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

NucPred

Fetching O60152 from www.uniprot.org...

The NucPred score for your sequence is 0.83 (see score help below)

   1  MLQDESSRSLPRSALIRRRLSLFLQSHALMYSFLWSESAKKSLLNEVFSA    50
  51  LLGYDHTLWNTLLPERPTIDASFLLRRAQGHSEGDEYRHGTCESKCGHIF   100
 101  RKGEVFYRCKTCSVDSNSALCVKCFRATSHKDHETSFTVSAGSGGCCDCG   150
 151  NAAAWIGDVSCKIHSHEEDATISNDMIDEIPEKLENSIQTTIDCVLDFVL   200
 201  DVFSCSPENLKKMPTLESILQDEKTSRLSENKYGDIDDSCNMYSLVLWND   250
 251  EKHSFKQFYEQITTALELPNNVFGKKMANIINDIGRACIVTETNIKELLK   300
 301  IGQKLAQINLAVSIRSMRDIFREESCAVLLEWLADIAGSSICGKRNYFSS   350
 351  VICKELVRPWNCGLHNSDLTFRLSLRSLALPEIVAIDSPDIFLNEDHINS   400
 401  SGPSDTSSHMLETDESSIHSRHWYPSNSLPDVLSYASRVRFDYFFLYDLK   450
 451  LWKSLRYKLQELYLGYFITQPGFKEIMGARIAISYRRLAELFLLLDREPE   500
 501  HSVIFFSMQIFTVADVAKLLVTEYDFLTTINATLYTFFTYKKLNTPNYVD   550
 551  QHAMIRTDSAAFHSRRYIHIFHHIQFMLSIPCVAEIVREDLKFLKQYADF   600
 601  FNLFQGMCPYTRAVSQHVEWENDSWMYVLNVSLQVAKLCRHVGNVFMELN   650
 651  TNKLANAINYLISLILYPKARNESWTNTESLTTGITVDERGNSKLIEYDI   700
 701  ALQPVSFHHPLHWLLVYLLSFYVERDNYKLLWTQLDLLAVTDHPLRVCAW   750
 751  LSQMRAKLWIRNGTTLRDQAHHYRNLSFHEYTFDLDVLLLQLTLTYGDPD   800
 801  AILPSFISRFQLEDQMYGRFFVPHKHYDVSQVTIMMEEFLLLLISIVCNT   850
 851  AVLDHWDITRRIEYGIAHILCFRPLPYSEITKRTCEHLLEHKQFESTLKK   900
 901  VATFRNAEGINDSGSFTLKDEYFDYVDPFNIHYSRNQREEAENILRRRYS   950
 951  KQHSKHLESVVYEEYHPILHSNITIPILQSDSFVGILWHTIVYAYIYPYD  1000
1001  QGKLEGLVNTALHACLLVLMSEKGSEPIFSKKICENRFPVVEGLQEYCNS  1050
1051  PDVTLFSVLCQMKNHRNFVYVKEKISLIMKILKSEVPLLYEPVYAETLSI  1100
1101  SSSKIVQSLSDAEQQEQHLAKVRMAKERQARIMEQFRMQQNKFLENHALF  1150
1151  EASDCEMDEADEFSVTSSVSTKLFLDPPIDTCLLCQEELKDKRPYGTLVF  1200
1201  VLRSSVLRLFPADDANYVSEVLDIPDSLDHEIQERPFGLAGKRKKVLDST  1250
1251  EAYDYDNYYYEKKGNELHQLKDSFNGFPPDQLDRGLHATGCGHFMHIDCF  1300
1301  KNHIATVTLATRANPYRNHPHNLSMKEFLCPLCKALCNTIFPILWRPKEE  1350
1351  INFQEAGVLTAPLKNWLVSKTFSFNKDLNQQLLDIETSPSEHTQSYNLNL  1400
1401  LDVLQHTLRDSLKDIYTLNTGADNSSDNVEENADNLFQSSVLDHVHFKSV  1450
1451  VNNEVPADERLAISDDIFELYRRLDDVIDLNSSLYSDDFIPVNGKLHNVV  1500
1501  KLFSYSLCQVEASTRGHIKCSSIPADIWVHNLGKNQQVFLRILSESIKTY  1550
1551  TLLCAHDSQKRIGGSIQEFEFISFCQQKRIFGRLLPSLDSPVTKSITDDR  1600
1601  VEPLLVKDTFREFAEASVSGLLSCDESFHYLTQLYYTADIVRNLWILLSQ  1650
1651  RNSLLKCMESVEFEAFDYEQLKGFEHLVIQIWKSLRVDGAGLINFDCCTE  1700
1701  DDLNNPHLLFTLYKLLERFSLIFLRKCALLWYCRYGVSFETQPNLNFQNS  1750
1751  ELSRLQTKMHIPGVIELSNHLCLTASSTEWSLIKHWCNFFTETGPLCDFP  1800
1801  RAYYPGIYELVSLPYELDKVFELLLARRCSKCLTEPMEPAICLFCGKLLC  1850
1851  FQSHCCSFNGIGECNLHMQQCASDIGIFLIVKKCAILYLNPPVGSFSVAP  1900
1901  FLDAYGETDLGLRRGRSQYLSQKRYDETVRTMWLNGSIPSYIARQLDANP  1950
1951  DTGGWETL                                            1958

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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