 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching Q8BRB7 from www.uniprot.org...
The NucPred score for your sequence is 0.98 (see score help below)
1 MVKLANPLYTEWILEAVQKIKKQKQRPSEERICHAVSTSHGLDKKTVSEQ 50
51 LELSVQDGSVLKVTNKGLASYKDPDNPGRFSSVKPGTFPKPTKGSKGPPC 100
101 NDLRNVDWNKLLKRAIEGLEEPNGSSLKNIEKYLRSQSDLTGTTNHPAFQ 150
151 QRLRLGAKRAVNNGRLLKEGPQYRVNSGSSDGKGAPQYPSAFPSSLPPVS 200
201 LLPHEKDQPRADPIPICSFCLGTKESNREKKPEELLSCADCGSSGHPSCL 250
251 KFCPELTANVKALRWQCIECKTCSACRVQGKNADNMLFCDSCDRGFHMEC 300
301 CDPPLSRMPKGMWICQVCRPKKKGRKLLHEKAAQIKRRYAKPIGRPKNKL 350
351 KQRLLSVTSDEGSMSAFTGRGSPGRGQKTKVSTTPSSGHAASGKHSSSRL 400
401 AVTDPTRPGATTKTTTSSTYISASTLKVNKKTKGLIDGLTKFFTPSPDGR 450
451 RSRGEIIDFSKHYRPRKKVSQKQSCTSHVLATDTDIKISIKQESADVSLV 500
501 GNKELVTEEDLDVFKQAQELSWEKIECESGVEDCGRYPSVIEFGKYEIQT 550
551 WYSSPYPQEYARLPKLYLCEFCLKYMKSKNILLRHSKKCGWFHPPANEIY 600
601 RRKDLSVFEVDGNMSKIYCQNLCLLAKLFLDHKTLYYDVEPFLFYVLTKN 650
651 DEKGCHLVGYFSKEKLCQQKYNVSCIMIMPQHQRQGFGRFLIDFSYLLSR 700
701 REGQAGSPEKPLSDLGRLSYLAYWKSVILEYLYRHHERHISIKAISRATG 750
751 MCPHDIATTLQHLHMIDRRDGRFVIIRREKLILGHMEKLKNCSRPNELDP 800
801 ESLRWTPMLISNAVVSEEEREAEKEAERLMEQASCWEKEEQEILSSRVSS 850
851 RQSSAKVQSKNKYLHSPERRPVAGERGQLLELSKESSEEEEEEEEEDDEE 900
901 EEEEEEEESIQTSPPRLTKPQSVSIKRKRPFVVKKKRGRKRRRINSSVTT 950
951 ETISETTEVLNEPFDNSDEERPMPQLEPTCEIPVEEGGRKPVLRKAFPHQ 1000
1001 PGKKRQTEEEEGEDNHFFKTAALCRKDVDDDAEHLKEGSKDNPEPLKCRQ 1050
1051 VWPKGAKRGLSKWKQSKERKTGFKLNLYTPPETPMEPEDQVTIEEQKELS 1100
1101 EDKGSPVGMEREVTETVDALLPQEGSRREETGIPVSPHKSPGGKVDEEDL 1150
1151 IRGEEEGEEEGEEEGEREEQEEEEEVTTEKDLDGAKSKENPEPEISMEKE 1200
1201 DPVHLGDHEEDEDEEEEPSHNEDHDADDEDDGHMEAANMERGDLPRETFK 1250
1251 DALEGQEAFLDLSIQPSHSNPEVLMNCGVDLTMSCNSEPKELAGDTGTAP 1300
1301 ESDAEPPEEQTQKQDQKNSDGVDAELEEGGPAAVEIDSETAQAVQSLTQE 1350
1351 NREHDDTFPDCAETQEACRSLQNYTHTDQSPQIATTLDECQQSDHSSPVS 1400
1401 SVHSHPGQSVRSVNSPSVPALENSYAQISPDQTAITVPPLQNMETSPMMD 1450
1451 VPSVSDHSQQVVDSGFSDLGSIESTTENYENPSSYDSTMGGSICGNGSSQ 1500
1501 NSCSYSSLTSSNLTQNSCAVTQQMSNISGSCSMLQQTSISSPPTCSVKSP 1550
1551 QGCVVERPPSSSQQLAQCSMAANFTPPMQLADIPETSNANIGLYERMGQS 1600
1601 DFGAGHYPQPSATFSLAKLQQLTNTLIDHSLPYSHSAAVTSYANSASLST 1650
1651 PLSNTGLVQLSQSPHSVPGGPQAQATMTPPPNLTPPPMNLPPPLLQRNMA 1700
1701 ASNIGISHSQRLQTQIASKGHVSMRTKAASLSPAAATHQSQIYGRSQTVA 1750
1751 MQGPARTLTMQRGMNMSVNLMPAPAYNVNSVNMNMNTLNAMNGYSMSQPM 1800
1801 MNSGYHSNHGYMNQTPQYPMQMQMGMMGSQPYAQQPMQTPPHANMMYTAP 1850
1851 GHHGYMNTGMSKQSLNGSYMRR 1872
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.) |
Go back to the NucPred Home Page.