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

NucPred

Fetching P53804 from www.uniprot.org...

The NucPred score for your sequence is 0.95 (see score help below)

   1  MDNFAEGDFTVADYALLEDCPHVDDCVFAAEFMSNDYVRVTQLYCDGVGV    50
51 QYKDYIQSERNLEFDICSIWCSKPISVLQDYCDAIKINIFWPLLFQHQNS 100
101 SVISRLHPCVDANNSRASEINLKKLQHLELMEDIVDLAKKVANDSFLIGG 150
151 LLRIGCKIENKILAMEEALNWIKYAGDVTILTKLGSIDNCWPMLSIFFTE 200
201 YKYHITKIVMEDCNLLEELKTQSCMDCIEEGELMKMKGNEEFSKERFDIA 250
251 IIYYTRAIEYRPENYLLYGNRALCFLRTGQFRNALGDGKRATILKNTWPK 300
301 GHYRYCDALSMLGEYDWALQANIKAQKLCKNDPEGIKDLIQQHVKLQKQI 350
351 EDLQGRTANKDPIKAFYENRAYTPRSLSAPIFTTSLNFVEKERDFRKINH 400
401 EMANGGNQNLKVADEALKVDDCDCHPEFSPPSSQPPKHKGKQKSRNNESE 450
451 KFSSSSPLTLPADLKNILEKQFSKSSRAAHQDFANIMKMLRSLIQDGYMA 500
501 LLEQRCRSAAQAFTELLNGLDPQKIKQLNLAMINYVLVVYGLAISLLGIG 550
551 QPEELSEAENQFKRIIEHYPSEGLDCLAYCGIGKVYLKKNRFLEALNHFE 600
601 KARTLIYRLPGVLTWPTSNVIIEESQPQKIKMLLEKFVEECKFPPVPDAI 650
651 CCYQKCHGYSKIQIYITDPDFKGFIRISCCQYCKIEFHMNCWKKLKTTTF 700
701 NDKIDKDFLQGICLTPDCEGVISKIIIFSSGGEVKCEFEHKVIKEKVPPR 750
751 PILKQKCSSLEKLRLKEDKKLKRKIQKKEAKKLAQERMEEDLRESNPPKN 800
801 EEQKETVDNVQRCQFLDDRILQCIKQYADKIKSGIQNTAMLLKELLSWKV 850
851 LSTEDYTTCFSSRNFLNEAVDYVIRHLIQENNRVKTRIFLHVLSELKEVE 900
901 PKLAAWIQKLNSFGLDATGTFFSRYGASLKLLDFSIMTFLWNEKYGHKLD 950
951 SIEGKQLDYFSEPASLKEARCLIWLLEEHRDKFPALHSALDEFFDIMDSR 1000
1001 CTVLRKQDSGEAPFSSTKVKNKSKKKKPKDSKPMLVGSGTTSVTSNNEII 1050
1051 TSSEDHSNRNSDSAGPFAVPDHLRQDVEEFEALYDQHSNEYVVRNKKLWD 1100
1101 MNPKQKCSTLYDYFSQFLEEHGPLDMSNKMFSAEYEFFPEETRQILEKAG 1150
1151 GLKPFLLGCPRFVVIDNCIALKKVASRLKKKRKKKNIKTKVEEISKAGEY 1200
1201 VRVKLQLNPAAREFKPDVKSKPVSDSSSAPAFENVKPKPVSANSPKPACE 1250
1251 DVKAKPVSDNSSRQVSEDGQPKGVSSNSPKPGSEDANYKRVSCNSPKPVL 1300
1301 EDVKPTYWAQSHLVTGYCTYLPFQRFDITQTPPAYINVLPGLPQYTSIYT 1350
1351 PLASLSPEYQLPRSVPVVPSFVANDRADKNAAAYFEGHHLNAENVAGHQI 1400
1401 ASETQILEGSLGISVKSHCSTGDAHTVLSESNRNDEHCGNSNNKCEVIPE 1450
1451 STSAVTNIPHVQMVAIQVSWNIIHQEVNTEPYNPFEERQGEISRIEKEHQ 1500
1501 VLQDQLQEVYENYEQIKLKGLEETRDLEEKLKRHLEENKISKTELDWFLQ 1550
1551 DLEREIKKWQQEKKEIQERLKSLKKKIKKVSNASEMYTQKNDGKEKEHEL 1600
1601 HLDQSLEISNTLTNEKMKIEEYIKKGKEDYEESHQRAVAAEVSVLENWKE 1650
1651 SEVYKLQIMESQAEAFLKKLGLISRDPAAYPDMESDIRSWELFLSNVTKE 1700
1701 IEKAKSQFEEQIKAIKNGSRLSELSKVQISELSFPACNTVHPELLPESSG 1750
1751 DDGQGLVTSASDVTGNHAALHRDPSVFSAGDSPGEAPSALLPGPPPGQPE 1800
1801 ATQLTGPKRAGQAALSERSPVADRKQPVPPGRAARSSQSPKKPFNSIIEH 1850
1851 LSVVFPCYNSTELAGFIKKVRSKNKNSLSGLSIDEIVQRVTEHILDEQKK 1900
1901 KKPNPGKDKRTYEPSSATPVTRSSQGSPSVVVAPSPKTKGQKAEDVPVRI 1950
1951 ALGASSCEICHEVFKSKNVRVLKCGHKYHKGCFKQWLKGQSACPACQGRD 2000
2001 LLTEESPSGRGWPSQNQELPSCSSR 2025

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.)

Go back to the NucPred Home Page.