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

NucPred

Fetching O14356 from www.uniprot.org...

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

   1  MEYFSDLKNKNESIQLAAADQLKEFVHSSTKELSGESLARFNNDINRRIF    50
  51  ELIHSHDSHERFGGILAIGKLIEFESEGDVTNLSRYANYLRMTLPSTDWH   100
 101  SMELSAKVLGHLAASGGTLAAEFVEFEVQRAFEWLQGDRQEQKRMAAILI   150
 151  IKALAQNSPTLVYLYISEIFQNLWTGLRDPKPLIRETAADALGASLDVVC   200
 201  QREAKVQLQCFNEVLLQAEHGLRQSSVEYLHGSLLAYKELFEKSGSFIRE   250
 251  HYTEFCDLALRLREHRDNSIRRCIVFLLPTLSEYNPKKFQQRYLDSFMVY   300
 301  LLSHIRKDKEKSLAFEAIGRIAMAVNEAMIPYLQNILKVIRDTLTAKVRE   350
 351  KTQYEKPVFECIGMLAAAVKLELLEDSRSLLGLIFSCELSVHLRQALVKM   400
 401  AENIPPLLAPIQERLLNMVSQILTGKNFEIRTNDTYTPSFTNIYSAREPD   450
 451  QRSKSTESIILALETLGTFNFTGYSLISFIQESVLSYLENDNSEIRIAAA   500
 501  RTCCQVFARDPICRKTNPLAVESVAEVLEKLLTLGIADSDPKIRETVLSL   550
 551  LDERFDRHLAHPDNIRCLFIALNDEVFSIREIAIIIIGRLALYNPAHVMP   600
 601  SLRKTIIQLLSDMEYSGNSRQKEESAQLLKLLVSKARTLIKPYIQSIIHV   650
 651  ILPKAADTSPGVSSAIISALGELASVEGEDMPVDVRGSFMKLILVNLQDQ   700
 701  SSTLKRLASLKCLRKLCGRSGYVIQPYLDYPPLLGALIGILQSEQPTPIR   750
 751  REVLRTLGVLGALDPYTYLTTEEVSDDLQSSHNNAHGVPQISAAQYPSLE   800
 801  NYAMVAVVTLIGILKDSSLSMHHSSVVQAVMHICSQMGSKSTVFLPQVVP   850
 851  TFLQVMQSLSASSAEFYFQQLTTLTSIIGPNIRDYVSDIFNLSKVFWEST   900
 901  TSLLLVILELIDAIAIALQDEFKFYLPQILSCMLKAFSLDNTSSRSVSYK   950
 951  VLQSFVIFGSNIEEYMHLVLPVIIRSFERDTIPLGFRKSALKCIAQLFQS  1000
1001  VNFSDHASRIIHPLVRMLGKSNGDLRAVIMDTLCAIVSQLGYDYSIFIPM  1050
1051  VNKVLVSHKISHPAYELLVSRLLKGEPLPKDVVVKEFKPRPSTKPFSTQD  1100
1101  EVLTKLPVDQASLKAAWESSQKLTRDDWQDWIRRISIELLKESPSSALRS  1150
1151  CSTLAGIYHPLARDLFNVSFLSCWDELTESNKKNLVKSIELAMNAPNISV  1200
1201  EILQTLLNLAEYMEREDHTLPIPIKVISAHASKCNVYAKALHYTELQFVQ  1250
1251  ETKEEVSISTIESLITINNHLQQSDAAVGMLQYTKEHKQFSLKETWYEKL  1300
1301  HRWDDALAAYEHREREGDSSFEINIGKLRCYYALGDWDHLSELAQKAWVT  1350
1351  SEQEHREAIAPLAAAAAWGLGQWNLISEYVSAMDRDPQDKEFFSAISAVH  1400
1401  LGQYNKAYGHIERHRDILVNDLSSIIGESYNRAYGIMVKSQMLSELEEII  1450
1451  DYKKNMQYENNLDSLKKTWRKRLEGCQKNVDVWHNTLRFRALVLSPQDSP  1500
1501  EMWIKLADLCRRSDRLKLSNQCLTYLMGRDPSNAYPLDSLKLLNPHVVYT  1550
1551  YLKYLWATDQKNIAVSELEEFTSYLSSKHGYKMGDSSKLVDILASSSVSS  1600
1601  EERSFLARCFHKLGKWKKSLQDSVNQESVRDILNCYFYATLFDKSWYKAW  1650
1651  HSWALANFEVVGYYEQTEHGVTQDMYEQYIVPAIKGFFHSSVLNQKNSLQ  1700
1701  DILRLLNLWFKFGEHSDVAAAIVEGFSNVPMDTWLEVIPQLIARIHTSSS  1750
1751  SVRASVHQLLSDIGRVHPQALVYSLTVSSKSTNPQQKHSAKSIMDSMLSH  1800
1801  SDTLVRQALLVSQELIRVAILWHELWYEGLEEASQAYFSDHDISLMIDIV  1850
1851  KPLHETLEKGPSTLSEISFAQTFGYDLRKARSYWQKFLQDGDPTELNQSW  1900
1901  DLYYQVFRRIQKQLPRIKHLELQYVSPKLLDACDLELAVPGTYGHNKPVI  1950
1951  RISHFHHTFEVISSKQRPRRLTIHGSDGKDYQYVLKGHEDLRQDERVMQL  2000
2001  FGLCNTLLTTDSETFKRRLNIERYTVIPLSPNSGLLGWVPHSDTLHFLIK  2050
2051  EFRSKRNILLNLEHRMMLQMAPDCDSLTLLQKLEVFEYVMANTDGYDLYH  2100
2101  VLWLKSRSSEAWLDRRTSYTQSLAVMSMVGYILGLGDRHPSNLMMDRYSG  2150
2151  KIIHIDFGDCFEVAMHREKFPEKIPFRLTRMLINAMEVSGIQGTYKITCE  2200
2201  LVMRVLRSNTESLMAVLEAFVYDPLINWRLMTKSSFGASTTLRPTSSSVE  2250
2251  EKGRSYTHRARHADYAALSETNGVNAEGLNERSIQVLKRVSNKLTGKDFD  2300
2301  LKEQLPVKAQVEKLIQQATAPENLCRCYVGWCSFW                 2335

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.