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

NucPred

Fetching Q7PLI2 from www.uniprot.org...

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

   1  MGERDNPTVPVTTLAGLTSTSDLLSELPVADSLQSAASLNKSLLFHALVA    50
  51  NESSNLLSMRNENLVRQLVTAIERTNSDNIELIHCPVQDTATNCSTYPEL   100
 101  LQGIYHFRPAVFNTSIKIHSPDQHTANARLEAKKMQIDSYSIPECYASPT   150
 151  NLSISNEHQLQDAQACFNQLTSMTSKEILEEFSQINFKENATEKDKIDVI   200
 201  ENSDLNVTKILSQNTLKKKSNTPERSTVQSIQEQFFIQQQEANYNLKHDL   250
 251  NQVSTNVGQIQNISDTFPQEPSNFNLNSVNIPNMLYVQSPPFTESEPTQA   300
 301  HHSSIEYLKKKKSQILDVSILNRQQVLENTSLHIINKSSTYQTNQNVSTT   350
 351  TSTSTSSSGKSQVRVCINRLSIEDSRLMQQSIKKFVQKSPELARSMGLLQ   400
 401  ETCQQQHENLNIIPTSAEECVLESRASSTNNTVKIPIDTFSTIKADEKRS   450
 451  AKRKLAISIGDIPPEQIFSKPKMRRVERITPLSNTKCVKEEVTRSQTYQQ   500
 501  FIRNMDHIIEILDDSESPNFDSEDVDETIECISSKLLNSMSTDVAKLKAK   550
 551  QALDSIPKNKLTLLINYAMRNVYLARNYFAGTEDEDEFVDDEVIEKLLNA   600
 601  MDACLLICNIYSTVSDLQFLQEDNVSHIIKFTQFQLRETIFPLHDPVYTA   650
 651  KSIKRTTHRKKIKSHQAQNRSMQLFYLKTVELLKVFVTLFDKCVFVDTIV   700
 701  LPLSTLAIEPFFVDNIETLQFVCLELVTTIFRKERYDKIRNSILGDILTS   750
 751  IDRLPSSKKNLRPYKLTNNGGNIQMVTALVLQLIQCATILPDSLCDNGKF   800
 801  SNKPQEGNTFDEEGKKLLQPSQDLLVLQKYDVAVSIGGNFLTTFLNKCKS   850
 851  RSNETDFRPLFENFIHDLLATVNKPEWPASELLLSLLGTMLVRYVSDKGI   900
 901  EQSIRLVSLDYLGIVAARLRKDTVESRCRVNIIDSMIQSIKLEQEKEGDV   950
 951  TSNNDQFDLEPEEQRTDFLQKILLDFLAVNAQEENLIWDYARHFYLAQWY  1000
1001  RDVIYQRRRINDGKKGLAFRKSKIRNNRRTNGDYLDTSDSGSCDESDTDT  1050
1051  NKKRIHCVDSNDFELNINIYKALEARKQYFINKIKPFSVFGEQNHSSNQH  1100
1101  IKTYIDYNNAQLIAQYLATKRPFSQSFDGCLKKIILVVNEPSIAVRTRAM  1150
1151  KCLANIVEVDPLVLKRKDMQMGVNQKFLDTAISVREAAVDLVGKFVLSNQ  1200
1201  DLIDQYYDMLSTRILDTGVSVRKRVIKILRDICLEYPDFSKIPEICVKMI  1250
1251  RRVHDEEGIQKLVTEVFMKMWFTPCTKNDKIGIQRKINHIIDVVNTAHDT  1300
1301  GTTWLEGLLMSIFKPRDNMLRSEGCVQEFIKKNSEPPMDIVIACQQLADG  1350
1351  LVDRLIELEDTDNSRMLGCITTLHLLAKVRPQLLVKHAITIEPYLNIKCH  1400
1401  SATAAKFICAVADILEKVVPLVNNASESFLASLEEHLMLLVVSRNQAEVT  1450
1451  SCVSCLGALVNKITHNFKLIRDCFQKFYRVLDVSRSQVIQGNNSVDNIYT  1500
1501  PSFRRSLFTIGILMRYFDFKSPIALGETNDGLPVSICEDVFHCLMFFCRC  1550
1551  TNQEIRKQALISLGSFCVLNDGYLTRSELKNLYCEILSSIANDAGFKIIC  1600
1601  MRNIWIYLTESEMFMHNKEKEWEKQSKHEDLKEMNDVSSGMASRIIQLYL  1650
1651  EEILECFLNRDDTVRLWAVKVIQIVLRQGLVHPVRMVPYLICLSTDHRIE  1700
1701  SAHRADALLKDIDKTYSGFVNMKVQFGLQLCFKLQKILQINNRGKLEIIR  1750
1751  GYASRGPDNTTTALNDFLYTLLRTTKPQRRALVQTVTKQFDDQKTSLQQM  1800
1801  LYIADNLAYFPYVVQDEPLYLIHQIDLLISMAGTHLLATFKEHIKPSDKE  1850
1851  GDVLEDDDDVEDPEVLFNRLPEDLTEIIKCITSAQACMLLLILKDHLKEM  1900
1901  YAITDSKISRYSPSEQKLYEKAVTRKSVNDFNPKTTIDVIKKQMSQEKLS  1950
1951  TDINFTLTKEEKLDLVVKYLDFKQLMLKLDPDDGDSDADESRDKTMLNIS  2000
2001  ASSDGVAFSSSAKNSHSACDGYSLTVTDVVDVPMSHIAKASMLTSKPSGR  2050
2051  KTNPVRTKKKRRKIDSTDDETSDAEYA                         2077

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.