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

NucPred

Fetching Q8WXR4 from www.uniprot.org...

The NucPred score for your sequence is 0.88 (see score help below)

   1  MKHLYGLFHYNPMMLGLESLPDPTDTWEIIETIGKGTYGKVYKVTNKRDG    50
  51  SLAAVKILDPVSDMDEEIEAEYNILQFLPNHPNVVKFYGMFYKADHCVGG   100
 101  QLWLVLELCNGGSVTELVKGLLRCGQRLDEAMISYILYGALLGLQHLHNN   150
 151  RIIHRDVKGNNILLTTEGGVKLVDFGVSAQLTSTRLRRNTSVGTPFWMAP   200
 201  EVIACEQQYDSSYDARCDVWSLGITAIELGDGDPPLFDMHPVKTLFKIPR   250
 251  NPPPTLLHPEKWCEEFNHFISQCLIKDFERRPSVTHLLDHPFIKGVHGKV   300
 301  LFLQKQLAKVLQDQKHQNPVAKTRHERMHTRRPYHVEDAEKYCLEDDLVN   350
 351  LEVLDEDTIIHQLQKRYADLLIYTYVGDILIALNPFQNLSIYSPQFSRLY   400
 401  HGVKRASNPPHIFASADAAYQCMVTLSKDQCIVISGESGSGKTESAHLIV   450
 451  QHLTFLGKANNQTLREKILQVNSLVEAFGNSCTAINDNSSRFGKYLEMMF   500
 501  TPTGVVMGARISEYLLEKSRVIKQAAREKNFHIFYYIYAGLHHQKKLSDF   550
 551  RLPEEKPPRYIADETGRVMHDITSKESYRRQFEAIQHCFRIIGFTDKEVH   600
 601  SVYRILAGILNIGNIEFAAISSQHQTDKSEVPNAEALQNAASVLCISPEE   650
 651  LQEALTSHCVVTRGETIIRANTVDRAADVRDAMSKALYGRLFSWIVNRIN   700
 701  TLLQPDENICSAGGGMNVGILDIFGFENFQRNSFEQLCINIANEQIQYYF   750
 751  NQHVFALEQMEYQNEGIDAVPVEYEDNRPLLDMFLQKPLGLLALLDEESR   800
 801  FPQATDQTLVDKFEDNLRCKYFWRPKGVELCFGIQHYAGKVLYDASGVLE   850
 851  KNRDTLPADVVVVLRTSENKLLQQLFSIPLTKTGNLAQTRARITVASSSL   900
 901  PPHFSAGKAKVDTLEVIRHPEETTNMKRQTVASYFRYSLMDLLSKMVVGQ   950
 951  PHFVRCIKPNDDREALQFSRERVLAQLRSTGILETVSIRRQGYSHRILFE  1000
1001  EFVKRYYYLAFTAHQTPLASKESCVAILEKSRLDHWVLGKTKVFLKYYHV  1050
1051  EQLNLLLREVIGRVVVLQAYTKGWLGARRYKRVREKREKGAIAIQSAWRG  1100
1101  YDARRKFKKISNRRNESAAHNQAGDTSNQSSGPHSPVAAGTRGSAEVQDC  1150
1151  SEPGDHKVLRGSVHRRSHSQAESNNGRTQTSSNSPAVTEKNGHSQAQSSP  1200
1201  KGCDIFAGHANKHSVSGTDLLSSRICHPAPDQQGLSLWGAPQKPGSENGL  1250
1251  AQKHRTPRRRCQQPKMLSSPEDTMYYNQLNGTLEYQGSKRKPRKLGQIKV  1300
1301  LDGEDEYYKSLSPVDCIPEENNSAHPSFFSSSSKGDSFAQH           1341

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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