNIGNSPTEGDEFSFLLSMQMMLLDAAVY   850
 851  GLLAWYLDQVFPGDYGTPLPWYFLLQESYWLGGEGCSTREERALEKTEPL   900
 901  TEETEDPEHPEGIHDSFFEREHPGWVPGVCVKNLVKIFEPCGRPAVDRLN   950
 951  ITFYENQITAFLGHNGAGKTTTLSILTGLLPPTSGTVLVGGRDIETSLDA  1000
1001  VRQSLGMCPQHNILFHHLTVAEHMLFYAQLKGKSQEEAQLEMEAMLEDTG  1050
1051  LHHKRNEEAQDLSGGMQRKLSVAIAFVGDAKVVILDEPTSGVDPYSRRSI  1100
1101  WDLLLKYRSGRTIIMSTHHMDEADLLGDRIAIIAQGRLYCSGTPLFLKNC  1150
1151  FGTGLYLTLVRKMKNIQSQRKGSEGTCSCSSKGFSTTCPAHVDDLTPEQV  1200
1201  LDGDVNELMDVVLHHVPEAKLVECIGQELIFLLPNKNFKHRAYASLFREL  1250
1251  EETLADLGLSSFGISDTPLEEIFLKVTEDSDSGPLFAGGAQQKRENVNPR  1300
1301  HPCLGPREKAGQTPQDSNVCSPGAPAAHPEGQPPPEPECPGPQLNTGTQL  1350
1351  VLQHVQALLVKRFQHTIRSHKDFLAQIVLPATFVFLALMLSIVIPPFGEY  1400
1401  PALTLHPWIYGQQYTFFSMDEPGSEQFTVLADVLLNKPGFGNRCLKEGWL  1450
1451  PEYPCGNSTPWKTPSVSPNITQLFQKQKWTQVNPSPSCRCSTREKLTMLP  1500
1501  ECPEGAGGLPPPQRTQRSTEILQDLTDRNISDFLVKTYPALIRSSLKSKF  1550
1551  WVNEQRYGGISIGGKLPVVPITGEALVGFLSDLGRIMNVSGGPITREASK  1600
1601  EIPDFLKHLETEDNIKVWFNNKGWHALVSFLNVAHNAILRASLPKDRSPE  1650
1651  EYGITVISQPLNLTKEQLSEITVLTTSVDAVVAICVIFSMSFVPASFVLY  1700
1701  LIQERVNKSKHLQFISGVSPTTYWVTNFLWDIMNYSVSAGLVVGIFIGFQ  1750
1751  KKAYTSPENLPALVALLLLYGWAVIPMMYPASFLFDVPSTAYVALSCANL  1800
1801  FIGINSSAITFILELFENNRTLLRFNAVLRKLLIVFPHFCLGRGLIDLAL  1850
1851  SQAVTDVYARFGEEHSANPFHWDLIGKNLFAMVVEGVVYFLLTLLVQRHF  1900
1901  FLSQWIAEPTKEPIVDEDDDVAEERQRIITGGNKTDILRLHELTKIYPGT  1950
1951  SSPAVDRLCVGVRPGECFGLLGVNGAGKTTTFKMLTGDTTVTSGDATVAG  2000
2001  KSILTNISEVHQNMGYCPQFDAIDELLTGREHLYLYARLRGVPAEEIEKV  2050
2051  ANWSIKSLGLTVYADCLAGTYSGGNKRKLSTAIALIGCPPLVLLDEPTTG  2100
2101  MDPQARRMLWNVIVSIIREGRAVVLTSHSMEECEALCTRLAIMVKGAFRC  2150
2151  MGTIQHLKSKFGDGYIVTMKIKSPKDDLLPDLNPVEQFFQGNFPGSVQRE  2200
2201  RHYNMLQFQVSSSSLARIFQLLLSHKDSLLIEEYSVTQTTLDQVFVNFAK  2250
2251  QQTESHDLPLHPRAAGASRQAQD                             2273

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.)

Go back to the NucPred Home Page.