 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching Q7KRY7 from www.uniprot.org...
The NucPred score for your sequence is 0.79 (see score help below)
1 MFKCIPIFKGCNRQVEFVDKRHCSLPQVPEEILRYSRTLEELFLDANHIR 50
51 DLPKNFFRLHRLRKLGLSDNEIGRLPPDIQNFENLVELDVSRNDIPDIPD 100
101 DIKHLQSLQVADFSSNPIPKLPSGFSQLKNLTVLGLNDMSLTTLPADFGS 150
151 LTQLESLELRENLLKHLPETISQLTKLKRLDLGDNEIEDLPPYLGYLPGL 200
201 HELWLDHNQLQRLPPELGLLTKLTYLDVSENRLEELPNEISGLVSLTDLD 250
251 LAQNLLEALPDGIAKLSRLTILKLDQNRLQRLNDTLGNCENMQELILTEN 300
301 FLSELPASIGQMTKLNNLNVDRNALEYLPLEIGQCANLGVLSLRDNKLKK 350
351 LPPELGNCTVLHVLDVSGNQLLYLPYSLVNLQLKAVWLSENQSQPLLTFQ 400
401 PDTDAETGEQVLSCYLLPQQEYQPITPARDLESDSEPFEEREPSRTVVKF 450
451 SEEATQEKETPFVRQNTPHPKDLKAKAQKLKVERSRNEEHANLVTLPEEN 500
501 GTKLAETPTETRTIANNHQQQPHPVQQPIVGVNSKQPVVVGVVTPTTTTV 550
551 APTGVQGGSEGASSTANNVKAATAAVVAELAATVGGSDEVQDDDEQEDEF 600
601 ESDRRVGFQVEGEDDDFYKRPPKLHRRDTPHHLKNKRVQHLTDKQASEIL 650
651 ANALASQERNDTTPQHSLSGKVTSPIEEEEQLEVEQEQQQQQQQHPFDSS 700
701 LSPISAGKTAEASTDPDNLDGVTELRLEQYEIHIERTAAGLGLSIAGGKG 750
751 STPFKGDDDGIFISRVTEAGPADLAGLKVGDKVIKVNGIVVVDADHYQAV 800
801 QVLKACGAVLVLVVQREVTRLIGHPVFSEDGSVSQISVETRPLVADAPPA 850
851 ASISHERYIPAPIEIVPQQQHLQQQQQQPIQQVAPTHSYSGNVFATPTAA 900
901 QTVQPAVSAAPNGLLLNGREAPLSYIQLHTTLIRDQIGQGLGFSIAGGKG 950
951 SPPFKDDCDGIFISRITEGGLAYRDGKIMVGDRVMAINGNDMTEAHHDAA 1000
1001 VACLTEPQRFVRLVLQREYRGPLEPPTSPRSPAVLNSLSPSGYLANRPAN 1050
1051 FSRSVVEVEQPYKYNTLATTTPTPKPTVPASISNNNNTLPSSKTNGFATA 1100
1101 AAATIDSSTGQPVPAPRRTNSVPMGDGDIGAGSTTSGDSGEAQPSSLRPL 1150
1151 TSDDFQAMIPAHFLSGGSQHQVHVARPNEVGVSAVTVNVNKPQPDLPMFP 1200
1201 AAPTELGRVTETITKSTFTETVMTRITDNQLAEPLISEEVVLPKNQGSLG 1250
1251 FSIIGGTDHSCVPFGTREPGIFISHIVPGGIASKCGKLRMGDRILKVNEA 1300
1301 DVSKATHQDAVLELLKPGDEIKLTIQHDPLPPGFQEVLLSKAEGERLGMH 1350
1351 IKGGLNGQRGNPADPSDEGVFVSKINSVGAARRDGRLKVGMRLLEVNGHS 1400
1401 LLGASHQDAVNVLRNAGNEIQLVVCKGYDKSNLIHSIGQAGGMSTGFNSS 1450
1451 ASCSGGSRQGSRASETGSELSQSQSVSSLDHEEDERLRQDFDVFASQKPD 1500
1501 AQQPTGPSVLAAAAAMVHGASSPTPPAATSNITPLPTAAAVASADLTAPD 1550
1551 TPATQTVALIHAEQQAHQQQQQTQLAPLGQEKSTQEKVLEIVRAADAFTT 1600
1601 VPPKSPSEHHEQDKIQKTTTVVISKHTLDTNPTTPTTPAAPLSIAGAESA 1650
1651 NSAGAPSPAVPASTPGSAPVLPAVAVQTQTQTTSTEKDEEEESQLQSTPA 1700
1701 SRDGAEEQQEEVRAKPTPTKVPKSVSDKKRFFESAMEDQHKPTQKTDKVF 1750
1751 SFLSKDEVEKLRQEEERKIATLRRDKNSRLLDAANDNIDKDAAQQRTKSN 1800
1801 SNSSSGDDNDDSDQEEGIARGDSVDNAALGHFDDAEDMRNPLDEIEAVFR 1850
1851 S 1851
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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