 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching P24733 from www.uniprot.org...
The NucPred score for your sequence is 0.95 (see score help below)
1 MNIDFSDPDFQYLAVDRKKLMKEQTAAFDGKKNCWVPDEKEGFASAEIQS 50
51 SKGDEITVKIVADSSTRTVKKDDIQSMNPPKFEKLEDMANMTYLNEASVL 100
101 YNLRSRYTSGLIYTYSGLFCIAVNPYRRLPIYTDSVIAKYRGKRKTEIPP 150
151 HLFSVADNAYQNMVTDRENQSCLITGESGAGKTENTKKVIMYLAKVACAV 200
201 KKKDEEASDKKEGSLEDQIIQANPVLEAYGNAKTTRNNNSSRFGKFIRIH 250
251 FGPTGKIAGADIETYLLEKSRVTYQQSAERNYHIFYQICSNAIPELNDVM 300
301 LVTPDSGLYSFINQGCLTVDNIDDVEEFKLCDEAFDILGFTKEEKQSMFK 350
351 CTASILHMGEMKFKQRPREEQAESDGTAEAEKVAFLCGINAGDLLKALLK 400
401 PKVKVGTEMVTKGQNMNQVVNSVGALAKSLYDRMFNWLVRRVNKTLDTKA 450
451 KRNYYIGVLDIAGFEIFDFNSFEQLCINYTNERLQQFFNHHMFILEQEEY 500
501 KKEGIAWEFIDFGMDLQMCIDLIEKPMGILSILEEECMFPKADDKSFQDK 550
551 LYQNHMGKNRMFTKPGKPTRPNQGPAHFELHHYAGNVPYSITGWLEKNKD 600
601 PINENVVALLGASKEPLVAELFKAPEEPAGGGKKKKGKSSAFQTISAVHR 650
651 ESLNKLMKNLYSTHPHFVRCIIPNELKQPGLVDAELVLHQLQCNGVLEGI 700
701 RICRKGFPSRLIYSEFKQRYSILAPNAIPQGFVDGKTVSEKILAGLQMDP 750
751 AEYRLGTTKVFFKAGVLGNLEEMRDERLSKIISMFQAHIRGYLIRKAYKK 800
801 LQDQRIGLSVIQRNIRKWLVLRNWQWWKLYSKVKPLLSIARQEEEMKEQL 850
851 KQMDKMKEDLAKTERIKKELEEQNVTLLEQKNDLFLQLQTLEDSMGDQEE 900
901 RVEKLIMQKADFESQIKELEERLLDEEDAAADLEGIKKKMEADNANLKKD 950
951 IGDLENTLQKAEQDKAHKDNQISTLQGEISQQDEHIGKLNKEKKALEEAN 1000
1001 KKTSDSLQAEEDKCNHLNKLKAKLEQALDELEDNLEREKKVRGDVEKAKR 1050
1051 KVEQDLKSTQENVEDLERVKRELEENVRRKEAEISSLNSKLEDEQNLVSQ 1100
1101 LQRKIKELQARIEELEEELEAERNARAKVEKQRAELNRELEELGERLDEA 1150
1151 GGATSAQIELNKKREAELLKIRRDLEEASLQHEAQISALRKKHQDAANEM 1200
1201 ADQVDQLQKVKSKLEKDKKDLKREMDDLESQMTHNMKNKGCSEKVMKQFE 1250
1251 SQMSDLNARLEDSQRSINELQSQKSRLQAENSDLTRQLEDAEHRVSVLSK 1300
1301 EKSQLSSQLEDARRSLEEETRARSKLQNEVRNMHADMDAIREQLEEEQES 1350
1351 KSDVQRQLSKANNEIQQWRSKFESEGANRTEELEDQKRKLLGKLSEAEQT 1400
1401 TEAANAKCSALEKAKSRLQQELEDMSIEVDRANASVNQMEKKQRAFDKTT 1450
1451 AEWQAKVNSLQSELENSQKESRGYSAELYRIKASIEEYQDSIGALRRENK 1500
1501 NLADEIHDLTDQLSEGGRSTHELDKARRRLEMEKEELQAALEEAEGALEQ 1550
1551 EEAKVMRAQLEIATVRNEIDKRIQEKEEEFDNTRRNHQRALESMQASLEA 1600
1601 EAKGKADAMRIKKKLEQDINELEVALDASNRGKAEMEKTVKRYQQQIREM 1650
1651 QTSIEEEQRQRDEARESYNMAERRCTLMSGEVEELRAALEQAERARKASD 1700
1701 NELADANDRVNELTSQVSSVQGQKRKLEGDINAMQTDLDEMHGELKGADE 1750
1751 RCKKAMADAARLADELRAEQDHSNQVEKVRKNLESQVKEFQIRLDEAEAS 1800
1801 SLKGGKKMIQKLESRVHELEAELDNEQRRHAETQKNMRKADRRLKELAFQ 1850
1851 ADEDRKNQERLQELIDKLNAKIKTFKRQVEEAEEIAAINLAKYRKAQHEL 1900
1901 EEAEERADTADSTLQKFRAKSRSSVSVQRSSVSVSASN 1938
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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