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

NucPred

Fetching Q9MUS7 from www.uniprot.org...

The NucPred score for your sequence is 0.50 (see score help below)

   1  MGRMKKIFFNQKSDLNSMKLFFCNRIMNKGEIRRIIAWFLFNHGTSRTAH    50
  51  MVDRLKILGFYHATKAGISLSIDDLSIPPTKKWLLEDAEQEIAKTQKNYS   100
 101  IGKITAVERFQKVIDTWHSTSETLKNEVVQYFEQTNPLNPVYMMAFSGAR   150
 151  GNLSQVSQLVGMRGLMSDPQGQIIDLPIRSNFREGLTVTEYVISCYGARK   200
 201  GLVDTALRTADSGYLTRRLVDVAQDMIIRETDCGTKSGILLGPVKDEQKV   250
 251  VFSLQERLIGRVLAENIYSPKQKQYIAKKNQDISASLSDKICEIKRTNIL   300
 301  VRSPLTCKSIRSVCQLCYGWSLAHGNLVDLGEAVGIIAAQSIGEPGTQLT   350
 351  MRTFHTGGVFTGNIAKQIRSSIDGKIIYSLTNTIPMRTRHGEIALITQSN   400
 401  INICIQGKNKEFNIEVPINTILLVNNGSMVRAKQLIAEVSAPVNAQSVEI   450
 451  ASKYVASDFSGEIHFENLLLQEKKSAYGHKMNRAGQYGGLLWILSGQVYK   500
 501  FSLDVPLMFDTADYIHNGSCMAEHNIISQYGGILQTSENNLTIDNSNSYL   550
 551  YVLNSSMTIINAYLSHIKNARSEAYILTDDLNQKFFMQVESNNVIKNNQI   600
 601  IAKFVTKTYLTNTGGILKYSSEIEVDEYDIVTQSYPVRKGGIIMWIPEET   650
 651  HLINKDASLLMVRDCEYVEAGTQIIKDLICHSSGLAQVSQTNDILREVVI   700
 701  KPGKIYRPIDFSQVLDKHQTLIQAGEEICDGIIAEELVYLENVNLSSGSA   750
 751  LLIRPVVQFLIPNSTELKKLEAQYQLKQNISIQPSIHICYKDGQRIHAWQ   800
 801  SMEIAKIFLRLEIDSHLHKLNVTLNLIENKLLQIKMFEYLMIDLNQIIDF   850
 851  QSYQNVTRLVRKFNNYIIPGTILAKTEIIAKDHGEVRQSNKNFEEQKSFL   900
 901  IMNEHDQMTLFVKNAYEFFQLGDLVHKGKEIVPGILAPQSGQVIQLQANR   950
 951  VTLRLARPYLVSSEAVLYVDDGDFVKSGDTLVMLIFEQSKTGDIVQGLPR  1000
1001  IEELLEARRTKGLKPLPNNLHDLLQSFFDEATEKYGIQKAAKKSFEKLQL  1050
1051  FLVNEVQSVYKAQGVHISDKHIEVIVRQMTSKVMIEEGGDTTLLPGELIE  1100
1101  LHRIENMNRNVSVHAKYKPIVLGITKASLNTESFISAASFQETTRVLTKA  1150
1151  AIEGKTDWLRGLKENVIIGRLIPAGTGFNVHDKMYSRDLSLSNSYNLAYS  1200
1201  SNSQHKRIEQKNAEYNFEDIIFD                             1223

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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