 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching P59511 from www.uniprot.org...
The NucPred score for your sequence is 0.82 (see score help below)
1 MRVAKWLTGLLCPISLLLTGSWEVRFHPRQEALVKTLASYEVVTPTRVNE 50
51 FGDVFPQNRHFSRKKRSSGVPEPPPFRTHYRISAYGQLFQLNLSADAAFL 100
101 AAGYTEVHLGTPVPGPGGRSTESPDLRHCFYRGQVNAREDHTAVFSLCGG 150
151 LMGTFKANDGEYFLEPVLRADGSAHDDDHNKPHLIYRQELKRNSFARSHK 200
201 PCEVSENQMEKTALPSQSSRNTTGDVDIEEEAVFRLEGERSQLHSRNKRF 250
251 LSYPRYVEVMVTADAKMVHHHGQNLQHYVLTLMSIVAAIYKDSSIGNLIN 300
301 IVIVKLVVIHSEQEGPVISFNAATTLRNFCLWQQSQNVPDDAHPSHHDTA 350
351 VLITREDICGAKEKCDTLGLAELGTLCDPSRSCSISEENGLSAAFTIAHE 400
401 LGHVFNVPHDDSFKCKEAGIKHQYHVMAPTLNYHTSPWTWSACSQKHITE 450
451 FLDTGHGECLLDKPNGRTYDLSPQLPGSVYDGNRQCELMFGPGSQVCPYL 500
501 KHCRRLWCTSAEGVHKGCRTQHMPLADGTSCGPGMHCHRGLCVTRDMETR 550
551 PVDGEWGPWGPYSSCSRTCGGGIKSTARLCDRPEPRNGGRYCVGRRMKFR 600
601 SCNTDSCPKGKRDFREKQCSDFDGKHFDINGLPPNVRWLPKYSGIAVKDR 650
651 CKLYCRVAGTTSFYQLKDRVADGTPCGTETNDICVQGLCRQAGCDHVLNS 700
701 KAKRDKCGVCGGDNSSCQTLAGVFNSAHYGYNVVVKIPAGATNIEILQHS 750
751 YSGRPEDDNYLALSDTQGNFLLNGNFVVSMAKKEINIQGAVFEYSGSNNS 800
801 IERINSTDRLEAELVLQVLCVGNLYNPDVRYSFNIPIEERSNLFSWDPYG 850
851 PWQDCTKMCQGLHRRKIACVRKSDHAVVSDHNCGHLPMPLFVTEKCNMDC 900
901 ELRWHIIGKSDCSSQCGQGYRTLDVHCMKYSVHKGQAVPVGDQYCGDQLK 950
951 PPSREPCHGSCVLTRWHYSEWSQCSRSCGGGDKTRESYCVNGFGHRLAES 1000
1001 ECRELPRVVLENCNEFPCPSWATSEWSECPVTCGKGMKQRQVWCQLSEDP 1050
1051 MRDGFCNASTKPESLRPCELRACASWHVGPWGSCTATCGHGYQMRAVKCI 1100
1101 SEIFGTMLDDRECPQASRPSDRQDCILAPCLAIPEVGATSLPAIPLGRAA 1150
1151 QWRHGSWTPCSVSCGRGSQARYVSCRDAHDEVADESNCAHLPRPAAVSLC 1200
1201 FSPCGEWQAGDWSPCSASCGHGKTTRRVLCVNYHQLVDESYCDPEGRPVT 1250
1251 EQECSLAACPPLYSRAPSSSEQPSHVPSRNVPLTHKPGENQDQGAQLSIR 1300
1301 GNQWRTGPWGACSRSCAGGLQHRAVVCQDEDGRSATSCDGSSKPPESRHC 1350
1351 GSGPCPHWNYGDWGECTQTCGGGVKSRFVICQFPNGQMTQEHSCELPKPP 1400
1401 SMMQCHLHACPEDVSWYRGPWKSCSASCGKGVKYREVLCIDQFQRKLEEK 1450
1451 YCSHLHKPRTHKACRSGRCPSWKANKWKECSVTCGSGVQQREVYCRLRGT 1500
1501 GRVSEDMCDPSTRPQGQRQCWRQDCMRYQWTTGDWLDCSTSCKKKETYRL 1550
1551 VKCVNEQNVQANESLCDPLTKPLSIKKCRNPHCKYSVVTGDSSQCAGNCG 1600
1601 FTSPQKITYCTKIQSSKKHTFHQLRPVVYGECPVIPSPQAYKCDLRSCLH 1650
1651 VATWKVGKWSKCSVTCGIGIMERRVACRTENGWPSDLCLKRLKPDAQKKC 1700
1701 YANDCKLLTTCKELQVTNNVTKDGDYDLNVRGRILKIHCSGMQLENPREY 1750
1751 LPLVKSEDNFSEIYGLRLQNPYECPFNGSRRPDCACENDYLPAGYTVFSK 1800
1801 VRVDLESMQIKTADLLFSQTLSGKAVPFATAGDCYSAARCPQGQFSINLA 1850
1851 GTGMKISNTAKWLAQGRYASVIIHRSQDGTKVYGRCGGFCGKCIPHMATG 1900
1901 LSIQVL 1906
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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