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

NucPred

Fetching Q80XJ3 from www.uniprot.org...

The NucPred score for your sequence is 0.75 (see score help below)

   1  MEQPPPLAPEPASARSRRRREPESPPAPIPLFGARTVVQRSPDEPALSKA    50
  51  EFVEKVRQSNQACHDGDFHTAIVLYNEALAVDPQNCILYSNRSAAYMKTQ   100
 101  QYHKALDDAIKARLLNPKWPKAYFRQGVALQYLGRHADALAAFASGLAQD   150
 151  PKSLQLLVGMVEAAMKSPMRDTLEPTYQQLQKMKLDKSPFVVVSVVGQEL   200
 201  LTAGHHGASVVVLEAALKIGTCSLKLRGSVFSALSSAHWSLGNTEKSTGY   250
 251  MQQDLDVAKTLGDQTGECRAHGNLGSAFFSKGNYREALTNHRHQLVLAMK   300
 301  LKDREAASSALSSLGHVYTAIGDYPNALASHKQCVLLAKQSKDDLSEARE   350
 351  LGNMGAVYIAMGDFENAVQCHEQHLRIAKDLGSKREEARAYSNLGSAYHY   400
 401  RRNFDKAMSYHNCVLELAQELMEKPIEMRAYAGLGHAARCMQDLERAKQY   450
 451  HEQQLGIAEDLKDRAAEGRASSNLGIIHQMKGDYDTALKLHKTHLCIAQE   500
 501  LSDYAAQGRAYGNMGNAYNALGMYDQAVKYHRQELQISMEVNDRASQAST   550
 551  HGNLAVAYQALGAHDRALQHYQNHLNIARELRDIQSEARALSNLGNFHCS   600
 601  RGEYVQAAPYYEQYLRLAPDLQDMEGEGKVCHNLGYAHYCLGNYQEAVKY   650
 651  YEQDLALAKDLHDKLSQAKAYCNLGLAFKALLNFAKAEECQKYLLSLAQS   700
 701  LDNSQAKFRALGNLGDIFICKKDINGAIKFYEQQLGLSHHVKDRRLEASA   750
 751  YAALGTAYRMVQKYDKALGYHTQELEVYQELSDLPGECRAHGHLAAVYMA   800
 801  LGKYTMAFKCYQEQLELGRKLKEPSLEAQVYGNMGITKMNMNVMEDAIGY   850
 851  FEQQLAMLQQLSGNESVLDRGRAYGNLGDCYEALGDYEEAIKYYEQYLSV   900
 901  AQSLNRMQDQAKAYRGLGNGHRATGSLQQALVCFEKRLVVAHELGEASNK   950
 951  AQAYGELGSLHSQLGNYEQAISCLERQLNIARDMKDRALESDAACGLGGV  1000
1001  YQQMGEYDTALQYHQLDLQIAEETDNPTCQGRAYGNLGLTYESLGTFERA  1050
1051  VVYQEQHLSIAAQMNDLVAKTVSYSSLGRTHHALQNYSQAVMYLQEGLRL  1100
1101  AEQLGRREDEAKIRHGLGLSLWASGNLEEAQHQLYRASALFETIRHEAQL  1150
1151  STDYKLSLFDLQTSSYQALQRVLVSLGHHDEALAVAERGRTRAFADLLVE  1200
1201  RQTGQQDSDPYSPITIDQILEMVNAQRGLVLYYSLAAGYLYSWLLAPGAG  1250
1251  ILKFHEHYLGDNSVESSSDFQAGSSAALPVATNSTLEQHIASVREALGVE  1300
1301  SYYSRACASSETESEAGDIMEQQLEEMNKQLNSVTDPTGFLRMVRHNNLL  1350
1351  HRSCQSMTSLFSGTVSPSKDGTSSLPRRQNSLAKPPLRALYDLLIAPMEG  1400
1401  GLMHSSGPVGRHRQLVLVLEGELYFVPFALLKGSASNEYLYERFTLIAVP  1450
1451  AVRSLGPHSKCHLRKTPPTYSSSTTMAAVIGNPKLPSAVMDRWLWGPMPS  1500
1501  AEEEAFMVSELLGCQPLVGSMATKERVMSALTQAECVHFATHVSWKLSAL  1550
1551  VLTPNTEGNPAGSKSSFGHPYTIPESLRVQDDASDVESISDCPPLRELLL  1600
1601  TAADLLDLRLSVKLVVLSSSQEANGRVTADGLVALTRAFLAAGAQCVLVA  1650
1651  LWPVPVAASKMFVHAFYSSLLNGLKASASLGEAMKVVQSSKAFSHPSNWA  1700
1701  GFTLIGSDVKLNSPSSLIGQALTEILQHPERARDALRVLLHLVEKSLQRI  1750
1751  QNGQRNAMYTSQQSVENKVGGIPGWQALLTAVGFRLDPAASGLPAAVFFP  1800
1801  TSDPGDRLQQCSSTLQALLGLPNPALQALCKLITASETGEQLISRAVKNM  1850
1851  VGMLHQVLVQLQACEKEQDFASAPIPVSLSVQLWRLPGCHEFLAALGFDL  1900
1901  CEVGQEEVILKTGKQASRRTTHFALQSLLSLFDSTELPKRLSLDSSSSLE  1950
1951  SLASAQSVSNALPLGYQHPPFSPTGADSIASDAISVYSLSSIASSMSFVS  2000
2001  KPEGGLEGGGPRGRQDYDRSKSTHPQRATLPRRQTSPQARRGASKEEEEY  2050
2051  EGFSIISMEPLATYQGEGKTRFSPDPKQPCVKAPGGVRLSVSSKGSVSTP  2100
2101  NSPVKMTLIPSPNSPFQKVGKLASSDTGESDQSSTETDSTVKSQEESTPK  2150
2151  LDPQELAQRILEETKSHLLAVERLQRSGGPAGPDREDSVVAPSSTTVFRA  2200
2201  SETSAFSKPILSHQRSQLSPLTVKPQPPARSSSLPKVSSPATSEVSGKDG  2250
2251  LSPPGSSHPSPGRDTPVSPADPPLFRLKYPSSPYSAHISKSPRNTSPACS  2300
2301  APSPALSYSSAGSARSSPADAPDEKVQAVHSLKMLWQSTPQPPRGPRKTC  2350
2351  RGAPGTLTSKRDVLSLLNLSPRHGKEEGGADRLELKELSVQRHDEVPPKV  2400
2401  PTNGHWCTDTATLTTAGGRSTTAAPRPLRLPLANGYKFLSPGRLFPSSKC  2450

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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