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

NucPred

Fetching Q61464 from www.uniprot.org...

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

   1  MSRPRFNPRGTFPLQRPRAPNPPGMRPPGPFVRPGSMGLPRFYPAGRARG    50
  51  IPHRFPGHGSYQNMGPQRMNVQVTQHRTDPRLTKEKLDFPEAQQKKGKPH   100
 101  GSRWDDESHITPPVEVKQSSVTQVTEQSPKVQSRYTKESASSILASFGLS   150
 151  NEDLEELSRYPDEQLTPENMPLILRDIRMRKMSRRLPNLPSHSRNKETLS   200
 201  NETVSSNVIDYGHASKYGYTEDPLEVRIYDPEIPTDEVKNEFQPQQSISA   250
 251  TVSTPNVICNSVFPGGDMFRQMDFPGESSSQSFFPVESGTKMSGLHISGQ   300
 301  SVLEPVKSISQSISQTVSQTTSQSLNPPSMNQVPFTFELDAVLRQQERIS   350
 351  QKSVISSADAHGGPTESKKDYQSEADLPIRSPFGIVKASWLPKFTQAGAQ   400
 401  KMKRLPTPSMMNDYYAASPRIFPHLCSLCNVECSHLKDWIQHQNTSTHIE   450
 451  SCRQLRQQYPDWNPEILPSRRNESNRKENETPRRRSHSPSPRHSRRSSSG   500
 501  HRIRRSRSPVRYIYRPRSRSPRICHRFISKYRSRSRSRSRSRSPYRSRNL   550
 551  LRRSPKSYRSASPERTSRKSVRSDRKKALEDGGQRSVHGTEVTKQKHTET   600
 601  VDKGLSPAQKPKLASGTKPSAKSLSSVKSDSHLGAYSAHKSENLEDDTLP   650
 651  EGKQESGKSALAQRKPQKDQSLSSNSILLVSELPEDGFTEEDIRKAFLPF   700
 701  GKISDVLLVPCRNEAYLEMELRKAVTSIMKYIETMPLVIKGKSVKVCVPG   750
 751  KKKPQNKEMKKKPSDIKKSSASALKKETDASKTMETVSSSSSAKSGQIKS   800
 801  STVKVNKCAGKSAGSVKSVVTVAAKGKASIKTAKSGKKSLEAKKSGNIKN   850
 851  KDSNKPVTVPANSEIKASSEDKATGKSAEESPSGTLEATEKEPVNKESEE   900
 901  MSVVFISNLPNKGYSTEEIYNLAKPFGALKDILVLSSHKKAYIEINKKSA   950
 951  DSMVKFYTCFPISMDGNQLSISMAPEHVDLKDEEALFTTLIQENDPEANI  1000
1001  DKIYNRFVHLDNLPEDGLQCVLCVGHQFGKVDRYMFMSNKNKVILQLESP  1050
1051  ESALSMYNFLKQNPQNIGEHVLTCTLSPKTDSEVQRKNDLELGKGSTFSP  1100
1101  DLKNSPVDESEVQTAADSSSVKPSEVEEETTSNIGTETSVHQEELGKEEP  1150
1151  KQALCESDFAIQTLELEAQGAEVSIEIPLVASTPANIELFSENIDESALN  1200
1201  QQMYTSDFEKEEAEVTNPETELAVSDSVFIEERNIKGIIEDSPSETEDIF  1250
1251  SGIVQPMVDAIAEVDKHETVSEVLPSACNVTQAPGSYIEDEKVVSKKDIA  1300
1301  EKVILDEKEEDEFNVKETRMDLQVKTEKAEKNEAIIFKEKLEKIIAAIRE  1350
1351  KPIESSVIKADPTKGLDQTSKPDETGKSSVLTVSNVYSSKSSIKATVVSS  1400
1401  PKAKSTPSKTESHSTFPKPVLREQIKADKKVSAKEFGLLKNTRSGLAESN  1450
1451  SKSKPTQIGVNRGCSGRISALQCKDSKVDYKDITKQSQETETKPPIMKRD  1500
1501  DSNNKALALQNTKNSKSTTDRSSKSKEEPLFTFNLDEFVTVDEVIEEVNP  1550
1551  SQAKQNPLKGKRKEALKISPSPELNLKKKKGKTSVPHSVEGELSFVTLDE  1600
1601  IGEEEDATVQALVTVDEVIDEEELNMEEMVKNSNSLLTLDELIDQDDCIP  1650
1651  HSGPKDVTVLSMAEEQDLQQERLVTVDEIGEVEESADITFATLNAKRDKR  1700
1701  DSIGFISSQMPEDPSTLVTVDEIQDDSSDFHLMTLDEVTEEDENSLADFN  1750
1751  NLKEELNFVTVDEVGDEEDGDNDSKVELARGKIEHHTDKKGNRKRRAVDP  1800
1801  KKSKLDSFSQVGPGSETVTQKDLKTMPERHLAAKTPMKRVRLGKSSPSQK  1850
1851  VAEPTKGEEAFQMSEGVDDAELKDSEPDEKRRKTQDSSVGKSMTSDVPGD  1900
1901  LDFLVPKAGFFCPICSLFYSGEKAMANHCKSTRHKQNTEKFMAKQRKEKE  1950
1951  QNETEERSSR                                          1960

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.