 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching Q02401 from www.uniprot.org...
The NucPred score for your sequence is 0.36 (see score help below)
1 MELPWTALFLSTVLLGLSCQGSDWESDRNFISAAGPLTNDLVLNLNYPPG 50
51 KQGSDVVSGNTDHLLCQQPLPSFLSQYFSSLRASQVTHYKVLLSWAQLLP 100
101 TGSSKNPDQEAVQCYRQLLQSLKDAQLEPMVVLCHQTPPTSSAIQREGAF 150
151 ADLFADYATLAFQSFGDLVEIWFTFSDLEKVIMDLPHKDLKASALQTLSN 200
201 AHRRAFEIYHRKFSSQGGKLSVVLKAEDIPELLPDPALAALVQGSVDFLS 250
251 LDLSYECQSVATLPQKLSELQNLEPKVKVFIYTLKLEDCPATGTSPSSLL 300
301 ISLLEAINKDQIQTVGFDVNAFLSCTSNSEESPSCSLTDSLALQTEQQQE 350
351 TAVPSSPGSAYQRVWAAFANQSREERDAFLQDVFPEGFLWGISTGAFNVE 400
401 GGWAEGGRGPSIWDHYGNLNAAEGQATAKVASDSYHKPASDVALLRGIRA 450
451 QVYKFSISWSGLFPLGQKSTPNRQGVAYYNKLIDRLLDSHIEPMATLFHW 500
501 DLPQALQEQGGWQNESVVEAFLDYAAFCFSTFGDRVKLWVTFHEPWVMSY 550
551 AGYGTGQHAPAISDPGMASFKVAHLILKAHARTWHLYDLHHRLQQQGRVG 600
601 IVLNSDLAEPLDRKSPQDLAAAERFLHFMLGWFAHPIFVDGDYPTTSAQI 650
651 QHINQQCGHPLAQLPEFTEAEKRLLKGSADFLGLSHYTSRLISKAGRQTC 700
701 TSSYDNIGGFSQHVDPEWPQTASPWIRVVPWGIRRLLRFASMEYTKGKLP 750
751 IFLAGNGMPVGEEADLFDDSVRVNYFNWYINEVLKAVKEDLVDVRSYIVR 800
801 SLIDGYEGPLGFSQRFGLYHVNFNDSSRPRTPRKSAYLFTSIIEKNGFSA 850
851 KKVKRNPLPVRADFTSRARVTDSLPSEVPSKAKISVEKFSKQPRFERDLF 900
901 YDGRFRDDFLWGVSSSPYQIEGGWNADGKGPSIWDNFTHTPGNGVKDNAT 950
951 GDVACDSYHQLDADLNILRTLKVKSYRFSISWSRIFPTGRNSTINKQGVD 1000
1001 YYNRLIDSLVDNNIFPMVTLFHWDLPQALQDIGGWENPSLIELFDSYADY 1050
1051 CFKTFGDRVKFWMTFNEPWCHVVLGYSSGIFPPSVQEPGWLPYKVSHIVI 1100
1101 KAHARVYHTYDEKYRSEQKGVISLSLNTHWAEPKDPGLQRDVEAADRMLQ 1150
1151 FTMGWFAHPIFKNGDYPDVMKWTVGNRSELQHLASSRLPTFTEEEKNYVR 1200
1201 GTADVFCHNTYTSVFVQHSTPRLNPPSYDDDMELKLIEMNSSTGVMHQDV 1250
1251 PWGTRRLLNWIKEEYGNIPIYITENGQGLENPTLDDTERIFYHKTYINEA 1300
1301 LKAYKLDGVDLRGYSAWTLMDDFEWLLGYTMRFGLYYVDFNHVSRPRTAR 1350
1351 ASARYYPDLIANNGMPLAREDEFLYGEFPKGFIWSAASASYQVEGAWRAD 1400
1401 GKGLSIWDTFSHTPLRIGNDDNGDVACDSYHKIAEDVVALQNLGVSHYRF 1450
1451 SIAWSRILPDGTTKFINEAGLSYYVRFIDALLAAGITPQVTIYHWDLPQA 1500
1501 LQDVGGWENETIVQRFKEYADVLFQRLGDRVKFWITLNEPFVIAAQGYGT 1550
1551 GVSAPGISFRPGTAPYIAGHNLIKAHAEAWHLYNDVYRARQGGTISITIS 1600
1601 SDWGEPRDPTNREHVEAARSYVQFMGGWFAHPIFKNGDYPEVMKTRIRDR 1650
1651 SLGAGLNKSRLPEFTESEKSRIKGTFDFFGFNHNTTVLAYNLDYPAAFSS 1700
1701 FDADRGVASIADSSWPVSGSFWLKVTPFGFRRILNWLKEEYNNPPIYVTE 1750
1751 NGVSRRGEPELNDTDRIYYLRSYINEALKAVHDKVDLRGYTVWSIMDNFE 1800
1801 WATGFAERFGVHFVNRSDPSLPRIPRASAKFYATIVRCNGFPDPAQGPHP 1850
1851 CLQQPEDAAPTASPVQSEVPFLGLMLGIAEAQTALYVLFALLLLGACSLA 1900
1901 FLTYNTGRRSKQGNAQPSQHQLSPISSF 1928
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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