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

NucPred

Fetching Q6UB98 from www.uniprot.org...

The NucPred score for your sequence is 0.99 (see score help below)

   1  MPKSGFTKPIQSENSDSDSNMVEKPYGRKSKDKIASYSKTPKIERSDVSK    50
  51  EMKEKSSMKRKLPFTISPSRNEERDSDTDSDPGHTSENWGERLISSYRTY   100
 101  SEKEGPEKKKTKKEAGNKKSTPVSILFGYPLSERKQMALLMQMTARDNSP   150
 151  DSTPNHPSQTTPAQKKTPSSSSRQKDKVNKRNERGETPLHMAAIRGDVKQ   200
 201  VKELISLGANVNVKDFAGWTPLHEACNVGYYDVAKILIAAGADVNTQGLD   250
 251  DDTPLHDSASSGHRDIVKLLLRHGGNPFQANKHGERPVDVAETEELELLL   300
 301  KREVPLSDDDESYTDSEEAQSVNPSSVDENIDSETEKDSLICESKQILPS   350
 351  KTPLPSALDEYEFKDDDDEEINKMIDDRHILRKEQRKENEPEAEKTHLFA   400
 401  KQEKAFYPKSFKSKKQKPSRVLYSSTESSDEEALQNKKISTSCSVIPETS   450
 451  NSDMQTKKEYVVSGEHKQKGKVKRKLKNQNKNKENQELKQEKEGKENTRI   500
 501  TNLTVNTGLDCSEKTREEGNFRKSFSPKDDTSLHLFHISTGKSPKHSCGL   550
 551  SEKQSTPLKQEHTKTCLSPGSSEMSLQPDLVRYDNTESEFLPESSSVKSC   600
 601  KHKEKSKHQKDFHLEFGEKSNAKIKDEDHSPTFENSDCTLKKMDKEGKTL   650
 651  KKHKLKHKEREKEKHKKEIEGEKEKYKTKDSAKELQRSVEFDREFWKENF   700
 701  FKSDETEDLFLNMEHESLTLEKKSKLEKNIKDDKSTKEKHVSKERNFKEE   750
 751  RDKIKKESEKSFREEKIKDLKEERENIPTDKDSEFTSLGMSAIEESIGLH   800
 801  LVEKEIDIEKQEKHIKESKEKPEKRSQIKEKDIEKMERKTFEKEKKIKHE   850
 851  HKSEKDKLDLSECVDKIKEKDKLYSHHTEKCHKEGEKSKNTAAIKKTDDR   900
 901  EKSREKMDRKHDKEKPEKERHLAESKEKHLMEKKNKQSDNSEYSKSEKGK   950
 951  NKEKDRELDKKEKSRDKESINITNSKHIQEEKKSSIVDGNKAQHEKPLSL  1000
1001  KEKTKDEPLKTPDGKEKDKKDKDIDRYKERDKHKDKIQINSLLKLKSEAD  1050
1051  KPKPKSSPASKDTRPKEKRLVNDDLMQTSFERMLSLKDLEIEQWHKKHKE  1100
1101  KIKQKEKERLRNRNCLELKIKDKEKTKHTPTESKNKELTRSKSSEVTDAY  1150
1151  TKEKQPKDAVSNRSQSVDTKNVMTLGKSSFVSDNSLNRSPRSENEKPGLS  1200
1201  SRSVSMISVASSEDSCHTTVTTPRPPVEYDSDFMLESSESQMSFSQSPFL  1250
1251  SIAKSPALHERELDSLADLPERIKPPYANRLSTSHLRSSSVEDVKLIISE  1300
1301  GRPTIEVRRCSMPSVICEHTKQFQTISEESNQGSLLTVPGDTSPSPKPEV  1350
1351  FSNVPERDLSNVSNIHSSFATSPTGASNSKYVSADRNLIKNTAPVNTVMD  1400
1401  SPVHLEPSSQVGVIQNKSWEMPVDRLETLSTRDFICPNSNIPDQESSLQS  1450
1451  FCNSENKVLKENADFLSLRQTELPGNSCAQDPASFMPPQQPCSFPSQSLS  1500
1501  DAESISKHMSLSYVANQEPGILQQKNAVQIISSALDTDNESTKDTENTFV  1550
1551  LGDVQKTDAFVPVYSDSTIQEASPNFEKAYTLPVLPSEKDFNGSDASTQL  1600
1601  NTHYAFSKLTYKSSSGHEVENSTTDTQVISHEKENKLESLVLTHLSRCDS  1650
1651  DLCEMNAGMPKGNLNEQDPKHCPESEKCLLSIEDEESQQSILSSLENHSQ  1700
1701  QSTQPEMHKYGQLVKVELEENAEDDKTENQIPQRMTRNKANTMANQSKQI  1750
1751  LASCTLLSEKDSESSSPRGRIRLTEDDDPQIHHPRKRKVSRVPQPVQVSP  1800
1801  SLLQAKEKTQQSLAAIVDSLKLDEIQPYSSERANPYFEYLHIRKKIEEKR  1850
1851  KLLCSVIPQAPQYYDEYVTFNGSYLLDGNPLSKICIPTITPPPSLSDPLK  1900
1901  ELFRQQEVVRMKLRLQHSIEREKLIVSNEQEVLRVHYRAARTLANQTLPF  1950
1951  SACTVLLDAEVYNVPLDSQSDDSKTSVRDRFNARQFMSWLQDVDDKFDKL  2000
2001  KTCLLMRQQHEAAALNAVQRLEWQLKLQELDPATYKSISIYEIQEFYVPL  2050
2051  VDVNDDFELTPI                                        2062

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.