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

NucPred

Fetching Q62770 from www.uniprot.org...

The NucPred score for your sequence is 0.98 (see score help below)

   1  MVASLFKSLILAYIHKLCKGMFTKKLGNTTKKKENRQQNKDQDFPTAGHT    50
  51  KPPKLSNALKSTVKKIAKCSSTRNFSVEDEEGHKDFSLSPTFSYRVAIAN   100
 101  GLQTAVTNSDEDLLQELSSIESSYSESFNELRSSTENQVQSTHTMPVRRN   150
 151  RKSSSSLAPSEGSSDGERTLHTLKLGALRKLRKWKKSQECVSSDSELSTV   200
 201  KKTWGIRSKSLDRTARNPKTNVLEPGFSSSGCISQTHDVMEMIFKELQGI   250
 251  SQIETELSELRGHVNALKYSIDEISSSVEVVQSEIEQLRTGFVQARRETR   300
 301  DIHDYIKHLGHMGSKVSLRFLNVPEERHEYVESVVYQILVDKMGFSDVPN   350
 351  AIKIEFAQRIGQQRDCPNAKPRPILVYFETPQQRDSVLKKSYKLKGTGIA   400
 401  ISTDILTYDIRERKEKGVLPSSQTYESMDMKLSTPEPKAKKNAWLSPNDS   450
 451  DRELESDLSRSSYADSPAKGSSSKSSSKSHSARSKNKAANSRTSQKSDYN   500
 501  KRPSKPPASEKPTPHYVEATPLWHSQSDFFTPKLSRSESDFSKLCQSYSE   550
 551  DFSESQFFCRTNGSSLLSSSDRELWQRKQEGMTALYHSPQDQGLDGNIPT   600
 601  VPGQGEIENTETVDSGMSNSVVCASGDRSNYSGSQLSLHEDLSPWKEWNQ   650
 651  AGHGTDGLDSSTQEPFDYDTNSLSDQQLDMSSKDLDDLGKCHSDLQDDSE   700
 701  SYDLTQDDNSSPCPGLDNEPQGQWVGQYDSYQKTNSNDLYPNQSHPSMMY   750
 751  RSQSELQSDDSEAAQPKSWHSRLSIDLSDKTFKFPKFGSTLQRAKSALEV   800
 801  VWNKSTQSLSGCEDSGSSLMGRFRTLSQSTANESSTTLDSDIYTEPYYYK   850
 851  AEEEEDYCEPVADSETDYVEVMEQVLAKLENRTSVTEVDEHIKEYDHPSY   900
 901  ETPYETPQDEGYDGQADDIISEGELETLNEPAVEMELVEDESQNLPVEPP   950
 951  EVMKPKRIRPSFKEAALRAYKKQMAELEEKILAGDSSSVDEKARIVSGND  1000
1001  LDASKFSALQVFGGAGRGLYGIDSMPDLRRKKTLPIVRDVAMTLAARKSG  1050
1051  LSLAMVIRTSLNNEELKMHVFRKTLQALIYPISSTTPHNFEVWTATTPTY  1100
1101  CYECEGLLWGIARQGMKCLECGVKCHEKCQDLLNADCLQRAAEKSSKHGA  1150
1151  EDKTQTIITAMKERMKIRERNRPEVFEVIQEMFQISKEDFVQYTKAAKQS  1200
1201  VLDGTSKWSAKITITVVSAQGLQAKDKTGSSDPYVTVQVGKNKRRTKTIF  1250
1251  GNLNPVWDEKFYFECHNSTDRIKVRVWDEDDDIKSRVKQHFKKESDDFLG  1300
1301  QTIVEVRTLSGEMDVWYNLEKRTDKSAVSGAIRLKINVEIKGEEKVAPYH  1350
1351  IQYTCLHENLFHYLTEVKSNGSVKIPEVKGDEAWKVFFDDASQEIVDEFA  1400
1401  MRYGVESIYQAMTHFSCLSSKYMCPGVPAVMSALLANINAFYAHTTVSTN  1450
1451  VQVSASDRFAATNFGREKFIKLLDQLHNSLRIDLSKYRENFPASNSERLQ  1500
1501  DLKSTVDLLTSITFFRMKVLELQSPPKASAVVKDCVRACLDSTYKYIFDN  1550
1551  CHELYSQLIDPSKKQDVPREEQGPTTKNLDFWPQLITLMVTIIDEDKTAY  1600
1601  TPVLNQFPQELNMGKISAEIMWSLFALDMKYALEEHEKQRLCKSTDYMNL  1650
1651  HFKVKWFYNEYVRELPAFKDAVPEYSLWFEPFVMQWLDENEDVSMEFLHG  1700
1701  ALGRDKKDGFQQTSDHALFSCSVVDVFAQLNQSFEIIKKLECPNPEALSH  1750
1751  LMRRFAKTINKVLVQYAAIVSSDFSSYCDKETVPCILMNNIQQLRVQLEK  1800
1801  MFESMGGKELDPEASTILKELQIKLNGVLDALSVTYGESFQLVIEECIKQ  1850
1851  MGAELNQMRANGNSAANKNNAAMDAEIVLRPLMDFLDKILSLSAKICEKT  1900
1901  VLKRVLKELWKLVLNKIEKQIVLPPLTDQTGPQMIFIAAKELGQLSKLKE  1950
1951  HMIRDDAKGLTPRQCAIMEVVLATIKQYFHAGGNGLKKNFLEKSPDLHSL  2000
2001  RYALSLYTQTTDALIKKFIETQGSQSRSSKDAVGQISVHVDVTTTPGTGE  2050
2051  HKVTVKVIAINDLNWQTTTMFRPFVEVCMLGPSLGDKKRKQGTKTKSNTW  2100
2101  SPKYNETFQFILGNENRPGAYELHLSVKDYCFAREDRIIGMTVIQLQNIA  2150
2151  EKGSYGAWYPLLKNLSMDETGLTILRILSQRTSDDVAKEFVRLKSETRSI  2200
2201  DESA                                                2204

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.