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

NucPred

Fetching Q8NEV8 from www.uniprot.org...

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

   1  MTKVPPAFDFSFLNDEEARKILQVLERNEELQRAEKDRISKLQKTKRDIR    50
  51  WLQGVTGEWFEEIQRKKFCNETDVSQMLKQPLTYRLSKEMAKNDPIELPT   100
 101  SRSKNVTNQKKPTPFSSRMSFRSSFASLFSFRKSGKETSKLPSLGQKGCD   150
 151  GHAGPPMPVRGAAVQAKIYNSPLENHLVDSTFVPKPAVMREESGMPPPWD   200
 201  ASLLENEFFQVLDDLDSKLAQEQSASSVNTRTPLNYGSRTQFGHFYSSGN   250
 251  RHGNITERHKKHYNETSNMSIYDILRPGTPREGFKTFSPRTSTIYDMYRT   300
 301  REPRVFKEDYVQKNTFGSTSLCFDSRQRSALPATGHFTARSLHFPATTQS   350
 351  KSGFIPPRHQQSPKRTPLSSIIWNRSDSSRDRENQEEFLRAPSPMEIDPA   400
 401  DKYVYPRGFQENKRYESYHSQNVYQRVSLNAPMENAMSPDTFENSENMPF   450
 451  YHQSNTFTRSFFSNTFGRSGEQRRFGQGPFWGQEKGHSFWSDFHRSRKSF   500
 501  SSSDRDFEMISMEANSVSAIHGHNVSSEHWESFSSGYGTDVSRGQEEPHP   550
 551  WQFDFQRSTLDSMVVSHGNETQLTPHFGTPNVCSMTGSSYHVKSSELVSQ   600
 601  QDSSPVEVHINKEASSFGIAQTLASSFKTSFSQISDDRRNPQSPNLQNPT   650
 651  VTLQKIFPNKPASHPMRSHTEVTVTSSNSVDSLPLAKSQPNILVTEVNNE   700
 701  KDLNESISEEDKQLSKMDQTNKAGEIPQPVSQTGISNSLPDFQNPLSQDS   750
 751  AKSNGFGFNASTIISSKKSPRVFSRKDTSKMYIPHTDKSNDIKQDKRFTE   800
 801  NRKLGSTASLPFIQEHRTPPSFPRTDQGCHQELTVNNEDISRIITNNHWS   850
 851  SALTDTQNAQYSKCKLTPGHKTSCDSLDLSSAALPDSSPSKNSSLDAPVV   900
 901  PSTTVFSRRSPSDKDPSLGEREEKDNAGKNQKNQFIVSHSENQERNDSPV   950
 951  PTHDEVVDVKCHSHSPFRNERGKGKIRHHISCIEKLSKTESISVPTSDHR  1000
1001  SLIEANQSNSKVSELDTIYCTLPRKSSSFLIHGRQSGSKIMAASLRNGPP  1050
1051  PFQIKNNVEDAMGNYMLNKFSPSSPESANECSKVLSDSALEAPEATERMT  1100
1101  NVKSSGSTSVRKGPLPFLINRAMSCPSGEPHASTGREGRKKPLTSGMDAS  1150
1151  ELTPRAWERIISPVESDSSVRDCSLTKRQHQKENFQEYTEKEGKMAASRR  1200
1201  SVFALSNEDPLPFCSDLSGKERGKTLHKVKTTSTFSVSGDEDNVKCLEVV  1250
1251  SIYYTLPRKPSKKFCNLLQQYTQNTNLLIESPQVETETFPNALEKDKQNY  1300
1301  STREQSGTPSCENLKMSVNSDQTLTTENMTAFRLSNRGPLAPTLQEMASV  1350
1351  EAAVSLPEEESKAREIFSDNLAKTPLGDSENKKERGKKLQSETLHTSLML  1400
1401  QRKNVSEEKSENCQQSINSSNSGPSSLPALSEVNIGNSQTRRSSWECTGS  1450
1451  GRAIPFTGSGKCPQKDHTSTAVGDGSSGSQPREGRGDIGTNCQKMTNKTL  1500
1501  SHSESQVFALTPALHKLQLGEETQSDEPNLESLQSEPRELPQRSQEANMT  1550
1551  ESRKAEDEMQKSAWDQPSLPEGNKNKTNLDDLVKGENRSSVKHRLAAMSK  1600
1601  ASRKFPAKDVSPRRHVATIFPQSGSRSGFDHLSLGTVECNPLFPEPTPKS  1650
1651  AESIGESRLSENGKHVKKSENLLPITVLPNREPSTHVSNQKSNSISQRHQ  1700
1701  NEFKNVSESPSKHENSKDVTAAQNLVRESGAPSPITFTSLREAEFSDNQR  1750
1751  RLSPPFPLEPAQKSRVSSPLASFLQQQRSASSLEWEPEPHLYRSKSLKSI  1800
1801  NVHGDLLRKSHPPKVRERHFSESTSIDNALSRLTLGNEFSVNNGYSRRFR  1850
1851  SFSELPSCDGNESWAYRSGTKTGPRSAISIYRPIDYGIFGKEQQLAFLEN  1900
1901  VKRSLTQGRLWKPSFLKNPGFLKDDLRNPPNPSESLSSNSPSSQVPEDGL  1950
1951  SPSEPLNIYEDDPVDSDCDTDTTTDDEYYLDENDKESEL             1989

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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