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

NucPred

Fetching Q61137 from www.uniprot.org...

The NucPred score for your sequence is 0.91 (see score help below)

   1  MALAGLCALFACCWGPAAVLATAAGDVDPSKELECKLKSITVSALPFLRE    50
  51  NDLSIMHSPSASEPKLLFSVRNDFPGEMVVVDDLENTELPYFVLEISGNT   100
 101  EDIPLVRWRQQWLENGTLLFHIHHQDGAPSLPGQDPTEEPQHESAEEELR   150
 151  ILHISVMGGMIALLLSILCLVMILYTRRRWCKRRRVPQPQKSASAEAANE   200
 201  IHYIPSVLIGGHGRESLRNARVQGHNSSGTLSIRETPILDGYEYDITDLR   250
 251  HHLQRECMNGGEDFASQVTRTLDSLQGCNEKSGMDLTPGSDNAKLSLMNK   300
 301  YKDNIIATSPVDSNHQQATLLSHTSSSQRKRINNKARAGSAFLNPEGDSS   350
 351  TEAENDPQLTFYTDPSRSRRRSRVGSPRSPVNKTTLTLISVTSCVIGLVC   400
 401  SSHVSCPLVVKITLHVPEHLIADGSRFILLEGSQLDASDWLNPAQVVLFS   450
 451  QQNSSGPWAMDLCARRLLDPCEHQCDPETGRREHRAAGECLCYEGYMKDP   500
 501  VHKHLCIRNEWGTNQGPWPYTIFQRGFDLVLGEQPSDKIFRFTYTLGEGM   550
 551  WLPLSKSFVIPPAELAINPSAKCKTDMTVMEDAVEVREELMTSSSFDSLE   600
 601  VLLDSFGPVRDCSKDNGGCSKNFRCISDRKLDSTGCVCPSGLSPMKDSSG   650
 651  CYDRHIGVDCSDGFNGGCEQLCLQQMAPFPEDPTLYNILMFCGCIEDYKL   700
 701  GVDGRSCQLVTETCPEGGDCGESREVPMNQTLFGEMFFGYNNQSKEVATG   750
 751  QVLKGTFRQNNFARGLDQQLPDGLVVASVPLENQCLEEISEPTPDPDFLT   800
 801  GMVNFSEVSGYPVLQHWKVRSVMYHIKLNQAAISQAFSNALHSLDGATSR   850
 851  ADFVALLDQFGNHYIQEAVYGFEESCSIWYPNKQVQRRLWLEYEDISKGN   900
 901  SPSDESEERERDPKVLTFPEYIASLSDSGTKRMAAGVRMECQSKGRCPSS   950
 951  CPLCHVTSSPETPAEPVLLEVTRASPIYELVTNNQTQRLLQEATMSSLWC  1000
1001  SGTGDVIEDWCRCDSTAFGADGLPTCAPLPQPVLRLSTVHEPSSNLVVLE  1050
1051  WEHSEPPIGVQIVDYLIRQEKVTDRMDHSKVETETVLSFVDDIISGAKAP  1100
1101  CAMPSQVPDKQLTTISLIIRCLEPDTIYMFTLWGVDNTGRRSRPSDVIVK  1150
1151  TPCPVVDDVKAQEIADKIYNLFNGYTSGKEQQTAYNTLLDLGSPTLHRVL  1200
1201  YHYNQHYESFGEFTWRCEDELGPRKAGLILSQLGDLSSWCNGLLQEPKIS  1250
1251  LRRGSLKYLGCRYSEIKPYGLDWSELSRDLRKTCEEQTLSVPYNDYGDSK  1300
1301  DI                                                  1302

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.