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

NucPred

Fetching P07897 from www.uniprot.org...

The NucPred score for your sequence is 0.31 (see score help below)

   1  MTTLLLVFVTLRVIAAVISEEVPDHDNSLSVSIPQPSPLKALLGTSLTIP    50
  51  CYFIDPMHPVTTAPSTAPLTPRIKWSRVSKEKEVVLLVATEGQVRVNSIY   100
 101  QDKVSLPNYPAIPSDATLEIQNLRSNDSGIYRCEVMHGIEDSEATLEVIV   150
 151  KGIVFHYRAISTRYTLDFDRAQRACLQNSAIIATPEQLQAAYEDGFHQCD   200
 201  AGWLADQTVRYPIHTPREGCYGDKDEFPGVRTYGIRDTNETYDVYCFAEE   250
 251  MEGEVFYATSPEKFTFQEAANECRTVGARLATTGQLYLAWQGGMDMCSAG   300
 301  WLADRSVRYPISKARPNCGGNLLGVRTVYLHANQTGYPDPSSRYDAICYT   350
 351  GEDFVDIPENFFGVGGEEDITIQTVTWPDLELPLPRNITEGEARGNVILT   400
 401  AKPIFDMSPTVSEPGEALTLAPEVGTTVFPEAGERTEKTTRPWGFPEEAT   450
 451  RGPDSATAFASEDLVVRVTISPGAVEVPGQPRLPGGVVFHYRPGSTRYSL   500
 501  TFEEAQQACIRTGAAIASPEQLQAAYEAGYEQCDAGWLQDQTVRYPIVSP   550
 551  RTPCVGDKDSSPGVRTYGVRPSSETYDVYCYVDKLEGEVFFATQMEQFTF   600
 601  QEAQAFCAAQNATLASTGQLYAAWSQGLDKCYAGWLADGTLRYPIVNPRP   650
 651  ACGGDKPGVRTVYLYPNQTGLPDPLSKHHAFCFRGVSVVPSPGGTPTSPS   700
 701  DIEDWIVTRVEPGVDAVPLEPETTEVPYFTTEPEKQTEWEPAYTPVGTSP   750
 751  LPGIPPTWLPTVPAAEEHTESPSASQEPSASQVPSTSEEPYTPSLAVPSG   800
 801  TELPSSGDTSGAPDLSGDFTGSTDTSGRLDSSGEPSGGSESGLPSGDLDS   850
 851  SGLGPTVSSGLPVESGSASGDGEIPWSSTPTVDRLPSGGESLEGSASASG   900
 901  TGDLSGLPSGGEITETSASGTEEISGLPSGGDDLETSTSGIDGASVLPTG   950
 951  RGGLETSASGVEDLSGLPSGEEGSETSTSGIEDISVLPTGESPETSASGV  1000
1001  GDLSGLPSGGESLETSASGVEDVTQLPTERGGLETSASGIEDITVLPTGR  1050
1051  ENLETSASGVEDVSGLPSGKEGLETSASGIEDISVFPTEAEGLETSASGG  1100
1101  YVSGIPSGEDGTETSTSGVEGVSGLPSGGEGLETSASGVEDLGLPTRDSL  1150
1151  ETSASGVDVTGYPSGREDTETSVPGVGDDLSGLPSGQEGLETSASGAEDL  1200
1201  GGLPSGKEDLVGSASGALDFGKLPSGTLGSGQTPEASGLPSGFSGEYSGV  1250
1251  DIGSGPSSGLPDFSGLPSGFPTVSLVDSTLVEVITATTASELEGRGTISV  1300
1301  SGSGEESGPPLSELDSSADISGLPSGTELSGQTSGSLDVSGETSGFFDVS  1350
1351  GQPFGSSGTGEGTSGIPEVSGQAVRSPDTTEISELSGLSSGQPDVSGEGS  1400
1401  GILFGSGQSSGITSVSGETSGISDLSGQPSGFPVLSGTTPGTPDLASGAM  1450
1451  SGSGDSSGITFVDTSLIEVTPTTFREEEGLGSVELSGLPSGETDLSGTSG  1500
1501  MVDVSGQSSGAIDSSGLISPTPEFSGLPSGVAEVSGEVSGVETGSSLSSG  1550
1551  AFDGSGLVSGFPTVSLVDRTLVESITLAPTAQEAGEGPSSILEFSGAHSG  1600
1601  TPDISGDLSGSLDQSTWQPGWTEASTEPPSSPYFSGDFSSTTDASGESIT  1650
1651  APTGSGETSGLPEVTLITSELVEGVTEPTVSQELGHGPSMTYTPRLFEAS  1700
1701  GEASASGDLGGPVTIFPGSGVEASVPEGSSDPSAYPEAGVGVSAAPEASS  1750
1751  QLSEFPDLHGITSASRETDLEMTTPGTEVSSNPWTFQEGTREGSAAPEVS  1800
1801  GESSTTSDIDAGTSGVPFATPMTSGDRTEISGEWSDHTSEVNVTVSTTVP  1850
1851  ESRWAQSTQHPTETLQEIGSPNPSYSGEETQTAETAKSLTDTPTLASPEG  1900
1901  SGETESTAADQEQCEEGWTKFQGHCYRHFPDRETWVDAERRCREQQSHLS  1950
1951  SIVTPEEQEFVNKNAQDYQWIGLNDRTIEGDFRWSDGHSLQFEKWRPNQP  2000
2001  DNFFATGEDCVVMIWHERGEWNDVPCNYQLPFTCKKGTVACGEPPAVEHA  2050
2051  RTLGQKKDRYEISSLVRYQCTEGFVQRHVPTIRCQPSADWEEPRITCTDP  2100
2101  NTYKHRLQKRTMRPTRRSRPSMAH                            2124

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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