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

NucPred

Fetching Q7TPD3 from www.uniprot.org...

The NucPred score for your sequence is 0.80 (see score help below)

   1  MNPLMFTLLLLFGFLCIQIDGSRLRQEDFPPRIVEHPSDVIVSKGEPTTL    50
  51  NCKAEGRPTPTIEWYKDGERVETDKDDPRSHRMLLPSGSLFFLRIVHGRR   100
 101  SKPDEGSYVCVARNYLGEAVSRNASLEVALLRDDFRQNPTDVVVAAGEPA   150
 151  ILECQPPRGHPEPTIYWKKDKVRIDDKEERISIRGGKLMISNTRKSDAGM   200
 201  YTCVGTNMVGERDSDPAELTVFERPTFLRRPINQVVLEEEAVEFRCQVQG   250
 251  DPQPTVRWKKDDADLPRGRYDIKDDYTLRIKKAMSTDEGTYVCIAENRVG   300
 301  KVEASATLTVRVRPVAPPQFVVRPRDQIVAQGRTVTFPCETKGNPQPAVF   350
 351  WQKEGSQNLLFPNQPQQPNSRCSVSPTGDLTITNIQRSDAGYYICQALTV   400
 401  AGSILAKAQLEVTDVLTDRPPPIILQGPINQTLAVDGTALLKCKATGEPL   450
 451  PVISWLKEGFTFLGRDPRATIQDQGTLQIKNLRISDTGTYTCVATSSSGE   500
 501  TSWSAVLDVTESGATISKNYDMNDLPGPPSKPQVTDVSKNSVTLSWQPGT   550
 551  PGVLPASAYIIEAFSQSVSNSWQTVANHVKTTLYTVRGLRPNTIYLFMVR   600
 601  AINPQGLSDPSPMSDPVRTQDISPPAQGVDHRQVQKELGDVVVRLHNPVV   650
 651  LTPTTVQVTWTVDRQPQFIQGYRVMYRQTSGLQASTVWQNLDAKVPTERS   700
 701  AVLVNLKKGVTYEIKVRPYFNEFQGMDSESKTVRTTEEAPSAPPQSVTVL   750
 751  TVGSHNSTSISVSWDPPPADHQNGIIQEYKIWCLGNETRFHINKTVDAAI   800
 801  RSVVIGGLFPGIQYRVEVAASTSAGVGVKSEPQPIIIGGRNEVVITENNN   850
 851  SITEQITDVVKQPAFIAGIGGACWVILMGFSIWLYWRRKKRKGLSNYAVT   900
 901  FQRGDGGLMSNGSRPGLLNAGDPNYPWLADSWPATSLPVNNSNSGPNEIG   950
 951  NFGRGDVLPPVPGQGDKTATMLSDGAIYSSIDFTTKTTYNSSSQITQATP  1000
1001  YATTQILHSNSIHELAVDLPDPQWKSSVQQKTDLMGFGYSLPDQNKGNNG  1050
1051  GKGGKKKKTKNSSKAQKNNGSTWANVPLPPPPVQPLPGTELGHYAAEQEN  1100
1101  GYDSDSWCPPLPVQTYLHQGMEDELEEDEDRVPTPPVRGVASSPAISFGQ  1150
1151  QSTATLTPSPREEMQPMLQAHLDELTRAYQFDIAKQTWHIQSNTPPPQPP  1200
1201  APPLGYVSGALISDLETDVPDEDADDEEEPLEIPRPLRALDQTPGSSMDN  1250
1251  LDSSVTGKAFSSSQRQRPTSPFSTDSNTSAAQNQSQRPRPTKKHKGGRMD  1300
1301  PQPVLPHRREGMPDDLPPPPDPPPGQGLRQQIGLSQHSGNVENSTERKGS  1350
1351  SLERQQAANLEDTKSSLDCPAKTVLEWQRQTQDWINSTERQEETRKAPHK  1400
1401  QGVGSEESLVPYSKPSFPSPGGHSSSGTSSSKGSTGPRKADVLRGSHQRN  1450
1451  ANDLLDIGYVGSNSQGQFTE                                1470

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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