 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching Q07283 from www.uniprot.org...
The NucPred score for your sequence is 0.95 (see score help below)
1 MSPLLRSICDITEIFNQYVSHDCDGAALTKKDLKNLLEREFGAVLRRPHD 50
51 PKTVDLILELLDLDSNGRVDFNEFLLFIFKVAQACYYALGQATGLDEEKR 100
101 ARCDGKESLLQDRRQEEDQRRFEPRDRQLEEEPGQRRRQKRQEQERELAE 150
151 GEEQSEKQERLEQRDRQRRDEELWRQRQEWQEREERRAEEEQLQSCKGHE 200
201 TEEFPDEEQLRRRELLELRRKGREEKQQQRRERQDRVFQEEEEKEWRKRE 250
251 TVLRKEEEKLQEEEPQRQRELQEEEEQLRKLERQELRRERQEEEQQQQRL 300
301 RREQQLRRKQEEERREQQEERREQQERREQQEERREQQLRREQEERREQQ 350
351 LRREQEEERREQQLRREQEEERREQQLRREQQLRREQQLRREQQLRREQQ 400
401 LRREQQLRREQQLRREQQLRREQQLRREQEEERHEQKHEQERREQRLKRE 450
451 QEERRDWLKREEETERHEQERRKQQLKRDQEEERRERWLKLEEEERREQQ 500
501 ERREQQLRREQEERREQRLKRQEEEERLQQRLRSEQQLRREQEERREQLL 550
551 KREEEKRLEQERREQRLKREQEERRDQLLKREEERRQQRLKREQEERLEQ 600
601 RLKREEVERLEQEERREQRLKREEPEEERRQQLLKSEEQEERRQQQLRRE 650
651 QQERREQRLKREEEEERLEQRLKREHEEERREQELAEEEQEQARERIKSR 700
701 IPKWQWQLESEADARQSKVYSRPRKQEGQRRRQEQEEKRRRRESELQWQE 750
751 EERAHRQQQEEEQRRDFTWQWQAEEKSERGRQRLSARPPLREQRERQLRA 800
801 EERQQREQRFLPEEEEKEQRRRQRREREKELQFLEEEEQLQRRERAQQLQ 850
851 EEEDGLQEDQERRRSQEQRRDQKWRWQLEEERKRRRHTLYAKPALQEQLR 900
901 KEQQLLQEEEEELQREEREKRRRQEQERQYREEEQLQQEEEQLLREEREK 950
951 RRRQERERQYRKDKKLQQKEEQLLGEEPEKRRRQEREKKYREEEELQQEE 1000
1001 EQLLREEREKRRRQEWERQYRKKDELQQEEEQLLREEREKRRLQERERQY 1050
1051 REEEELQQEEEQLLGEERETRRRQELERQYRKEEELQQEEEQLLREEPEK 1100
1101 RRRQERERQCREEEELQQEEEQLLREEREKRRRQELERQYREEEEVQQEE 1150
1151 EQLLREEPEKRRRQELERQYREEEELQQEEEQLLREEQEKRRQERERQYR 1200
1201 EEEELQRQKRKQRYRDEDQRSDLKWQWEPEKENAVRDNKVYCKGRENEQF 1250
1251 RQLEDSQLRDRQSQQDLQHLLGEQQERDREQERRRWQQRDRHFPEEEQLE 1300
1301 REEQKEAKRRDRKSQEEKQLLREEREEKRRRQETDRKFREEEQLLQEREE 1350
1351 QPLRRQERDRKFREEELRHQEQGRKFLEEEQRLRRQERERKFLKEEQQLR 1400
1401 CQEREQQLRQDRDRKFREEEQQLSRQERDRKFREEEQQVRRQERERKFLE 1450
1451 EEQQLRQERHRKFREEEQLLQEREEQQLHRQERDRKFLEEEQQLRRQERD 1500
1501 RKFREQELRSQEPERKFLEEEQQLHRQQRQRKFLQEEQQLRRQERGQQRR 1550
1551 QDRDRKFREEEQLRQEREEQQLSRQERDRKFRLEEQKVRRQEQERKFMED 1600
1601 EQQLRRQEGQQQLRQERDRKFREDEQLLQEREEQQLHRQERDRKFLEEEP 1650
1651 QLRRQEREQQLRHDRDRKFREEEQLLQEGEEQQLRRQERDRKFREEEQQL 1700
1701 RRQERERKFLQEEQQLRRQELERKFREEEQLRQETEQEQLRRQERYRKIL 1750
1751 EEEQLRPEREEQQLRRQERDRKFREEEQLRQEREEQQLRSQESDRKFREE 1800
1801 EQLRQEREEQQLRPQQRDGKYRWEEEQLQLEEQEQRLRQERDRQYRAEEQ 1850
1851 FATQEKSRREEQELWQEEEQKRRQERERKLREEHIRRQQKEEQRHRQVGE 1900
1901 IKSQEGKGHGRLLEPGTHQFASVPVRSSPLYEYIQEQRSQYRP 1943
Positively and negatively influencing subsequences are coloured according to the following scale:
(non-nuclear) negative ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| positive (nuclear)
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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