| Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching Q8CFE5 from www.uniprot.org...
The NucPred score for your sequence is 0.98 (see score help below)
1 MGANASNYPHSCSPRVGGNSQAQQTFIGTSSYSQQGYGCESKLYSLDHGH 50
51 EKPQDKKKRTSGLATLKKKFIKRRKSNRSADHAKQMRELLSGWDVRDVNA 100
101 LVEEYEGTSALKELSLQASLARPEARTLQKDMADLYEDKYCTDVDLIFQE 150
151 TCFPVHRAILAARCPFFKTLLSSSPEYGAEIIMDISTAGIDMPMFSALLH 200
201 YLYTGEFGMEDSRFQNVDILVQLSEEFGTPNPLDVDMRGLFDYMCYYDVV 250
251 LSFSSDSELVEAFGGNQNCLDEELKAHKAIISARSPFFRNLLQRRIRTGE 300
301 EITDRTLRTPTRIILDESIIPKKYAKVILHCMYTDVVDLSVLHCSPSVGS 350
351 LSEVQALVAGKPNMTRAEEAMELYHIALFLEFNMLAQGCEDIIAESISLD 400
401 TLIAVLKWSSHPYGSKWVHRQAVHFLCEELSQVMTSDVFYELSKDHLLTA 450
451 IQSDYLQASEQDILKYLIKWGEHQLMKRIADREPNLLSGTAHSVNKRGVK 500
501 RRDLDIEELREILSSLLPFVRIEHILPINSEVLSDAMKRGLISTPPSDML 550
551 PTAEGGKSNAWLRQKNAGIYVRPRLFSPYVEEAKSVLDEMMVEQTDLVRL 600
601 RMVRMSNVPDTLYMVSNAMPQCCHMISHQQISSNQSSPPSVVANEIPVPR 650
651 LLIMKDMVRRLQELRHTEQVQRAYALNCGEGATVSYEIQIRVLREFGLAD 700
701 AAAELLQNPHKFFPDERFGDESPLLTMRQPGRCRVNSTPTAETMFTDLDS 750
751 FVAFHPPLPPPPPPYHPPATPIHNQLKAGWKQRPPSHHPSRSFSYPCNHS 800
801 LFHCRTAPKPGPPPVYLPGVKVAPPDCTNTTGLGRQTVAAAAAAAAASAA 850
851 IIPEKQVCPQPVLNDLMPDIAMGVSTLSLKDRRLPELAADTELCQTVSEA 900
901 GTGPPQHLSCIPQRHTNTSRKKPTLEQKADGRENQQEYPDLYDFSNAACR 950
951 PSTPAPGRHSPSPAHGRYFGPDLYSHNKASPNGLKSVYLPGQTSPKKQED 1000
1001 PRREYPPSPDGHPHRQKREPIRLDVVEQPPQRPDFPSAASENASHGPAHV 1050
1051 RARTAVETDLTFGLTSNRPPSHSACSSEVLEERSSRRLTDSEPLGHGAHQ 1100
1101 RNADLERGDSISRGRRSPSKPDFLYKKSAL 1130
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.