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

NucPred

Fetching O88491 from www.uniprot.org...

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

   1  MDRTCELSRRNCLLSFSNPVNLDASEDKDSPFGNGQSNFSEPLNGCTMQL    50
  51  PTAASGTSQNAYGQDSPSCYIPLRRLQDLASMINVEYLSGSADGSESFQD   100
 101  PAKSDSRAQSPIVCTSLSPGGPTALAMKQEPTCNNSPELQLRVTKTTKNG   150
 151  FLHFENFTGVDDADVDSEMDPEQPVTEDESIEEIFEETQTNATCNYEPKS   200
 201  ENGVEVAMGSEQDSMPESRHGAVERPFLPLAPQTEKQKNKQRSEVDGSNE   250
 251  KTALLPAPTSLGDTNVTVEEQFNSINLSFQDDPDSSPSPLGNMLEIPGTS   300
 301  SPSTSQELPFVPQKILSKWEASVGLAEQYDVPKGSKNQKCVSSSVKLDSE   350
 351  EDMPFEDCTNDPDSEHLLLNGCLKSLAFDSEHSADEKEKPCAKSRVRKSS   400
 401  DNIKRTSVKKDLVPFESRKEERRGKIPDNLGLDFISGGVSDKQASNELSR   450
 451  IANSLTGSSTAPGSFLFSSSVQNTAKTDFETPDCDSLSGLSESALISKHS   500
 501  GEKKKLHPGQVCSSKVQLCYVGAGDEEKRSNSVSVSTTSDDGCSDLDPTE   550
 551  HNSGFQNSVLGITDAFDKTENALSVHKNETQYSRYPVTNRIKEKQKSLIT   600
 601  NSHADHLMGSTKTMEPETAELSQVNLSDLKISSPIPKPQPEFRNDGLTTK   650
 651  FSAPPGIRNENPLTKGGLANQTLLPLKCRQPKFRSIKCKHKESPAVAETS   700
 701  ATSEDLSLKCCSSDTNGSPLANISKSGKGEGLKLLNNMHEKTRDSSDIET   750
 751  AVVKHVLSELKELSYRSLSEDVSDSGTAKASKPLLFSSASSQNHIPIEPD   800
 801  YKFSTLLMMLKDMHDSKTKEQRLMTAQNLASYRTPDRGDCSSGSPVGTSK   850
 851  VLVLGSSTPNSEKPGDSTQDSVHQSPGGGDSALSGELSSSLSSLASDKRE   900
 901  LPACGKIRSNCIPRRNCGRAKPSSKLRETISAQMVKPSVNPKALKTERKR   950
 951  KFSRLPAVTLAANRLGNKESGSVNGPSRGGAEDPGKEEPLQQMDLLRNED  1000
1001  THFSDVHFDSKAKQSDPDKNLEKEPSFENRKGPELGSEMNTENDELHGVN  1050
1051  QVVPKKRWQRLNQRRPKPGKRANRFREKENSEGAFGVLLPADAVQKARED  1100
1101  YLEQRAPPTSKPEDSAADPNHGSHSESVAPRLNVCEKSSVGMGDVEKETG  1150
1151  IPSLMPQTKLPEPAIRSEKKRLRKPSKWLLEYTEEYDQIFAPKKKQKKVQ  1200
1201  EQVHKVSSRCEDESLLARCQPSAQNKQVDENSLISTKEEPPVLEREAPFL  1250
1251  EGPLAQSDLGVTHAELPQLTLSVPVAPEASPRPALESEELLVKTPGNYES  1300
1301  KRQRKPTKKLLESNDLDPGFMPKKGDLGLSRKCFEASRSGNGIVESRATS  1350
1351  HLKEFSGGTTKIFDKPRKRKRQRLVTARVHYKKVKKEDLTKDTPSSEGEL  1400
1401  LIHRTAASPKEILEEGVEHDPGMSASKKLQVERGGGAALKENVCQNCEKL  1450
1451  GELLLCEAQCCGAFHLECLGLPEMPRGKFICNECHTGIHTCFVCKQSGED  1500
1501  VKRCLLPLCGKFYHEECVQKYPPTVTQNKGFRCPLHICITCHAANPANVS  1550
1551  ASKGRLMRCVRCPVAYHANDFCLAAGSKILASNSIICPNHFTPRRGCRNH  1600
1601  EHVNVSWCFVCSEGGSLLCCDSCPAAFHRECLNIDIPEGNWYCNDCKAGK  1650
1651  KPHYREIVWVKVGRYRWWPAEICHPRAVPSNIDKMRHDVGEFPVLFFGSN  1700
1701  DYLWTHQARVFPYMEGDVSSKDKMGKGVDGTYKKALQEAAARFEELKARK  1750
1751  ELRQLQEDRKNDKKPPPYKHIKVNRPIGRVQIFTADLSEIPRCNCKATDE  1800
1801  NPCGIDSECINRMLLYECHPTVCPAGVRCQNQCFSKRQYPDVEIFRTLQR  1850
1851  GWGLRTKTDIKKGEFVNEYVGELIDEEECRARIRYAQEHDITNFYMLTLD  1900
1901  KDRIIDAGPKGNYARFMNHCCQPNCETQKWSVNGDTRVGLFALSDIKAGT  1950
1951  ELTFNYNLECLGNGKTVCKCGAPNCSGFLGVRPKNQPIVTEEKSRKFKRK  2000
2001  PHGKRRSQGEVTKEREDECFSCGDAGQLVSCKKPGCPKVYHADCLNLTKR  2050
2051  PAGKWECPWHQCDVCGKEAASFCEMCPSSFCKQHREGMLFISKLDGRLSC  2100
2101  TEHDPCGPNPLEPGEIREYVPPTATSPPSPGTQPKEQSSEMATQGPKKSD  2150
2151  QPPTDATQLLPLSKKALTGSCQRPLLPERPPERTDSSSHLLDRIRDLAGS  2200
2201  GTKSQSLVSSQRPQDRPPAKEGPRPQPPDRASPMTRPSSSPSVSSLPLER  2250
2251  PLRMTDSRLDKSIGAASPKSQAVEKTPASTGLRLSSPDRLLTTNSPKPQI  2300
2301  SDRPPEKSHASLTQRLPPPEKVLSAVVQSLVAKEKALRPVDQNTQSKHRP  2350
2351  AVVMDLIDLTPRQKERAASPQEVTPQADEKTAMLESSSWPSSKGLGHIPR  2400
2401  ATEKISVSESLQPSGKVAAPSEHPWQAVKSLTHARFLSPPSAKAFLYESA  2450
2451  TQASGRTPVGAEQTPGPPSPAPGLVKQVKQLSRGLTAKSGQSFRSLGKIS  2500
2501  ASLPNEEKKLTTTEQSPWGLGKASPGAGLWPIVAGQTLAQACWSAGGTQT  2550
2551  LAQTCWSLGRGQDPKPENAIQALNQAPSSRKCADSEKK              2588

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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