 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching Q8IWV7 from www.uniprot.org...
The NucPred score for your sequence is 0.87 (see score help below)
1 MADEEAGGTERMEISAELPQTPQRLASWWDQQVDFYTAFLHHLAQLVPEI 50
51 YFAEMDPDLEKQEESVQMSIFTPLEWYLFGEDPDICLEKLKHSGAFQLCG 100
101 RVFKSGETTYSCRDCAIDPTCVLCMDCFQDSVHKNHRYKMHTSTGGGFCD 150
151 CGDTEAWKTGPFCVNHEPGRAGTIKENSRCPLNEEVIVQARKIFPSVIKY 200
201 VVEMTIWEEEKELPPELQIREKNERYYCVLFNDEHHSYDHVIYSLQRALD 250
251 CELAEAQLHTTAIDKEGRRAVKAGAYAACQEAKEDIKSHSENVSQHPLHV 300
301 EVLHSEIMAHQKFALRLGSWMNKIMSYSSDFRQIFCQACLREEPDSENPC 350
351 LISRLMLWDAKLYKGARKILHELIFSSFFMEMEYKKLFAMEFVKYYKQLQ 400
401 KEYISDDHDRSISITALSVQMFTVPTLARHLIEEQNVISVITETLLEVLP 450
451 EYLDRNNKFNFQGYSQDKLGRVYAVICDLKYILISKPTIWTERLRMQFLE 500
501 GFRSFLKILTCMQGMEEIRRQVGQHIEVDPDWEAAIAIQMQLKNILLMFQ 550
551 EWCACDEELLLVAYKECHKAVMRCSTSFISSSKTVVQSCGHSLETKSYRV 600
601 SEDLVSIHLPLSRTLAGLHVRLSRLGAVSRLHEFVSFEDFQVEVLVEYPL 650
651 RCLVLVAQVVAEMWRRNGLSLISQVFYYQDVKCREEMYDKDIIMLQIGAS 700
701 LMDPNKFLLLVLQRYELAEAFNKTISTKDQDLIKQYNTLIEEMLQVLIYI 750
751 VGERYVPGVGNVTKEEVTMREIIHLLCIEPMPHSAIAKNLPENENNETGL 800
801 ENVINKVATFKKPGVSGHGVYELKDESLKDFNMYFYHYSKTQHSKAEHMQ 850
851 KKRRKQENKDEALPPPPPPEFCPAFSKVINLLNCDIMMYILRTVFERAID 900
901 TDSNLWTEGMLQMAFHILALGLLEEKQQLQKAPEEEVTFDFYHKASRLGS 950
951 SAMNIQMLLEKLKGIPQLEGQKDMITWILQMFDTVKRLREKSCLIVATTS 1000
1001 GSESIKNDEITHDKEKAERKRKAEAARLHRQKIMAQMSALQKNFIETHKL 1050
1051 MYDNTSEMPGKEDSIMEEESTPAVSDYSRIALGPKRGPSVTEKEVLTCIL 1100
1101 CQEEQEVKIENNAMVLSACVQKSTALTQHRGKPIELSGEALDPLFMDPDL 1150
1151 AYGTYTGSCGHVMHAVCWQKYFEAVQLSSQQRIHVDLFDLESGEYLCPLC 1200
1201 KSLCNTVIPIIPLQPQKINSENADALAQLLTLARWIQTVLARISGYNIRH 1250
1251 AKGENPIPIFFNQGMGDSTLEFHSILSFGVESSIKYSNSIKEMVILFATT 1300
1301 IYRIGLKVPPDERDPRVPMLTWSTCAFTIQAIENLLGDEGKPLFGALQNR 1350
1351 QHNGLKALMQFAVAQRITCPQVLIQKHLVRLLSVVLPNIKSEDTPCLLSI 1400
1401 DLFHVLVGAVLAFPSLYWDDPVDLQPSSVSSSYNHLYLFHLITMAHMLQI 1450
1451 LLTVDTGLPLAQVQEDSEEAHSASSFFAEISQYTSGSIGCDIPGWYLWVS 1500
1501 LKNGITPYLRCAALFFHYLLGVTPPEELHTNSAEGEYSALCSYLSLPTNL 1550
1551 FLLFQEYWDTVRPLLQRWCADPALLNCLKQKNTVVRYPRKRNSLIELPDD 1600
1601 YSCLLNQASHFRCPRSADDERKHPVLCLFCGAILCSQNICCQEIVNGEEV 1650
1651 GACIFHALHCGAGVCIFLKIRECRVVLVEGKARGCAYPAPYLDEYGETDP 1700
1701 GLKRGNPLHLSRERYRKLHLVWQQHCIIEEIARSQETNQMLFGFNWQLL 1749
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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