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

NucPred

Fetching Q9Y4E6 from www.uniprot.org...

The NucPred score for your sequence is 0.60 (see score help below)

   1  MAGNSLVLPIVLWGRKAPTHCISAVLLTDDGATIVTGCHDGQICLWDLSV    50
  51  ELQINPRALLFGHTASITCLSKACASSDKQYIVSASESGEMCLWDVSDGR   100
 101  CIEFTKLACTHTGIQFYQFSVGNQREGRLLCHGHYPEILVVDATSLEVLY   150
 151  SLVSKISPDWISSMSIIRSHRTQEDTVVALSVTGILKVWIVTSEISDMQD   200
 201  TEPIFEEESKPIYCQNCQSISFCAFTQRSLLVVCSKYWRVFDAGDYSLLC   250
 251  SGPSENGQTWTGGDFVSSDKVIIWTENGQSYIYKLPASCLPASDSFRSDV   300
 301  GKAVENLIPPVQHILLDRKDKELLICPPVTRFFYGCREYFHKLLIQGDSS   350
 351  GRLNIWNISDTADKQGSEEGLAMTTSISLQEAFDKLNPCPAGIIDQLSVI   400
 401  PNSNEPLKVTASVYIPAHGRLVCGREDGSIVIVPATQTAIVQLLQGEHML   450
 451  RRGWPPHRTLRGHRNKVTCLLYPHQVSARYDQRYLISGGVDFSVIIWDIF   500
 501  SGEMKHIFCVHGGEITQLLVPPENCSARVQHCICSVASDHSVGLLSLREK   550
 551  KCIMLASRHLFPIQVIKWRPSDDYLVVGCSDGSVYVWQMDTGALDRCVMG   600
 601  ITAVEILNACDEAVPAAVDSLSHPAVNLKQAMTRRSLAALKNMAHHKLQT   650
 651  LATNLLASEASDKGNLPKYSHNSLMVQAIKTNLTDPDIHVLFFDVEALII   700
 701  QLLTEEASRPNTALISPENLQKASGSSDKGGSFLTGKRAAVLFQQVKETI   750
 751  KENIKEHLLDDEEEDEEIMRQRREESDPEYRSSKSKPLTLLEYNLTMDTA   800
 801  KLFMSCLHAWGLNEVLDEVCLDRLGMLKPHCTVSFGLLSRGGHMSLMLPG   850
 851  YNQPACKLSHGKTEVGRKLPASEGVGKGTYGVSRAVTTQHLLSIISLANT   900
 901  LMSMTNATFIGDHMKKGPTRPPRPSTPDLSKARGSPPTSSNIVQGQIKQV   950
 951  AAPVVSARSDADHSGSDPPSAPALHTCFLVNEGWSQLAAMHCVMLPDLLG  1000
1001  LDKFRPPLLEMLARRWQDRCLEVREAAQALLLAELRRIEQAGRKEAIDAW  1050
1051  APYLPQYIDHVISPGVTSEAAQTITTAPDASGPEAKVQEEEHDLVDDDIT  1100
1101  TGCLSSVPQMKKISTSYEERRKQATAIVLLGVIGAEFGAEIEPPKLLTRP  1150
1151  RSSSQIPEGFGLTSGGSNYSLARHTCKALTFLLLQPPSPKLPPHSTIRRT  1200
1201  AIDLIGRGFTVWEPYMDVSAVLMGLLELCADAEKQLANITMGLPLSPAAD  1250
1251  SARSARHALSLIATARPPAFITTIAKEVHRHTALAANTQSQQNMHTTTLA  1300
1301  RAKGEILRVIEILIEKMPTDVVDLLVEVMDIIMYCLEGSLVKKKGLQECF  1350
1351  PAICRFYMVSYYERNHRIAVGARHGSVALYDIRTGKCQTIHGHKGPITAV  1400
1401  AFAPDGRYLATYSNTDSHISFWQMNTSLLGSIGMLNSAPQLRCIKTYQVP  1450
1451  PVQPASPGSHNALKLARLIWTSNRNVILMAHDGKEHRFMV            1490

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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