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

NucPred

Fetching Q62234 from www.uniprot.org...

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

   1  MSLPFYQRSHQHYDLSYRNKDLRTTMSHYQQEKKRSAVYTHGSTAYSSRS    50
  51  LAARRQESEAFSQASATSYQQQASQTYSLGASSSSRHSQGSEVSRKTASA   100
 101  YDYGYSHGLTDSSLLLEDYSSKLSPQTKRAKRSLLSGEETGSLPGNYLVP   150
 151  IYSGRQVHISGIRDSEEERIKEAAAYIAQKTLLASEEAIAASKQSTASKQ   200
 201  SATSKRTTSTLQREETFEKKSRNIAIREKAEELSLKKTLEETQTYHGKLN   250
 251  EDHLLHAPEFIIKPRSHTVWEKENVKLHCSVAGWPEPRLTWYKNQVPINV   300
 301  HANPGKYIIESRYGMHTLEISKCDFEDTAQYRASAMNVQGELSAYASVVV   350
 351  KRYKGELDESLLRGGVSMPLSFAVTPYGYASKFEIHFDDKFDVSFGREGE   400
 401  TMSLGCRVVITPEIKHFQPEVQWYRNGAPVSPSKWVQPHWSGDRATLTFS   450
 451  HLNKEDEGLYTIRVRMGEYYEQYSAYVFVRDADAEIEGAPAAPLDVVSLD   500
 501  ANKDYIIISWKQPAVDGGSPILGYFIDKCEVGTDTWSQCNDTPVKFARFP   550
 551  VTGLIEGRSYIFRVRAVNKTGIGLPSRVSEPVAALDPAEKARLKSHPSAP   600
 601  WTGQIIVTEEEPTEGVIPGPPTDLSVTEATRSYVVLSWKPPGQRGHEGIM   650
 651  YFVEKCDVGAENWQRVNTELPVKSPRFALFDLVEGKSYRFRVRCSNSAGV   700
 701  GEPSETTEVTVVGDKLDIPKAPGKIIPSRNTDTSVVVSWEESRDAKELVG   750
 751  YYIEASVVGSGKWEPCNNNPVKGSRFTCHGLTTAQSYIFRVRAVNAAGLS   800
 801  EYSQDSEAIEVKAAIGGGVSPDVWPQLSDTPGGLTDSRGGMNGASPPTSQ   850
 851  KDALLGSNPNKPSPPSSPSSRGQKEVSTVSESVQEPLSSPPQEAAPEEEQ   900
 901  SQSEPPKKKKDPVAVPSAPYDITCLESFRDSMVLGWKQPDTTGGAEITGY   950
 951  YVNYREVVGEVPGKWREANIKAVSDAAYKISNLKENTLYQFQVSAMNIAG  1000
1001  LGAPSTVSECFKCEEWTIAVPGPPHSVKLSEVRKNSLVLQWKPPVYSGRT  1050
1051  PVTGYFVDLKEASAKDDQWRGLNEAAIVNKYLRVQGLKEGTSYVFRVRAV  1100
1101  NQAGVGKPSDLAGPVVAETRPGTKEVVVSVDDDGVISLNFECDQMTPKSE  1150
1151  FVWSKDYVPTEDSPRLEVENKGDKTKMTFKDLGTDDLGTYSCDVTDTDGI  1200
1201  ASSYLIDEEEMKRLLALSQEHKFPTVPTKSELAVEILEKGQVRFWMQAEK  1250
1251  LSSNAKVSYIFNEKEIFEGPKYKMHIDRNTGIIEMFMEKLQDEDEGTYTF  1300
1301  QIQDGKATGHSTLVLIGDVYKKLQKEAEFQRQEWIRKQGPHFAEYLSWEV  1350
1351  TGECNVLLKCKVANIKKETHIVWYKDEREISVDEKHDFKDGICTLLITEF  1400
1401  SKKDAGFYEVILKDDRGKDKSRLKLVDEAFQDLMTEVCKKIALSATDLKI  1450
1451  QSTAEGIRLYSFVCYYLDDLKVNWSHNGTGIKYTDRVKSGVTGEQIWLQI  1500
1501  NEPTPNDKGKYVMELFDGKTGHQKTVDLSGQAFDEAFAEFQRLKQAAIAE  1550
1551  KNRARVLGGLPDVVTIQEGKALNLTCNVWGDPPPEVSWLKNEKPLTSDDH  1600
1601  CSLKFEAGKTAFFTISGVSTADSGKYGLVVKNKYGSETSDFTVSVFIPEE  1650
1651  ELRKGAMEPPKGNQKSK                                   1667

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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