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

NucPred

Fetching Q6Q4D0 from www.uniprot.org...

The NucPred score for your sequence is 0.84 (see score help below)

   1  MGRLDVAAAKRAYRKAEEVGDRREQARWANNVGDILKNHGEYVDALKWFR    50
  51  IDYDISVKYLPGKDLLPTCQSLGEIYLRLENFEEALIYQKKHLQLAEEAN   100
 101  DTVEKQRACTQLGRTYHEMFLKSEDDCEAIQSAKKYFKKAMELAQILKEK   150
 151  PPPGESSGFLEEYINAHNNIGMLDLDLDNPEAARTILKKGLQICDEEEVR   200
 201  EYDAARSRLHHNLGNVFMALRSWDEAKKHIEMDINICHKINHVQGEAKGY   250
 251  INLAELHNKTQKYIDALLCYGKASSLAKSMQDESALVEQIEHNTKIVKKS   300
 301  MKVMEELREEELMLKKLSAEMTDAKGTSEERKSMLQVNACLGSLIDKSSM   350
 351  VFAWLKHLQYSKRKKKISDELCDKEKLSDAFMIVGESYQNLRNFRKSLKW   400
 401  FIRSYEGHEAIGNLEGQALAKINIGNGLDCIGEWTGALQAYEEGYRIALK   450
 451  ANLPSIQLSALEDIHYIHMMRFGNAQKASELKETIQNLKESEHAEKAECS   500
 501  TQDECSETDSEGHANVSNDRPNACSSPQTPNSLRSERLADLDEANDDVPL   550
 551  ISFLQPGKRLFKRKQVSGKQDADTDQTKKDFSVVADSQQTVAGRKRIRVI   600
 601  LSDDESETEYELGCPKDSSHKVLRQNEEVSEESMYFDGAINYTDNRAIQD   650
 651  NVEEGSCSYTPLHPIKVAPNVSNCRSLSNNIAVETTGRRKKGSQCDVGDS   700
 701  NGTSCKTGAALVNFHAYSKTEDRKIKIEIENEHIALDSCSHDDESVKVEL   750
 751  TCLYYLQLPDDEKSKGLLPIIHHLEYGGRVLKPLELYAILRDSSENVVIE   800
 801  ASVDGWVHKRLMKLYMDCCQSLSEKPSMKLLKKLYISEVEDDINVSECEL   850
 851  QDISAAPLLCALHVHNIAMLDLSHNMLGNGTMEKLKQLFASSSQMYGALT   900
 901  LDLHCNRFGPTALFQICECPVLFTRLEVLNVSRNRLTDACGSYLSTIVKN   950
 951  CRALYSLNVEHCSLTSRTIQKVANALDSKSGLSQLCIGYNNPVSGSSIQN  1000
1001  LLAKLATLSSFAELSMNGIKLSSQVVDSLYALVKTPSLSKLLVGSSGIGT  1050
1051  DGAIKVTESLCYQKEETVKLDLSCCGLASSFFIKLNQDVTLTSSILEFNV  1100
1101  GGNPITEEGISALGELLRNPCSNIKVLILSKCHLKLAGLLCIIQALSDNK  1150
1151  NLEELNLSDNAKIEDETVFGQPVKERSVMVEQEHGTCKSVTSMDKEQELC  1200
1201  ETNMECDDLEVADSEDEQIEEGTATSSSLSLPRKNHIVKELSTALSMANQ  1250
1251  LKILDLSNNGFSVEALETLYMSWSSSSSRTGIAQRHVKEETVHFYVEGKM  1300
1301  CCGVKSCCRKD                                         1311

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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