 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching Q7Z401 from www.uniprot.org...
The NucPred score for your sequence is 0.90 (see score help below)
1 MIEDKGPRVADYFVVAGLTDVSKPLEEEIHFNDACHKVAKPKEPITDVSV 50
51 IIKSLGEEVPQDYICIDVTPTGLSADLNNGSLVGPQIYLCYRRGRDKPPL 100
101 TDLGVLYDWKERLKQGCEIIQSTPYGRPANISGSTSSQRIYITYRRASEN 150
151 MTQNTLAVTDICIIIPSKGESPPHTFCKVDKNLNNSMWGSAVYLCYKKSV 200
201 AKTNTVSYKAGLICRYPQEDYESFSLPESVPLFCLPMGATIECWPSNSKY 250
251 PLPVFSTFVLTGASAEKVYGAAIQFYEPYSEENLTEKQRLLLGLTSADGK 300
301 SDSSKTIHTNKCICLLSHWPFFDAFRKFLTFLYRYSISGPHVLPIEKHIS 350
351 HFMHKVPFPSPQRPRILVQLSPHDNLILSQPVSSPLPLSGGKFSTLLQNL 400
401 GPENAVTLLVFAVTEHKILIHSLRPSVLTSVTEALVSMIFPFHWPCPYVP 450
451 LCPLALADVLSAPCPFIVGIDSRYFDLYDPPPDVSCVDVDTNTISQIGDK 500
501 KNVAWKILPKKPCKNLMNTLNNLHQQLAKLQQRPRDDGLMDLAINDYDFN 550
551 SGKRLHMIDLEIQEAFLFFMASILKGYRSYLRPITQAPSETATDAASLFA 600
601 LQAFLRSRDRSHQKFYNMMTKTQMFIRFIEECSFVSDKDASLAFFDDCVD 650
651 KVDMDKSGEVRLIELDESFKSEHTVFVTPPEIPHLPNGEEPPLQYSYNGF 700
701 PVLRNNLFERPEGFLQAKKNKLPSKSSSPNSPLPMFRRTKQEIKSAHKIA 750
751 KRYSSIPQMWSRCLLRHCYGLWFICLPAYVKVCHSKVRALKTAYDVLKKM 800
801 QSKKMDPPDEVCYRILMQLCGQYDQPVLAVRVLFEMQKAGIDPNAITYGY 850
851 YNKAVLESTWPSRSRSGYFLWTKVRNVVLGVTQFKRALKKHAHLSQTTLS 900
901 GGQSDLGYNSLSKDEVRRGDTSTEDIQEEKDKKGSDCSSLSESESTKGSA 950
951 DCLPKLSYQNSSSIVRLTGTSNNSAGKISGESMESTPELLLISSLEDTNE 1000
1001 TRNIQSRCFRKRHKSDNETNLQQQVVWGNRNRNLSGGVLMGFMLNRINQE 1050
1051 ATPGDIVEKLGADAKILSNVISKSTRPNTLDIGKPPLRSKRDSLEKESSD 1100
1101 DDTPFDGSNYLADKVDSPVIFDLEDLDSETDVSKAGCVATQNPKRIQRMN 1150
1151 SSFSVKPFEKTDVATGFDPLSLLVAETEQQQKEEEEEDEDDSKSISTPSA 1200
1201 RRDLAEEIVMYMNNMSSPLTSRTPSIDLQRACDDKLNKKSPPLVKACRRS 1250
1251 SLPPNSPKPVRLTKSKSYTKSEEKPRDRLWSSPAFSPTCPFREESQDTLT 1300
1301 HSSPSFNLDTLLVPKLDVLRNSMFTAGKGVAEKASKWYSRFTMYTTSSKD 1350
1351 QSSDRTSLSSVGAQDSESTSLTDEDVCHELEGPISSQETSATSGTKRIDL 1400
1401 SRISLESSASLEGSLSKFALPGKSEVTSSFNASNTNIFQNYAMEVLISSC 1450
1451 SRCRTCDCLVHDEEIMAGWTADDSNLNTTCPFCGNIFLPFLNIEIRDLRR 1500
1501 PGRYFLKSSPSTENMHFPSSISSQTRQSCISTSASGLDTSALSVQGNFDL 1550
1551 NSKSKLQENFCTRSIQIPANRSKTAMSKCPIFPMARSISTSGPLDKEDTG 1600
1601 RQKLISTGSLPATLQGATDSLGLEWHLPSPDPVTVPYLSPLVVWKELESL 1650
1651 LENEGDHAITVADFVDHHPIVFWNLVWYFRRLDLPSNLPGLILSSEHCNK 1700
1701 YSKIPRHCMSEDSKYVLIQMLWDNMKLHQDPGQPLYILWNAHTQKYPMVH 1750
1751 LLQKSDNSFNQELLKSMVKSIKMNDVYGPMSQILETLNKCPHFKRQRSLY 1800
1801 REILFLSLVALGRENIDIDAFDKEYKMAYDRLTPSQVKSTHNCDRPPSTG 1850
1851 VMECRKTFGEPYL 1863
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.