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

NucPred

Fetching Q80YE7 from www.uniprot.org...

The NucPred score for your sequence is 0.80 (see score help below)

   1  MTVFRQENVDDYYDTGEELGSGQFAVVKKCREKSTGLQYAAKFIKKRRTK    50
  51  SSRRGVSREDIEREVSILKEIRHPNVITLHEVYENKTDVILILELVAGGE   100
 101  LFDFLAEKESLTEEEATEFLKQILSGVYYLHSLQIAHFDLKPENIMLLDR   150
 151  NVPKPRIKIIDFGLAHKIDFGNEFKNIFGTPEFVAPEIVNYEPLGLEADM   200
 201  WSIGVITYILLSGASPFLGDTKQETLANVSAVNYDFEEEFFRNTSTLAKD   250
 251  FIRRLLVKDPKKRMTIQDSLQHPWIKPKDTQQALSRKASAVNMEKFKKFA   300
 301  ARKKWKQSVRLISLCQRLSRSFLSRSNMSVARSDDTLDEEDSFVMKAIIH   350
 351  AINDDNVPGLQHLLGSLSSYDVNQPNKHGTPPLLIAAGCGNIQMLQLLIK   400
 401  RGSRIDVQDKGGSNAIYWASRHGHVDTLKFLNENKCPLDVKDKSGETALH   450
 451  VAARYGHADVVQLLCSFGSNPDFQDKEEETPLHCAAWHGYYSVAKALCEV   500
 501  GCNVNIKNREGETPLLTASARGYHDIVECLAEHGADLNASDKDGHIALHL   550
 551  AVRRCQMEVIKTLLGHGSFVDFQDRHGNTPLHVACKDGSAPIVVALCEAS   600
 601  CNLDISNKYGRTPLHLAANNGILDVVRYLCLMGANVEALTSDGKTAEDLA   650
 651  KAEQHEHVAGLLARLRKDTHRGLFIQQLRPTQNLQPRIKLKLFGHSGSGK   700
 701  STLVESLKCGLLRSFFRRRRPRLSSTNSTRFPPSPLAAKPTVSVSINNLY   750
 751  PGCENVSVRSRSMMFEPGLTKGMLEVFVAPSHHLHCSTDDQSTKAIDIQN   800
 801  AYLNGVGDFSVWEFSGNPVYFCCYDYFAANDPTSIHIIVFSLEEPYEIQL   850
 851  NQVIFWLSFLKSLVPVEEPIAFGGKLKNPLRVVLVATHADIMNIPRPAGG   900
 901  EFGYDKDTSLLKEIRNRFGNDLHVSNKLFVLDAGASGSKDIKVLRNHLQE   950
 951  IRSQIVSGCSPMTHLCEKIISTLPSWRKLNGPNQLMSLQQFVYDVQDQLN  1000
1001  PLASEDDLRRIAQQLHSTGEINIMQSETVQDVLLLDPRWLCTNVLGKLLS  1050
1051  VETPRALHHYRGRYTMEDIQRLVPDSDVEELLQILDAMDICARDLSSGTM  1100
1101  VDIPALIKTDSLQRSWADEEDEVMVYGGVRIVPVEHLTPFPCGIFHKVQV  1150
1151  NLCRWIHQQSAEGDADIRLWVSGCRIANRGAELLVLLVNHGQGIEVQVRG  1200
1201  LETEKIKCCLLLDSVCSTIETVMATTLPGLLTVKHYLSPQQLREHHEPVM  1250
1251  VYQPRDFFRAQTLKESSLTNTMGGYKESFSSITCFGCHDVYSQASLGMDI  1300
1301  HASDLSLLTRRKLSRLLDPPDPMGKDWCLLAMNLGLPDMVAKHNVNNRAS  1350
1351  RDFLPSPVHALLQEWTSYPESTVGILISKLRELGRRDAADFLLKASSVFK  1400
1401  INLDGNGQEAYASSCNSGTSYNSISSVVSRRDSHAWTPLYDL          1442

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.