 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching Q27309 from www.uniprot.org...
The NucPred score for your sequence is 0.75 (see score help below)
1 MKLFVLAAIIAAVSSDRFSSQSQSTGGQTYPSPWQVGKQYRYEVTSRTLA 50
51 HLQEGPSSGSAFKAQFTIRVKSPGRLQAKLENPQHGNFNEQLPDPRELPV 100
101 DLKYQPTPNIDKVFEIEIDGGRIVSLDFPTSVPVPQENLIKGLISALQLD 150
151 TSAHRVIHDSQNNYDREQQQGLFRKMETDVTGDCETLYTVSPVASEWRRE 200
201 LPKFANEQDPVEVTKSTNYGHCHHRVAYHFGVPVGAEWTGTAHKTQEQQL 250
251 IGRATYSRILTGKEGPIYKAETTSTVHVHPHLYGKQKAEVYSHVHMELIS 300
301 VDQDSGAEWPRAGAMRPAQSILYSLSTKQMTKHYESSSSSSSSESHEFNF 350
351 PEQHEHPHQSNQRSRRSYMRSKLVTVHKVLKKRNSESSSGSSSSSADSSS 400
401 TYINDDIPDIDEPAYAALYMSPQPHADKKQNAMNAQKILQDIAQQLQNPN 450
451 NMPKSDFLSKFNILVRLIASMSTEQLSQTSRSIETAKTSNNIIKSDMWMI 500
501 FRDGVTQAGTLPAFKQIQSWIENKKIQEEEAAQVVVALPRTLRYPTKQIM 550
551 TQFFNFARSPAVKDQMFLNSSALMAATKLINLGQVNNYTAHSYYPTHMYG 600
601 RLTHKHDAFVLEEILPTLAADLKATVEYKDSTKAQVYIQAIGNLGHREIL 650
651 KVFAPYLEGKVEISTYLRTHIVKNLKTLAKLRDRHVRAVLFSILRNTAEP 700
701 YPVRVAAIQSIFISHPTGEMMQAMAEMTHNDPSVEVRAVLKSAILSAAEL 750
751 QHPRNFYLSRTAQAARYLVTNEEFGYQHSFKFIDDSYDEDNDIGTFVISH 800
801 IGSEDSLLPKDFKIVTNSKGGAWERNTIEASFSSAERFLDYLRDSVFAPH 850
851 PKFDRAHKYSAEKIAKLLNIKNDEEEPLEASFYVDFMNNQRLFSFSESDL 900
901 QQLSQYISEYMKKVESGAEKHYTKVYNQDQVSIMFPVASGMPFIFKYKEP 950
951 AVIHFQSKLKGKFSFPSKDNKYYEANMIKDVQFTYAINIDGNVGFMDTLS 1000
1001 NQYSSVGVVNKLQFNIPFKFGIEIKSGLIKFRVEPLHPDQDQTLVHYSVW 1050
1051 PYSASQKKDSLVAISQDPATKIVERRSKVFSVDSKYGQSTHAVIYAQGYT 1100
1101 YSSDWRNFGAKFTSRDYFTNLASLLTQEDIALTHFNLKHLCKQSQSKALT 1150
1151 ITAYYDEYYNQQNSGILTDATDRNDLSPNSETRRAEMVKLVSAGINKARV 1200
1201 RVVDLSASFEGSQDQNYVLTGTWGDSPVDSKVQGMLFAGTKSATQGNQQI 1250
1251 NAVFATTKPEIHSLSFSKPLQSDLRAPFGMHFKYGQSGEIRVSGSFDRTK 1300
1301 KYTTELENHPLAKQCSQQTTLNNFYQDSCHKAIVMAHAPDHVEFSVSFQD 1350
1351 MSPQYRNFSYHTYRLYEYLGYWYTEANPLKLTQNGKMDFKIDFSYFDRTY 1400
1401 TVDIASPSGEARMRDMPIATMAPGALSFYQPLKAYELVANYFTGHQYQPY 1450
1451 CSIDGTRIHTFSNRSYEYPLSRSWHVVMQDESTQRGNWHELAILSRRQQR 1500
1501 DQQEIYISYKSESGQDLEIEIQPASGDSAYQVKVTTNTKKITDDDLTMYW 1550
1551 DDVKEQPFLQYHTHKDGVLVINIEDDRIRAIYDGQRFVVFTQDYRNSTRG 1600
1601 ICGRMSGEQRDDYLTPEGLVDKPELYAAAYSLNEENSDPKTQELKALATQ 1650
1651 QAYYPEYKYTSILRSDPTWQEESQSCGEDQWQSETVYKSRSYDKHKGACE 1700
1701 VRQQVQFYENHGDICITTSRVPSCQSHCRAGDYKIQHVQVTCKSKLDHDF 1750
1751 RMYKEQIKKGQNPEVSGIPSVKQFKVPVTCQP 1782
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.