 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching P21263 from www.uniprot.org...
The NucPred score for your sequence is 0.70 (see score help below)
1 MEGCVGEESFQMWELNRRLEAYLTRVKTLEEQNQLLSAELGGLRAQSGDT 50
51 SWRARADDELASLRILVDQRWREKLEAEVQRDNLAEELESVAGRCQQVRL 100
101 ARERTVQEAACSRRALEAEKNARGWLSTQAAELERELEALRAAHEEERAH 150
151 LNAQAACAPRRPPAPPHGSPVRAPEVEDLARRLGEVWRGAVRDYQERVAH 200
201 MESSLGQARERLSQAVRGARECRLEVQQLQADRDSLQERREALEQRLEGR 250
251 WQDRLQATDKFQLAVEALEQEKQGLQSQIAQILEGGQQLAHLKMSLSLEV 300
301 ATYRTLLEAENSRLQTPGRGSQASLGFLDPKLKPNFLGIPEDQYLGSVLP 350
351 ALSPTSFPSPLPNTLETPVTAFLKTQEFLQARTPTLASTPIPPISEAPCP 400
401 PNAEVRAQEVPLSLLQTQAPEPLWAEATVPSSSAILPELEEPGGKQQGHF 450
451 PDDLTSLATTLNPHHPTLEAKDGESSGSRVSSIFQEDEGQIWELVEKEAD 500
501 IEVKVENSSAQKTQESGLDTEETQDSQGPLQKETLKALGEEPLMSLKIQN 550
551 YETAGKENCNSSTEGHLGTLEGPEKEKQIPLKSLEEKNVESEKTLENGVP 600
601 VLSELLGKEDTRTEDQELMSPKGTLKRFSSLGKESQEVVRPSKEGNLESW 650
651 TAFKEESQHPLGFPGAEDQMLERLVEKEDQSFPRSPEEEDQEACRPLQKE 700
701 NQEPLGYEEAEGQILERLIEKESQESLRSPEEEDQEAGRSLQKGNQEPLG 750
751 YEEAEGQILERLIEKESQESLRSAEEEDQEACRSLQKENQEPLGYEEAED 800
801 QILERLIEKESQESLRSPEEEDQEAGRSLQKENQEPLGYEEAEDQMLERL 850
851 IEKESQESLKSPEENQRIGKPLERENQKSLRYLEENQETFVPLESRNQRP 900
901 LRSLEVEEEEQRIVKPLEKVSQDSLGSLAEENVQPLRYLEEDNCINKSLL 950
951 EDKTHKSLGSLEDRNGDSIIIPQESETQVSLRPPEEEDQRIVNHLEKESQ 1000
1001 EFSRSSEEEERVMERSLEGENHESLSSVEKEDQMVESQLEKESQDSGKSL 1050
1051 EDESQETFGPLEKENAESLRSLAGQDQEEQKLEQETQQTLRAVGNEQMAV 1100
1101 SPPEKVDPELPKPLGNDQEIARSLGKENQESLVSLKEKGIETVKSLETEI 1150
1151 IEPLETAEEDLERRKSIDTQEPLWSTEVARETVEPPEDEPPGSLGSVDEN 1200
1201 RETLTSLEKESQELSSLGKWNVETRVEDSQQCLQVEEGLQEEQHQESLRE 1250
1251 VKQELPSSGNQQRWEDVVEGKAVGQEAPLATTGVGTEDKAELHLRGQGGE 1300
1301 EEAAAEGELLQDIVGEAWSLGSSEPKEQRVPAEALDNLEGGALEVPVAQS 1350
1351 MPEVTERDEDRAQAGEQDSIEVTLGLEAARTGLELEQEVVGLEDPRHFAR 1400
1401 EEAIPPSLGEESVKAKIAQGLEGPGKEPKEAGALDSGILELPKTSSEALE 1450
1451 CQGHEESESMEGWEEEEASLETSDHEGSDAPQPRPPETEEDEGAQAALTA 1500
1501 PGPKLLEPCSPIPILTDAHELQPQAEGIQEAGWQPEAGSEALERVENEPE 1550
1551 FGLGEIPEGLQDWEEGREESEADDLGETLPDSTPLGLYLRSPASPKWDLA 1600
1601 GEQRLSPQGDAGKEDWGPAVPAAQGLSGPPEEEEEQGHGSDLSSEEFEDL 1650
1651 GTEASLLPGVPKEVADHVGQVPPVLQPACWDQGGESDGFADEEESGEEGE 1700
1701 EEDADEEGAESGAQWWGSGASGGGCKVQDIAQRGDPVQESVGVSGLWDDG 1750
1751 LRGAAANVPALEMVSQDSAEPSGSEESESASLEGEEGQVTDHLDAPQEVT 1800
1801 SMVPGVGDAFDIGGQSPNLDSEQVNGKMENGLEQAEGQVVLDGDEDQELL 1850
1851 LQGQEVGALKVPLVASPVHLGPSQPLKFTLSGVDGDSWSSGED 1893
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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