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

NucPred

Fetching Q7TT36 from www.uniprot.org...

The NucPred score for your sequence is 0.62 (see score help below)

   1  MEPPPPLLLLPLALLALLWGGERGAAALPAGCKHDGRARGTGRAAAAAEG    50
  51  KVVCSSLELAQVLPPDTLPNRTVTLILSNNKISELKNGSFSGLSLLERLD   100
 101  LRNNLISRIAPGAFWGLSSLKRLDLTNNRIGCLNADVFRGLTNLVRLNLS   150
 151  GNLFTSLSQGTFDYLGSLRSLEFQTEYLLCDCNILWMHRWVKERNITVRD   200
 201  TRCVYPKSLQAQPVTGVKQELLTCDPPLELPSFYMTPSHRQVVFEGDSLP   250
 251  FQCMASYIDQDMQVLWYQDGRIVETDESQGIFVEKSMIHNCSLIASALTI   300
 301  SNIQAGSTGNWGCHVQTKRGNNTRTVDIVVLESSAQYCPPERVVNNKGDF   350
 351  RWPRTLAGITAYLQCTRNTHSSGIYPGSAQDERKAWRRCDRGGFWADDDY   400
 401  SRCQYANDVTRVLYMFNQMPLNLTNAVATARQLLAYTVEAANFSDKMDVI   450
 451  FVAEMIEKFGRFTREEKSKELGDVMVDVASNIMLADERVLWLAQREAKAC   500
 501  SRIVQCLQRIATHRLASGAHVYSTYSPNIALEAYVIKAAGFTGMTCSVFQ   550
 551  KVAASDRAGLSDYGRRDPDGNLDKQLSFKCNVSSTFSSLALKNTIMEASI   600
 601  QLPSSLLSPKHKREARAADDALYKLQLIAFRNGKLFPATGNSTKLADDGK   650
 651  RRTVVTPVILTKIDGATVDTHHIPVNVTLRRIAHGADAVAAQWDFDLLNG   700
 701  QGGWKSDGCCILYSDENITTIQCGSLGNYAVLMDLTGTELYTPAASLLHP   750
 751  VVYTTAITLLLCLLAVIISYMYHHSLIRISLKSWHMLVNLCFHILLTCVV   800
 801  FVGGITQTRNASVCQAVGIILHYSTLATVLWVGVTARNIYKQVTKKAKRC   850
 851  QDPDEPPAPPRPMLRFYLIGGGIPIIVCGITAAANIKNYGSRPSAPYCWM   900
 901  AWEPSLGAFYGPASFITFVNCMYFLSIFIQLKRHPERKYELKEPTEEQQR   950
 951  LAANENGEINHQDSMSLSLISTSTLENEHSFQSQLLGASLTLLLYVILWM  1000
1001  FGAMAVSLYYPLDLVFSFFFGATCLSFSAFMMVHHCINREDVRLAWIMMC  1050
1051  CPGRSSYSVQVNVQPPNSSATNGEAPKCTNSSAESSCTNKSASSFKNSSQ  1100
1101  GCKLTNLQAAAAQYHSNALPVNATPQLDNSLTEHSMDNDIKMHVAPLDVQ  1150
1151  FRTNVHPSRHHKNRSKGHRASRLTVLREYAYDVPTSVEGSVQNGLPKSRP  1200
1201  GSNEGHSRSRRAYLAYRERQYNPPQQDSSDACSTLPKSSRNVEKPVSTSS  1250
1251  KKDAPRKPAAADLESQQKSYGLNLAVQNGPVKSNGQEGPLLATDVTGNVR  1300
1301  TGLWKHETTV                                          1310

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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