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

NucPred

Fetching Q6C4J0 from www.uniprot.org...

The NucPred score for your sequence is 0.67 (see score help below)

   1  MGRPFNGNNTHVVKQRSDEFERRRLERIEQLGQKFAAVERRDAIDDRMGF    50
  51  TRFSGDEKRVGWLVNMHETLLQSETAERGLAAVDYYFYDEEGGNFKSTVV   100
 101  FRPYFFVICKPHTEHAVKDLMEKMFERVLASTEIVTKEDLNLTNHLTGKK   150
 151  RKAVKLEFHNSEDLSSTRFTLSKIVDRQTQQTEQHLNIYELEGDVDTSTD   200
 201  VESSITGIKEFDVPFETRVAIDLDIRVGNWYEVTKENDTAVLKHMVEREY   250
 251  RADPVVMAYDIETEKAPLRFPDSAVDRIMMISYMIDGEGFLITNREMVSE   300
 301  DIEDFEYTPKPEFPGNFTIFNEPNEKAVLEKWFEHIRDVCPTVMTSYNGD   350
 351  FFDFPFIDKRTAFHGMNLYDEIGWKKVEEERYECSYCVHMDCLNWVKRDS   400
 401  YLPQGSQGLKAVTKVKLSYDPKELDPEKMTPYARDHPQILAEYSVSDAVA   450
 451  TYYLYMKYVHPFIFSLCCIIPLNPDAVLRKGTGTLCEMLLMVKAYEGRII   500
 501  LPDKHKPALERHYKGHLVDNETYTGGHVESLAAGVFRSDIMVDFDIDTNS   550
 551  IDELLVNLDETLEFCVTVEAGKKSSDFENLDEVRDQIIEQLQELKSNPKR   600
 601  SDYPLIYHVDVASMYPNIMTTNRLQPDSMVDEKDCAVCDYNRPDKTCARE   650
 651  LEWARRVDYYPVSKGDVNNLKQGLVEEYSGGRFGNGSSVEISYDEGMTER   700
 701  EKFQKRKGWAGLSGQEQANKLKERVAAFSLKTKARKTDSETTVQKTIVCQ   750
 751  RENPFYVDVVQEFKQRRIDYKTKAKRWNKEAASASDPASREEAKKMAITN   800
 801  DSMQLAHKVILNSFYGYVMRKGSRWYSMEMAGVTCYTGAKIIKIARQTME   850
 851  GLGIPLELDTDGIWCMLPKTFPEKFKCKFKDGSSYELEYPCSIMNYLVHR   900
 901  DFTNHQYQKLNPETGKYDTHSENSIFFELDGPYKCMMMPTSTDKGKGLKK   950
 951  RYVVFDDRNKIVELKGFEVKRRGELSLIKKFQSQLWDTFLEGSNLVECYA  1000
1001  AQARVAEAWLAVIDSRGKNLSDEELIDLVCENKSMSKPVHEYGSQKSTAL  1050
1051  TTARRLAEIMGDSILTGGKLSTKYIIAVRTKNSMPVPEAKKGSDEDSSTA  1100
1101  DRAIPTLVFETESLDEKLRFLKRWMGPRWESTDPRDVIDWMYYRERLATT  1150
1151  INKLVVIPAILLGLKNPVRGCDPPEWASDIIKQRDNPIKQSTLSSYFVKG  1200
1201  KLPTPEPILSEEDEVMEIQVGDIESIGTTPSPSRPPGVPARVVVSKRVRK  1250
1251  TVEETDKSTPSLPHKAPDPFADYAAYIKYAKVKWKHQKAQRDRRAHLFGE  1300
1301  SDNGIASSWVSKNAHLAQDAWHLVSIHAAEKPGQVEASVIIGDKMQRVQI  1350
1351  NVPRKVYVGSREPLKWDKFTDVTNAMAVAEEEQPKYLYRAVMSEDMYQTE  1400
1401  MTNPESPLKDPHVTKIYEADVSPDSRALIELGSTFHLDASTPGILSKGFT  1450
1451  HGFEAKWFKSGDSRSYLQNSGLSYAHIVHVVSSAVEIFVITPTWDAPALV  1500
1501  FVHQSSSSEKLPDISKEYARLRRGERYKQNMDDCTVFSFPDTMQYEVEYC  1550
1551  SNHRRMLQKVSKACDSLSGSRNGQLVFALHSPDRNVDEKVAALARIPCIR  1600
1601  LRPVPPSTAAVGWQRDLVRRLIASFLSHGANISYLVEMARYAKMPLCHVQ  1650
1651  DTRDVIDVSYARRLIQNSVVLWWSAALSTGGALTDQAEVPVANNPGLYTN  1700
1701  ICFEIKIEHLVLNALLQSAVIQDTEGDIHNELLSNAFNPHALKTLKMVVK  1750
1751  EWWEHGDKKRPPQDLLDNFTVWVYAPESRLFSPQLLYHTQNLTKKTFLYL  1800
1801  AQECRKHQAQLVYADQHKLVLQTEKTELQLVYSYSNYIVRQIRTHPILKY  1850
1851  VSVDITRYWDTFLWMDKWNYGGYSSDVIVDPSKQSESLLMHWHIANFLPE  1900
1901  TLQQEFSKWVQEYIHLLRLRKYPENRTTDVDDMPSDTPMLTDGDKDDAAL  1950
1951  LSDKFFGKGVVSYLHPKLVRRVKLLAQKLSDVLSSGDSIDAFKFPVLPGS  2000
2001  MIQPETNPVVEFAKYVCHIYGINAKANFEVQILLRDLLNIFDINEFSEEG  2050
2051  TFRDPSMSLKLTNMMCFKCKNPCDLDLCKDSCCTKSGFRCPLCNSLYDMV  2100
2101  IVEQRLVGQLQRMILEYETQDFRCDKCRRVKEYELTEFCPCSGSWVTIMS  2150
2151  AEDVHKELSIYDRCARWFELKMLGSFLRQLGYV                   2183

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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