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

NucPred

Fetching P15389 from www.uniprot.org...

The NucPred score for your sequence is 0.69 (see score help below)

   1  MANLLLPRGTSSFRRFTRESLAAIEKRMAEKQARGGSATSQESREGLQEE    50
  51  EAPRPQLDLQASKKLPDLYGNPPRELIGEPLEDLDPFYSTQKTFIVLNKG   100
 101  KTIFRFSATNALYVLSPFHPVRRAAVKILVHSLFSMLIMCTILTNCVFMA   150
 151  QHDPPPWTKYVEYTFTAIYTFESLVKILARGFCLHAFTFLRDPWNWLDFS   200
 201  VIVMAYTTEFVDLGNVSALRTFRVLRALKTISVISGLKTIVGALIQSVKK   250
 251  LADVMVLTVFCLSVFALIGLQLFMGNLRHKCVRNFTELNGTNGSVEADGL   300
 301  VWNSLDVYLNDPANYLLKNGTTDVLLCGNSSDAGTCPEGYRCLKAGENPD   350
 351  HGYTSFDSFAWAFLALFRLMTQDCWERLYQQTLRSAGKIYMIFFMLVIFL   400
 401  GSFYLVNLILAVVAMAYEEQNQATIAETEEKEKRFQEAMEMLKKEHEALT   450
 451  IRGVDTVSRSSLEMSPLAPVTNHERKSKRRKRLSSGTEDGGDDRLPKSDS   500
 501  EDGPRALNQLSLTHGLSRTSMRPRSSRGSIFTFRRRDQGSEADFADDENS   550
 551  TAGESESHRTSLLVPWPLRHPSAQGQPGPGASAPGYVLNGKRNSTVDCNG   600
 601  VVSLLGAGDAEATSPGSYLLRPMVLDRPPDTTTPSEEPGGPQMLTPQAPC   650
 651  ADGFEEPGARQRALSAVSVLTSALEELEESHRKCPPCWNRFAQHYLIWEC   700
 701  CPLWMSIKQKVKFVVMDPFADLTITMCIVLNTLFMALEHYNMTAEFEEML   750
 751  QVGNLVFTGIFTAEMTFKIIALDPYYYFQQGWNIFDSIIVILSLMELGLS   800
 801  RMGNLSVLRSFRLLRVFKLAKSWPTLNTLIKIIGNSVGALGNLTLVLAII   850
 851  VFIFAVVGMQLFGKNYSELRHRISDSGLLPRWHMMDFFHAFLIIFRILCG   900
 901  EWIETMWDCMEVSGQSLCLLVFLLVMVIGNLVVLNLFLALLLSSFSADNL   950
 951  TAPDEDGEMNNLQLALARIQRGLRFVKRTTWDFCCGILRRRPKKPAALAT  1000
1001  HSQLPSCITAPRSPPPPEVEKVPPARKETRFEEDKRPGQGTPGDSEPVCV  1050
1051  PIAVAESDTEDQEEDEENSLGTEEESSKQESQVVSGGHEPYQEPRAWSQV  1100
1101  SETTSSEAGASTSQADWQQEQKTEPQAPGCGETPEDSYSEGSTADMTNTA  1150
1151  DLLEQIPDLGEDVKDPEDCFTEGCVRRCPCCMVDTTQSPGKVWWRLRKTC  1200
1201  YRIVEHSWFETFIIFMILLSSGALAFEDIYLEERKTIKVLLEYADKMFTY  1250
1251  VFVLEMLLKWVAYGFKKYFTNAWCWLDFLIVDVSLVSLVANTLGFAEMGP  1300
1301  IKSLRTLRALRPLRALSRFEGMRVVVNALVGAIPSIMNVLLVCLIFWLIF  1350
1351  SIMGVNLFAGKFGRCINQTEGDLPLNYTIVNNKSECESFNVTGELYWTKV  1400
1401  KVNFDNVGAGYLALLQVATFKGWMDIMYAAVDSRGYEEQPQWEDNLYMYI  1450
1451  YFVVFIIFGSFFTLNLFIGVIIDNFNQQKKKLGGQDIFMTEEQKKYYNAM  1500
1501  KKLGSKKPQKPIPRPLNKYQGFIFDIVTKQAFDVTIMFLICLNMVTMMVE  1550
1551  TDDQSPEKVNILAKINLLFVAIFTGECIVKMAALRHYYFTNSWNIFDFVV  1600
1601  VILSIVGTVLSDIIQKYFFSPTLFRVIRLARIGRILRLIRGAKGIRTLLF  1650
1651  ALMMSLPALFNIGLLLFLVMFIYSIFGMANFAYVKWEAGIDDMFNFQTFA  1700
1701  NSMLCLFQITTSAGWDGLLSPILNTGPPYCDPNLPNSNGSRGNCGSPAVG  1750
1751  ILFFTTYIIISFLIVVNMYIAIILENFSVATEESTEPLSEDDFDMFYEIW  1800
1801  EKFDPEATQFIEYLALSDFADALSEPLRIAKPNQISLINMDLPMVSGDRI  1850
1851  HCMDILFAFTKRVLGESGEMDALKIQMEEKFMAANPSKISYEPITTTLRR  1900
1901  KHEEVSATVIQRAFRRHLLQRSVKHASFLFRQQAGGSGLSDEDAPEREGL  1950
1951  IAYMMNGNFSRRSAPLSSSSISSTSFPPSYDSVTRATSDNLPVRASDYSR  2000
2001  SEDLADFPPSPDRDRESIV                                 2019

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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