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

NucPred

Fetching Q7TNH6 from www.uniprot.org...

The NucPred score for your sequence is 0.86 (see score help below)

   1  MGTASSLVSPTGGEVIEDTYGAGGGEACEIPVEVKPKARLLRSSFRRGAG    50
  51  AGPGSLPRAAGGGGLLGASFKSTGSSVPELEYAAAEFERLKKEYEIFRVS   100
 101  KNQELLSMGRREAKLDTENKRLRAELQALQKTYQKILREKEGALEAKYQA   150
 151  MERAVTFEHDRDRVKRQFKIFRETKENEIQDLLRAKRELESKLQRLQAQG   200
 201  IQVFDPGESDSDDNCTDVTAAGTQCEYWASRALGSEHSIGSMIQLPQPFR   250
 251  GPEFAHSSIDVEGPFANINRDDWDAAVAGLLQATPLFSHSLWSHPVRCYL   300
 301  IYTDETQPEMELFLKDHSPKLKRMCETMGYFFLAVYFPLDVENQYLTVRK   350
 351  WEIEKSSLVILFLHSTLPSFLLEDCEEAFLQNPEGKPGLIYHRLEDGKVT   400
 401  CDSVQQFLDQVSNLGKTTKAKIIEHSGDPAEGVCKIYVGVEKIIKQDILG   450
 451  LENTDVEEKDGGREDSTPEEDDFGDVLWDIHDEQEQMEAFQQTSSSAHEL   500
 501  GFEKYYQRLDDLVVAPAPIPPLLVSGGPGSGKSLLLSKWIQLQQKHFPNT   550
 551  LILSHFVGRPMSTSSESSLIIKRLTLKLMQHFWAVSALTLDPAKLLEEFP   600
 601  HWLEKLSARHQGSIIIIIDSIDQVQQVEKHMKWLIDPLPVNVRVIVSVNV   650
 651  ETCPTAWRLWPTLHLDPLSPKDAISIITAECYSMDVRLSREQEKMLEQHC   700
 701  RPATTRHALYVTLFSKMMACAGRGGNVAETLHQCLQCQDTVSLYKLVLHH   750
 751  VRESMPSDRDKEWMTQILCLINVSHNGVSESELMELYPEMSWLSLTSIVH   800
 801  SLHKMHLLTYSCGLLRFQHLQAWETVRLQYLEDPALVSSYREKLISYFAS   850
 851  QLSQDRVTWRSADELPWLFQQQGSKQKLHSCLLNLLVAQNLYKRGHFAEL   900
 901  LSYWQFVGKDKGAMATEYFESLKQYENSEGEENMLCLADLYETLGRFLKD   950
 951  LGLLSQAVVPLQRSLEIRETALDPDHPRVAQSLHQLAGVYVQWKKFGDAE  1000
1001  QLYKQALEISENAYGADHPHAARELEALATLYHKQNKYEQAEHFRKKSVI  1050
1051  IRQQATRRKGSLYGFALLRRRALQLEELTLGKDKPENARTLNELGVLYFL  1100
1101  QNNLETAEQFLKRSLEMRERVLGPDHPDCAQSLNNLAALCNEKKQYEKAE  1150
1151  ELYERALDIRRRALAPDHPSLAYTVKHLAILYKKTGKVDKAVPLYELAVE  1200
1201  IRQKSFGPKHPSVATALVNLAVLHSQMKKHSEALPLYERALKIYEDSLGR  1250
1251  MHPRVGETLKNLAVLSYEEGNFEKAAELYKRAMEIKEAETSLLGGKAPSR  1300
1301  QSSSGDTFLFKTTHSPNVFLPQGQS                           1325

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.