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

NucPred

Fetching O14578 from www.uniprot.org...

The NucPred score for your sequence is 0.98 (see score help below)

   1  MLKFKYGARNPLDAGAAEPIASRASRLNLFFQGKPPFMTQQQMSPLSREG    50
  51  ILDALFVLFEECSQPALMKIKHVSNFVRKYSDTIAELQELQPSAKDFEVR   100
 101  SLVGCGHFAEVQVVREKATGDIYAMKVMKKKALLAQEQVSFFEEERNILS   150
 151  RSTSPWIPQLQYAFQDKNHLYLVMEYQPGGDLLSLLNRYEDQLDENLIQF   200
 201  YLAELILAVHSVHLMGYVHRDIKPENILVDRTGHIKLVDFGSAAKMNSNK   250
 251  MVNAKLPIGTPDYMAPEVLTVMNGDGKGTYGLDCDWWSVGVIAYEMIYGR   300
 301  SPFAEGTSARTFNNIMNFQRFLKFPDDPKVSSDFLDLIQSLLCGQKERLK   350
 351  FEGLCCHPFFSKIDWNNIRNSPPPFVPTLKSDDDTSNFDEPEKNSWVSSS   400
 401  PCQLSPSGFSGEELPFVGFSYSKALGILGRSESVVSGLDSPAKTSSMEKK   450
 451  LLIKSKELQDSQDKCHKMEQEMTRLHRRVSEVEAVLSQKEVELKASETQR   500
 501  SLLEQDLATYITECSSLKRSLEQARMEVSQEDDKALQLLHDIREQSRKLQ   550
 551  EIKEQEYQAQVEEMRLMMNQLEEDLVSARRRSDLYESELRESRLAAEEFK   600
 601  RKATECQHKLLKAKDQGKPEVGEYAKLEKINAEQQLKIQELQEKLEKAVK   650
 651  ASTEATELLQNIRQAKERAERELEKLQNREDSSEGIRKKLVEAEELEEKH   700
 701  REAQVSAQHLEVHLKQKEQHYEEKIKVLDNQIKKDLADKETLENMMQRHE   750
 751  EEAHEKGKILSEQKAMINAMDSKIRSLEQRIVELSEANKLAANSSLFTQR   800
 801  NMKAQEEMISELRQQKFYLETQAGKLEAQNRKLEEQLEKISHQDHSDKNR   850
 851  LLELETRLREVSLEHEEQKLELKRQLTELQLSLQERESQLTALQAARAAL   900
 901  ESQLRQAKTELEETTAEAEEEIQALTAHRDEIQRKFDALRNSCTVITDLE   950
 951  EQLNQLTEDNAELNNQNFYLSKQLDEASGANDEIVQLRSEVDHLRREITE  1000
1001  REMQLTSQKQTMEALKTTCTMLEEQVMDLEALNDELLEKERQWEAWRSVL  1050
1051  GDEKSQFECRVRELQRMLDTEKQSRARADQRITESRQVVELAVKEHKAEI  1100
1101  LALQQALKEQKLKAESLSDKLNDLEKKHAMLEMNARSLQQKLETERELKQ  1150
1151  RLLEEQAKLQQQMDLQKNHIFRLTQGLQEALDRADLLKTERSDLEYQLEN  1200
1201  IQVLYSHEKVKMEGTISQQTKLIDFLQAKMDQPAKKKKGLFSRRKEDPAL  1250
1251  PTQVPLQYNELKLALEKEKARCAELEEALQKTRIELRSAREEAAHRKATD  1300
1301  HPHPSTPATARQQIAMSAIVRSPEHQPSAMSLLAPPSSRRKESSTPEEFS  1350
1351  RRLKERMHHNIPHRFNVGLNMRATKCAVCLDTVHFGRQASKCLECQVMCH  1400
1401  PKCSTCLPATCGLPAEYATHFTEAFCRDKMNSPGLQTKEPSSSLHLEGWM  1450
1451  KVPRNNKRGQQGWDRKYIVLEGSKVLIYDNEAREAGQRPVEEFELCLPDG  1500
1501  DVSIHGAVGASELANTAKADVPYILKMESHPHTTCWPGRTLYLLAPSFPD  1550
1551  KQRWVTALESVVAGGRVSREKAEADAKLLGNSLLKLEGDDRLDMNCTLPF  1600
1601  SDQVVLVGTEEGLYALNVLKNSLTHVPGIGAVFQIYIIKDLEKLLMIAGE  1650
1651  ERALCLVDVKKVKQSLAQSHLPAQPDISPNIFEAVKGCHLFGAGKIENGL  1700
1701  CICAAMPSKVVILRYNENLSKYCIRKEIETSEPCSCIHFTNYSILIGTNK  1750
1751  FYEIDMKQYTLEEFLDKNDHSLAPAVFAASSNSFPVSIVQVNSAGQREEY  1800
1801  LLCFHEFGVFVDSYGRRSRTDDLKWSRLPLAFAYREPYLFVTHFNSLEVI  1850
1851  EIQARSSAGTPARAYLDIPNPRYLGPAISSGAIYLASSYQDKLRVICCKG  1900
1901  NLVKESGTEHHRGPSTSRSSPNKRGPPTYNEHITKRVASSPAPPEGPSHP  1950
1951  REPSTPHRYREGRTELRRDKSPGRPLEREKSPGRMLSTRRERSPGRLFED  2000
2001  SSRGRLPAGAVRTPLSQVNKVWDQSSV                         2027

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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