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

NucPred

Fetching Q9Z1T6 from www.uniprot.org...

The NucPred score for your sequence is 0.97 (see score help below)

   1  MATDDKSSPTLDSANDLPRSPASPSHLTHFKPLTPDQDEPPFKSAYSSFV    50
  51  NLFRFNKERGEGGQGEQQSPSSSWASPQIPSRTQSVRSPVPYKKQLNEEL   100
 101  HRRSSVLDSRRKAEPACGGHDPRTAVQLRSLSTVLKRLKEIMEGKSQDSD   150
 151  LKQYWMPDSQCKECYDCSEKFTTFRRRHHCRLCGQIFCSRCCNQEIPGKF   200
 201  MGYTGDLRACTYCRKIALSYAHSTDSNSIGEDLNALSDSTCSVSILDPSE   250
 251  PRTPVGSRKASRNIFLEDDLAWQSLIHPDSSNSALSTRLVSVQEDAGKSP   300
 301  ARNRSASITNLSLDRSGSPMVPSYETSVSPQANRNYIRTETTEDERKILL   350
 351  DSAQLKDLWKKICHHTSGMEFQDHRYWLRTHPNCIVGKELVNWLIRNGHI   400
 401  ATRAQAIAIGQAMVDGRWLDCVSHHDQLFRDEYALYRPLQSTEFSETPSP   450
 451  DSDSVNSVEGHSEPSWFKDIKFDDSDTEQIAEEGDDNLANSASPSKRTSV   500
 501  SSFQSTVDSDSAASISLNVELDNVNFHIKKPSKYPHVPPHPADQKEYLVS   550
 551  DTGGQQLSISDAFIKESLFNRRVEEKSKELPFTPLGWHHNNLELLREENE   600
 601  EKQAMERLLSANHNHMMALLQQLLQNESLSSSWRDIIVSLVCQVVQTVRP   650
 651  DVKHQDDDMDIRQFVHIKKIPGGKKFDSVVVNGFVCTKNIAHKKMNSCIK   700
 701  NPKILLLKCSIEYLYREETKFTCIDPIVLQEREFLKNYVQRIVDVRPTLV   750
 751  LVEKTVSRIAQDMLLEHGITLVINVKSQVLERISRMTQGDLVVSMDQLLT   800
 801  KPHLGTCHKFYMQIFQLPNEQTKTLMFFEGCPQHLGCTIKLRGGSDYELA   850
 851  RVKEILIFMICVAYHSQLEISFLMDEFAMPPTLMQSPSFHLLTEGRGEEG   900
 901  ASQEQVSGSSLPQDPECPREALSSEDSTLLESRTVLEKGELDNKSIPQAV   950
 951  ASLKHQDYTTPTCPAGIPCALFALVPESLLPLHMDQQDAVGNEQPETSQQ  1000
1001  TDEQQDPKSQMKAFRDPLQDDTGMYVTEEVTSSEDQRKTYALTFKQELKD  1050
1051  VILCISPVITFREPFLLTEKGMRCSTRDYFPEQIYWSPLLNKEVKEMESR  1100
1101  RKKQLLRDLSGLQGMNGSVQAKSIQVLPSHELVSTRIAEHLGDSQTLGRM  1150
1151  LADYRARGGRIQSKHLDPFVHSKDASCTSGGKSGNKTESDEERGLIPSDV  1200
1201  IWPTKVDCLNPANHQRLCVLFSSSSAQSSNAPSACVSPWIVTMEFYGKND  1250
1251  LTLGIFLERYCFRSSYQCPSMFCDTPMVHHIRRFVHGQGCVQIILKELDS  1300
1301  PVPGYQHTILTYSWCRICKQVTPVVALSNESWSMSFAKYLELRFYGHQYT  1350
1351  RRANAEPCGHSIHHDYHQYFSYNQMVASFSYSPIRLLEVCVPLPKIFIKR  1400
1401  QAPLKVSLLQDLKDFFQKVSQVYLAVDERLASLKTDTFSKTREEKMEDIF  1450
1451  AQKEMEEGEFKNWTEKMQARLMSSSVDTPQQLQSIFESLIAKKQSLCEVL  1500
1501  QAWNSRLQDLFQQEKGRKRPSVPPSPGRLRQGEESKINAMDTSPRNISPG  1550
1551  LHNGEKEDRFLTTLSSQSSTSSTHLQLPTPPEALAEQVVGGPTDLDSASG  1600
1601  SEDVFDGHLLGSTDSQVKEKSTMKAIFANLLPGNSYNPIPFPFDPDKHYL  1650
1651  MYEHERVPIAVCEKEPSSIIAFALSCKEYRNALEELSKATLRNSAEEGLP  1700
1701  ANSALDNRPKSSSPIRLPEISGGQTNRTVEAEPQPTKKASGMLSFFRGTA  1750
1751  GKSPDLSSQKRETLRGADSAYYQVGQAGKEGLESQGLEPQDEVDGGDTQK  1800
1801  KQLTNPHVELQFSDANAKFYCRLYYAGEFHKMREVILGSSEEEFIRSLSH  1850
1851  SSPWQARGGKSGAAFYATEDDRFILKQMPRLEVQSFLDFAPHYFNYITNA  1900
1901  VQQKRPTALAKILGVYRIGYKNSQNNTEKKLDLLVMENLFYGRKMAQVFD  1950
1951  LKGSLRNRNVKTDTGKESCDVVLLDENLLKMVRDNPLYIRSHSKSVLRTS  2000
2001  IHSDAHFLSSHLIIDYSLLVGRDDTSNELVVGIIDYIRTFTWDKKLEMVV  2050
2051  KSTGILGGQGKMPTVVSPELYRTRFCEAMDKYFLMVPDHWTGLDLNC     2097

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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