SBC logo Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden.

NucPred

Fetching Q13813 from www.uniprot.org...

The NucPred score for your sequence is 0.91 (see score help below)

   1  MDPSGVKVLETAEDIQERRQQVLDRYHRFKELSTLRRQKLEDSYRFQFFQ    50
  51  RDAEELEKWIQEKLQIASDENYKDPTNLQGKLQKHQAFEAEVQANSGAIV   100
 101  KLDETGNLMISEGHFASETIRTRLMELHRQWELLLEKMREKGIKLLQAQK   150
 151  LVQYLRECEDVMDWINDKEAIVTSEELGQDLEHVEVLQKKFEEFQTDMAA   200
 201  HEERVNEVNQFAAKLIQEQHPEEELIKTKQDEVNAAWQRLKGLALQRQGK   250
 251  LFGAAEVQRFNRDVDETISWIKEKEQLMASDDFGRDLASVQALLRKHEGL   300
 301  ERDLAALEDKVKALCAEADRLQQSHPLSATQIQVKREELITNWEQIRTLA   350
 351  AERHARLNDSYRLQRFLADFRDLTSWVTEMKALINADELASDVAGAEALL   400
 401  DRHQEHKGEIDAHEDSFKSADESGQALLAAGHYASDEVREKLTVLSEERA   450
 451  ALLELWELRRQQYEQCMDLQLFYRDTEQVDNWMSKQEAFLLNEDLGDSLD   500
 501  SVEALLKKHEDFEKSLSAQEEKITALDEFATKLIQNNHYAMEDVATRRDA   550
 551  LLSRRNALHERAMRRRAQLADSFHLQQFFRDSDELKSWVNEKMKTATDEA   600
 601  YKDPSNLQGKVQKHQAFEAELSANQSRIDALEKAGQKLIDVNHYAKDEVA   650
 651  ARMNEVISLWKKLLEATELKGIKLREANQQQQFNRNVEDIELWLYEVEGH   700
 701  LASDDYGKDLTNVQNLQKKHALLEADVAAHQDRIDGITIQARQFQDAGHF   750
 751  DAENIKKKQEALVARYEALKEPMVARKQKLADSLRLQQLFRDVEDEETWI   800
 801  REKEPIAASTNRGKDLIGVQNLLKKHQALQAEIAGHEPRIKAVTQKGNAM   850
 851  VEEGHFAAEDVKAKLHELNQKWEALKAKASQRRQDLEDSLQAQQYFADAN   900
 901  EAESWMREKEPIVGSTDYGKDEDSAEALLKKHEALMSDLSAYGSSIQALR   950
 951  EQAQSCRQQVAPTDDETGKELVLALYDYQEKSPREVTMKKGDILTLLNST  1000
1001  NKDWWKVEVNDRQGFVPAAYVKKLDPAQSASRENLLEEQGSIALRQEQID  1050
1051  NQTRITKEAGSVSLRMKQVEELYHSLLELGEKRKGMLEKSCKKFMLFREA  1100
1101  NELQQWINEKEAALTSEEVGADLEQVEVLQKKFDDFQKDLKANESRLKDI  1150
1151  NKVAEDLESEGLMAEEVQAVQQQEVYGMMPRDETDSKTASPWKSARLMVH  1200
1201  TVATFNSIKELNERWRSLQQLAEERSQLLGSAHEVQRFHRDADETKEWIE  1250
1251  EKNQALNTDNYGHDLASVQALQRKHEGFERDLAALGDKVNSLGETAERLI  1300
1301  QSHPESAEDLQEKCTELNQAWSSLGKRADQRKAKLGDSHDLQRFLSDFRD  1350
1351  LMSWINGIRGLVSSDELAKDVTGAEALLERHQEHRTEIDARAGTFQAFEQ  1400
1401  FGQQLLAHGHYASPEIKQKLDILDQERADLEKAWVQRRMMLDQCLELQLF  1450
1451  HRDCEQAENWMAAREAFLNTEDKGDSLDSVEALIKKHEDFDKAINVQEEK  1500
1501  IAALQAFADQLIAAGHYAKGDISSRRNEVLDRWRRLKAQMIEKRSKLGES  1550
1551  QTLQQFSRDVDEIEAWISEKLQTASDESYKDPTNIQSKHQKHQAFEAELH  1600
1601  ANADRIRGVIDMGNSLIERGACAGSEDAVKARLAALADQWQFLVQKSAEK  1650
1651  SQKLKEANKQQNFNTGIKDFDFWLSEVEALLASEDYGKDLASVNNLLKKH  1700
1701  QLLEADISAHEDRLKDLNSQADSLMTSSAFDTSQVKDKRDTINGRFQKIK  1750
1751  SMAASRRAKLNESHRLHQFFRDMDDEESWIKEKKLLVGSEDYGRDLTGVQ  1800
1801  NLRKKHKRLEAELAAHEPAIQGVLDTGKKLSDDNTIGKEEIQQRLAQFVE  1850
1851  HWKELKQLAAARGQRLEESLEYQQFVANVEEEEAWINEKMTLVASEDYGD  1900
1901  TLAAIQGLLKKHEAFETDFTVHKDRVNDVCTNGQDLIKKNNHHEENISSK  1950
1951  MKGLNGKVSDLEKAAAQRKAKLDENSAFLQFNWKADVVESWIGEKENSLK  2000
2001  TDDYGRDLSSVQTLLTKQETFDAGLQAFQQEGIANITALKDQLLAAKHVQ  2050
2051  SKAIEARHASLMKRWSQLLANSAARKKKLLEAQSHFRKVEDLFLTFAKKA  2100
2101  SAFNSWFENAEEDLTDPVRCNSLEEIKALREAHDAFRSSLSSAQADFNQL  2150
2151  AELDRQIKSFRVASNPYTWFTMEALEETWRNLQKIIKERELELQKEQRRQ  2200
2201  EENDKLRQEFAQHANAFHQWIQETRTYLLDGSCMVEESGTLESQLEATKR  2250
2251  KHQEIRAMRSQLKKIEDLGAAMEEALILDNKYTEHSTVGLAQQWDQLDQL  2300
2301  GMRMQHNLEQQIQARNTTGVTEEALKEFSMMFKHFDKDKSGRLNHQEFKS  2350
2351  CLRSLGYDLPMVEEGEPDPEFEAILDTVDPNRDGHVSLQEYMAFMISRET  2400
2401  ENVKSSEEIESAFRALSSEGKPYVTKEELYQNLTREQADYCVSHMKPYVD  2450
2451  GKGRELPTAFDYVEFTRSLFVN                              2472

Positively and negatively influencing subsequences are coloured according to the following scale:

(non-nuclear) negative ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| positive (nuclear)

with NucPred



If you find NucPred useful, please cite this paper:
NucPred - Predicting Nuclear Localization of Proteins. Brameier M, Krings A, Maccallum RM. Bioinformatics, 2007. PubMed id: 17332022
The authors also look forward to your comments and suggestions.

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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