 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching Q8IWV8 from www.uniprot.org...
The NucPred score for your sequence is 0.90 (see score help below)
1 MASELEPEVQAIDRSLLECSAEEIAGKWLQATDLTREVYQHLAHYVPKIY 50
51 CRGPNPFPQKEDMLAQHVLLGPMEWYLCGEDPAFGFPKLEQANKPSHLCG 100
101 RVFKVGEPTYSCRDCAVDPTCVLCMECFLGSIHRDHRYRMTTSGGGGFCD 150
151 CGDTEAWKEGPYCQKHELNTSEIEEEEDPLVHLSEDVIARTYNIFAITFR 200
201 YAVEILTWEKESELPADLEMVEKSDTYYCMLFNDEVHTYEQVIYTLQKAV 250
251 NCTQKEAIGFATTVDRDGRRSVRYGDFQYCEQAKSVIVRNTSRQTKPLKV 300
301 QVMHSSIVAHQNFGLKLLSWLGSIIGYSDGLRRILCQVGLQEGPDGENSS 350
351 LVDRLMLSDSKLWKGARSVYHQLFMSSLLMDLKYKKLFAVRFAKNYQQLQ 400
401 RDFMEDDHERAVSVTALSVQFFTAPTLARMLITEENLMSIIIKTFMDHLR 450
451 HRDAQGRFQFERYTALQAFKFRRVQSLILDLKYVLISKPTEWSDELRQKF 500
501 LEGFDAFLELLKCMQGMDPITRQVGQHIEMEPEWEAAFTLQMKLTHVISM 550
551 MQDWCASDEKVLIEAYKKCLAVLMQCHGGYTDGEQPITLSICGHSVETIR 600
601 YCVSQEKVSIHLPVSRLLAGLHVLLSKSEVAYKFPELLPLSELSPPMLIE 650
651 HPLRCLVLCAQVHAGMWRRNGFSLVNQIYYYHNVKCRREMFDKDVVMLQT 700
701 GVSMMDPNHFLMIMLSRFELYQIFSTPDYGKRFSSEITHKDVVQQNNTLI 750
751 EEMLYLIIMLVGERFSPGVGQVNATDEIKREIIHQLSIKPMAHSELVKSL 800
801 PEDENKETGMESVIEAVAHFKKPGLTGRGMYELKPECAKEFNLYFYHFSR 850
851 AEQSKAEEAQRKLKRQNREDTALPPPVLPPFCPLFASLVNILQSDVMLCI 900
901 MGTILQWAVEHNGYAWSESMLQRVLHLIGMALQEEKQHLENVTEEHVVTF 950
951 TFTQKISKPGEAPKNSPSILAMLETLQNAPYLEVHKDMIRWILKTFNAVK 1000
1001 KMRESSPTSPVAETEGTIMEESSRDKDKAERKRKAEIARLRREKIMAQMS 1050
1051 EMQRHFIDENKELFQQTLELDASTSAVLDHSPVASDMTLTALGPAQTQVP 1100
1101 EQRQFVTCILCQEEQEVKVESRAMVLAAFVQRSTVLSKNRSKFIQDPEKY 1150
1151 DPLFMHPDLSCGTHTSSCGHIMHAHCWQRYFDSVQAKEQRRQQRLRLHTS 1200
1201 YDVENGEFLCPLCECLSNTVIPLLLPPRNIFNNRLNFSDQPNLTQWIRTI 1250
1251 SQQIKALQFLRKEESTPNNASTKNSENVDELQLPEGFRPDFRPKIPYSES 1300
1301 IKEMLTTFGTATYKVGLKVHPNEEDPRVPIMCWGSCAYTIQSIERILSDE 1350
1351 DKPLFGPLPCRLDDCLRSLTRFAAAHWTVASVSVVQGHFCKLFASLVPND 1400
1401 SHEELPCILDIDMFHLLVGLVLAFPALQCQDFSGISLGTGDLHIFHLVTM 1450
1451 AHIIQILLTSCTEENGMDQENPPCEEESAVLALYKTLHQYTGSALKEIPS 1500
1501 GWHLWRSVRAGIMPFLKCSALFFHYLNGVPSPPDIQVPGTSHFEHLCSYL 1550
1551 SLPNNLICLFQENSEIMNSLIESWCRNSEVKRYLEGERDAIRYPRESNKL 1600
1601 INLPEDYSSLINQASNFSCPKSGGDKSRAPTLCLVCGSLLCSQSYCCQTE 1650
1651 LEGEDVGACTAHTYSCGSGVGIFLRVRECQVLFLAGKTKGCFYSPPYLDD 1700
1701 YGETDQGLRRGNPLHLCKERFKKIQKLWHQHSVTEEIGHAQEANQTLVGI 1750
1751 DWQHL 1755
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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