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

NucPred

Fetching P78820 from www.uniprot.org...

The NucPred score for your sequence is 0.38 (see score help below)

   1  MAPRVASHFLGGNSLDKAPAGKVKDYIASHGGHTVITSILIANNGIAAVK    50
  51  EIRSIRKWAYETFNNERAIKFTVMATPDDLKVNADYIRMADQYVEVPGGS   100
 101  NNNNYANVELIVDIAERMNVHAVWAGWGHASENPKLPEMLSASSKKIVFI   150
 151  GPPGSAMRSLGDKISSTIVAQSARVPCMSWSGNELDQVRIDEETNIVTVD   200
 201  DDVYQKACIRSAEEGIAVAEKIGYPVMIKASEGGGGKGIRQVTSTEKFAQ   250
 251  AFQQVLDELPGSPVFVMKLAGQARHLEVQILADQYGNNISLFGRDCSVQR   300
 301  RHQKIIEEAPVTIAPAATFHEMERAAVRLGELVGYASAGTIEYLYEPEND   350
 351  RFYFLELNPRLQVEHPTTEMVSGVNLPAAQLQVAMGLPLSRIPHIRELYG   400
 401  LPRDGDSEIDFFFQNPESFKVQKVPTPKGHCVACRITSEDPGEGFKPSSG   450
 451  MIKDLNFRSSSNVWGYFSVGTAGGIHEFADSQFGHIFSFAESRESSRKSM   500
 501  VVALKELSIRGDFRTTVEYLVRLLETKEFSENEFTTGWLDRLIAQKVTSA   550
 551  RPDKMLAVVCGALVRAHATADTQYRAFKSYLERGQVPSREFLKNVYDIEF   600
 601  IYDNTRYRFTASRSSPGSYHLFLNGSRCTAGVRSLTDGGLLVLLNGHSYT   650
 651  VYYRDEVTGTRISIDNLSCMLEQENDPTQLRTPSPGKLVRFLVETGEHIK   700
 701  AGEAYAEVEVMKMIMPLVATEDGVVQLIKQPGASLDAGDILGILTLDDPS   750
 751  RVTHALPFDGQLPNWGEPQIAGNKPCQRYHALLCILLDILKGYDNQIILN   800
 801  STYNEFVEVLRNHELPYSEWSAHYSALVNRISPVLDKLFVSIIEKARSRK   850
 851  AEFPAKQLEVAIQTYCDGQNLATTQQLKVQIAPLLKIISDYKDGLKVHEY   900
 901  NVIKGLLEEYYNVEKLFSGINKREEDVILRLRDENKDDVDKVIALALSHS   950
 951  RIGSKNNLLITILDLMKSEPSTFVSLYFNDILRKLTDLDSRVTSKVSLKA  1000
1001  RELLITCAMPSLNERFSQMEHILKSSVVESHYGDAKFSHRTPSLDILKEL  1050
1051  IDSKYTVFDVLPAFFCHTDPWVSLAALEVYVRRAYRAYSVLEINYHTEAG  1100
1101  TPYVLTWRFQLHSSGAPGLGANSTNGSNFPASTTPSYENSNRRLQSVSDL  1150
1151  SWYVNKTDSEPFRFGTMIAAETFDELENNLALAIDRLPLSRNYFNAGLTL  1200
1201  DGNSSSANDNTQELTNVVNVALTSTGDLDDSAIVSKLNQILSDFRDDLLE  1250
1251  HNVRRVTIVGGRINKSAYPSYYTYRVSAEQKDGNLVHYNEDERIRHIEPA  1300
1301  LAFQLELGRLSNFNIEPVFTDNHNIHVYRATAKNMDTDKRFFTRALVRPG  1350
1351  RLRDEIPTAEYLISETHRLINDILDALEVIGHEQTDLNHIFINFTPAFGL  1400
1401  APKQVEAALGGFLERFGRRLWRLRVTAAEIRIICTDPSTNTLFPLRVIIS  1450
1451  NVSGFVVNVEIYAEVKTENNSWIFKSIGQPGSMHLRPISTPYPTKEWLQP  1500
1501  RRYKAQLMGTTFVYDFPELFRRAFTDSWKKVPNGRSKVTIPQNMFECKEL  1550
1551  VADEHGVLQEVNREPGTNSCGMVAWCITVKTPEYPNGRKIIVVANDITFQ  1600
1601  IGSFGPQEDEYFYKVTQLARQRGIPRIYLAANSGARIGVADEIVPLFNIA  1650
1651  WVDPDSPEKGFDYIYLTPEAYERLQKENPNILTTEEVVTETGELRHKITT  1700
1701  IIGSSEGLGVECLRGSGLIAGVTSRAYNDIFTCTLVTCRAVGIGAYLVRL  1750
1751  GQRAVQIEGQPIILTGAPALNKVLGREVYTSNLQLGGTQVMHRNGISHLT  1800
1801  SQDDFDGISKIVNWISYIPDKRNNPVPISPSSDTWDRDVEFYPSQNGYDP  1850
1851  RWLIAGKEDEDSFLYGLFDKGSFQETLNGWAKTVVVGRARMGGIPTGVIA  1900
1901  VETRTIENTVPADPANPDSTEQVLMEAGQVWYPNSAFKTAQAINDFNHGE  1950
1951  QLPLFILANWRGFSGGQRDMFNEVLKYGSYIVDALASYKQPVFVYIPPFS  2000
2001  ELRGGSWVVVDPTINEDQMEMYADEESRAGVLEPEGMVSIKFRREKLLSL  2050
2051  MRRCDHKYASLCNELKRDDLSADDLSTIKVKLMEREQKLMPIYQQISIHF  2100
2101  ADLHDRVGRMVAKKVVRKPLKWTEARRFFYWRLRRRLNEHYALQKITQLI  2150
2151  PSLTIRESREYLQKWYEEWCGKQDWDESDKSVVCWIEEHNDDLSKRTQEL  2200
2201  KSTYYSERLSKLLRSDRKGMIDSLAQVLTELDENEKKELAGKLASVN     2247

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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