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

NucPred

Fetching Q752B8 from www.uniprot.org...

The NucPred score for your sequence is 0.97 (see score help below)

   1  MSNRFKGSSTGHYVRAGAGGQPNTYGLTAHQLLQSKKVDDIDAMMGFERH    50
  51  ISPQDGAGAGNSERIGWLCNMHPTVVADELNAGASGVGVAGVDFYFLDEE   100
 101  GGSFKSTILYDPYFLLSCQDSNRVHDVEEFLKKYLEGCLKTVEVVQKDDL   150
 151  AMDNHLVGLKRTLLKLNFVNTNNLFEARKLLRPILKDNEENQQQRDIYSL   200
 201  NDTTNRRDAKMLIDDIREYDVPYHVRVCIDKEIRVGKWYRVTSGGLVEYT   250
 251  DKVAFADPVVLAFDIETTKAPLKFPDSAIDQIMMISYMIDGEGYLITNRE   300
 301  IISEDIEDFEYTPKPEYQGLFTVFNEEDERSLLERFFEHIRDVRPTVIST   350
 351  FNGDFFDWPFVEARSKIRGLSMFDEIGFAPDSEGEYKSSYCAHMDCYRWV   400
 401  KRDSYLPQGSQGLKAVTQVKLGYNPIELDPELMTPYAYEKPQHLSEYSVS   450
 451  DAVATYYLYMKYVHPFIFSLCTVLPLNPDEVLRKGTGTLCEMLLMVQAYD   500
 501  HGILLPNKHTEPIERFYDGHLLESETYVGGHVESLEAGVFRSDIDCDFTI   550
 551  DSTAIDELLQDLPHALKFCIEVENKTKVEDVLDFEDILNTITEQLQELKM   600
 601  NNKRKELPLIYHVDVASMYPNIMTTNRLQPDSMKTERDCASCDFNRPGKK   650
 651  CDRRLKWTWRGEFLPAKMDEYAMVKRALMNEVFPNKYKNTTKKLLTFDEL   700
 701  SYSEQVSHIKKRLSEYSRKVYHRVKVTESVVRESIVCQRENPFYVNTVRS   750
 751  FRDRRYEFKGHAKTWKKKLSQIDPEDKVARDEARKMIVLYDSLQLAHKVI   800
 801  LNSFYGYAMRKGSRWYSIEMAGITCSTGATIIQMARALVERIGRPLELDT   850
 851  DGIWCIIPRSFPENFEFTLKNGKKLYLSYPCSMLNYKVHQSFTNHQYQEL   900
 901  VNDAKHKYKISSDNSIFFEVDGPYKAMILPTSKEEGKGIKKRYAVFNEDG   950
 951  SLAELKGFELKRRGELQLIKNFQQDIFKVFLEGRTLEECYGAVAKVANRW  1000
1001  LDILDSKGSMLETEDLIDLICENKSMSKKLKEYDGQKSTSITTARRLGEF  1050
1051  LGQEMVKDAGLQCKFIISSKPANAPVTERAIPVAIFSADHNIKKLFLRKW  1100
1101  LLDSSLDNFDLRAILDWNYYRERLASVIQKIITIPAALQNVNNPVPRVDH  1150
1151  PEWLRKKIATSESKFKQTSIGRFFKKSNGMPEIADIEDNAFSTESSSGAK  1200
1201  VARVVTKKKRKRENETKDNQPVLPSVMPAIDEDYVGWLNYQKIKWQLQAE  1250
1251  ERHRRKQLFGSSSTLNDRSALGNIIKKHAESYANSDWEILQYKNSSEPGV  1300
1301  VEVHALISGKVQSLKFHIHKTVFLKFKTDTLPPGGIPNCVIEKSNAILPN  1350
1351  TKEDSYNTSSSLFRVTCPETVFLDEQNKVSSVFNSGNILGIYESTIPASE  1400
1401  RAIMELGNAVKFKSNVMGALSKGLQHGFQAKNLLSVTSERYLQRFDLEVI  1450
1451  YLLNLTTNLGYEFFVLFNGWGDQAKVFVLKPSIAAQELSRHALEAAYEQQ  1500
1501  YLKKVKNFEKFRHYFMPAESAKFELHHFTDKSVLLRSLSKVVSSWSELKG  1550
1551  SQLLLLLQSPTPSRLLKSIRILNQLPVVQLSTCELAFPTLNWQDQLIKKT  1600
1601  VSHILQLGSWLSNLTILSNYTRIPICNLNLTNLGYVIDIMYARRLKLENI  1650
1651  VLWWNQKQPLPDRGGIQNEYNPHTLSLATDLTSPVINNPEFYDSAVLEIE  1700
1701  VNNLLVNTILTSTLINEAEGGDVAGPESGGREGGGFVEDAFSTASVNILR  1750
1751  SLLKDLWDDALQNNSTADSLVHSFIGWVQSVDSKLFDYTLRYYVNMLTKK  1800
1801  ALFQLINEFRFMGSQVVFLDRNKILLKTSKNTIDNSYAYGQYLIKAIRTR  1850
1851  PLFSYLDLKIVRYWDILLWMDQYNHGGCACLKIEEKERQDIQAYSSWHIK  1900
1901  NFLAPIYQQEFDDWLVIILDSMIKCKQQFYELSGTQRLTQLPNRSQAADE  1950
1951  DDENSVFAGFTKRFYQPFINRISKLYKTQQEYILDPNFRADYIIPDLPGR  2000
2001  NPKMKAGNPLLELVKSLCHVLLLCKERTLEVRALRKEALEVFEIREFDSS  2050
2051  ASFENPASSLIINNFMCENCAYFSDLDICMSDLRSMFKCSKCYRTLRKPF  2100
2101  IEENLIQKLQIQTIAYISQDLRCAKCRKIKSDTMSAYCTCSGKWVQTISK  2150
2151  DTYLKNVQLFYHVAEYFGFSLLLSAIKGGI                      2180

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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