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

NucPred

Fetching Q9ULI0 from www.uniprot.org...

The NucPred score for your sequence is 1.00 (see score help below)

   1  MVNTRKSSLRLLGSKSPGPGPGPGAGAEPGATGGSSHFISSRTRSSKTRA    50
  51  ASCPAAKAGGSGGAGVTLDEARKVEVDGSLSDSHVSPPAKRTLKQPDSVC   100
 101  KDKSKSRSTGQREEWNLSTGQARLTSQPGATLPNGHSGLSLRSHPLRGEK   150
 151  KGDGDLSCINGDMEVRKSCRSRKNRFESVNQSLLFDQLVNSTAEAVLQEM   200
 201  DNINIRRNRRSGEVERLRMWTDTEFENMDMYSRVKRRRKSLRRNSYGIQN   250
 251  HHEVSTEGEEEESQEEDGDIEVEEAEGEENDRPYNLRQRKTVDRYQAPPI   300
 301  VPAHQKKRENTLFDIHRSPARRSHIRRKKHAIHSSDTTSSDEERFERRKS   350
 351  KSMARARNRCLPMNFRAEDLASGILRERVKVGASLADVDPMNIDKSVRFD   400
 401  SIGGLSHHIHALKEMVVFPLLYPEIFEKFKIQPPRGCLFYGPPGTGKTLV   450
 451  ARALANECSQGDKKVAFFMRKGADCLSKWVGESERQLRLLFDQAYLMRPS   500
 501  IIFFDEIDGLAPVRSSRQDQIHSSIVSTLLALMDGLDNRGEIVVIGATNR   550
 551  LDSIDPALRRPGRFDREFLFNLPDQKARKHILQIHTRDWNPKLSDAFLGE   600
 601  LAEKCVGYCGADIKALCTEAALIALRRRYPQIYASSHKLQLDVSSIVLSA   650
 651  QDFYHAMQNIVPASQRAVMSSGHALSPIIRPLLERSFNNILAVLQKVFPH   700
 701  AEISQSDKKEDIETLILEDSEDENALSIFETNCHSGSPKKQSSSAAIHKP   750
 751  YLHFTMSPYHQPTSYRPRLLLSGERGSGQTSHLAPALLHTLERFSVHRLD   800
 801  LPALYSVSAKTPEESCAQIFREARRTVPSIVYMPHIGDWWEAVSETVRAT   850
 851  FLTLLQDIPSFSPIFLLSTSETMYSELPEEVKCIFRIQYEEVLYIQRPIE   900
 901  EDRRKFFQELILNQASMAPPRRKHAALCAMEVLPLALPSPPRQLSESEKS   950
 951  RMEDQEENTLRELRLFLRDVTKRLATDKRFNIFSKPVDIEEVSDYLEVIK  1000
1001  EPMDLSTVITKIDKHNYLTAKDFLKDIDLICSNALEYNPDKDPGDKIIRH  1050
1051  RACTLKDTAHAIIAAELDPEFNKLCEEIKEARIKRGLSVTSEQINPHSTG  1100
1101  ARKTETRVEEAFRHKQRNPMDVWHNSANKCAFRVRRKSRRRSQWGKGIIK  1150
1151  KRKVNNLKKDEEDTKFADYENHTEDRKLLENGEFEVSTDCHEENGEETGD  1200
1201  LSMTNDESSCDIMDLDQGQRLNNGAGTKENFASTEEESSNESLLVNSSSS  1250
1251  LNPEQTSRKETFLKGNCLNGEASTDSFEGIPVLECQNGKLEVVSFCDSGD  1300
1301  KCSSEQKILLEDQSKEKPETSTENHGDDLEKLEALECSNNEKLEPGSDVE  1350
1351  VKDAELDKEGASKVKKYRKLILEQAKTTSLELVPEEPSEPVPPLIVDRER  1400
1401  LKKLLDLLVDKSNNLAVDQLERLYSLLSQCIYRHRKDYDKSQLVEEMERT  1450
1451  VHMFETFL                                            1458

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.)

Go back to the NucPred Home Page.