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

NucPred

Fetching Q8IZF2 from www.uniprot.org...

The NucPred score for your sequence is 0.42 (see score help below)

   1  MKSPRRTTLCLMFIVIYSSKAALNWNYESTIHPLSLHEHEPAGEEALRQK    50
  51  RAVATKSPTAEEYTVNIEISFENASFLDPIKAYLNSLSFPIHGNNTDQIT   100
 101  DILSINVTTVCRPAGNEIWCSCETGYGWPRERCLHNLICQERDVFLPGHH   150
 151  CSCLKELPPNGPFCLLQEDVTLNMRVRLNVGFQEDLMNTSSALYRSYKTD   200
 201  LETAFRKGYGILPGFKGVTVTGFKSGSVVVTYEVKTTPPSLELIHKANEQ   250
 251  VVQSLNQTYKMDYNSFQAVTINESNFFVTPEIIFEGDTVSLVCEKEVLSS   300
 301  NVSWRYEEQQLEIQNSSRFSIYTALFNNMTSVSKLTIHNITPGDAGEYVC   350
 351  KLILDIFEYECKKKIDVMPIQILANEEMKVMCDNNPVSLNCCSQGNVNWS   400
 401  KVEWKQEGKINIPGTPETDIDSSCSRYTLKADGTQCPSGSSGTTVIYTCE   450
 451  FISAYGARGSANIKVTFISVANLTITPDPISVSEGQNFSIKCISDVSNYD   500
 501  EVYWNTSAGIKIYQRFYTTRRYLDGAESVLTVKTSTREWNGTYHCIFRYK   550
 551  NSYSIATKDVIVHPLPLKLNIMVDPLEATVSCSGSHHIKCCIEEDGDYKV   600
 601  TFHTGSSSLPAAKEVNKKQVCYKHNFNASSVSWCSKTVDVCCHFTNAANN   650
 651  SVWSPSMKLNLVPGENITCQDPVIGVGEPGKVIQKLCRFSNVPSSPESPI   700
 701  GGTITYKCVGSQWEEKRNDCISAPINSLLQMAKALIKSPSQDEMLPTYLK   750
 751  DLSISIDKAEHEISSSPGSLGAIINILDLLSTVPTQVNSEMMTHVLSTVN   800
 801  VILGKPVLNTWKVLQQQWTNQSSQLLHSVERFSQALQSGDSPPLSFSQTN   850
 851  VQMSSMVIKSSHPETYQQRFVFPYFDLWGNVVIDKSYLENLQSDSSIVTM   900
 901  AFPTLQAILAQDIQENNFAESLVMTTTVSHNTTMPFRISMTFKNNSPSGG   950
 951  ETKCVFWNFRLANNTGGWDSSGCYVEEGDGDNVTCICDHLTSFSILMSPD  1000
1001  SPDPSSLLGILLDIISYVGVGFSILSLAACLVVEAVVWKSVTKNRTSYMR  1050
1051  HTCIVNIAASLLVANTWFIVVAAIQDNRYILCKTACVAATFFIHFFYLSV  1100
1101  FFWMLTLGLMLFYRLVFILHETSRSTQKAIAFCLGYGCPLAISVITLGAT  1150
1151  QPREVYTRKNVCWLNWEDTKALLAFAIPALIIVVVNITITIVVITKILRP  1200
1201  SIGDKPCKQEKSSLFQISKSIGVLTPLLGLTWGFGLTTVFPGTNLVFHII  1250
1251  FAILNVFQGLFILLFGCLWDLKVQEALLNKFSLSRWSSQHSKSTSLGSST  1300
1301  PVFSMSSPISRRFNNLFGKTGTYNVSTPEATSSSLENSSSASSLLN      1346

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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