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

NucPred

Fetching O61308 from www.uniprot.org...

The NucPred score for your sequence is 0.96 (see score help below)

   1  MEGTCSEEENLAKRVTPTAVTSGTYGTHVVDTTDLALSDVVIGCGSTIYE    50
  51  TSDSIGSDVMLGLSSHGVSSVSGLDRDLNSFKKRIDANTEEQREHADMMV   100
 101  GLQRKIEEYRRRIVDAEKQVSIQKANDDVSFSIKETADTWLPDMKSDAAD   150
 151  YEWASRLDEERRRNDELHMQITQQQVDLQRLQKYFEANMQEKEKIYQTRE   200
 201  KNLAYYLNAEQRKMLDLWEELQRVRRQFADYKEQTERDLENQKNEVAKVT   250
 251  QSVGGMAGRLNTSSHGDSGLVQDVVLLEAMRRFRELQAVPVGASADDYNA   300
 301  LMKKYEETVERVIELESHGDGSTAKMLSLEAELRRTKDKFIECSEFLRKL   350
 351  GDLAAGSYRGDERTSKIVSLSPGGMSLPSEIYRSVRNILRNHDSEMQHIQ   400
 401  RKLKNSDTQVCELTTRLEGTEEARRRSDKQLVDAKREINIQQRAVDDANR   450
 451  ELRRVEDRLHIMESEKIVAENARQQLEEEVRRLTLQVDQSKADGERRVVE   500
 501  EGEIQKRIVEDEYRSMISELTRRMNAFQDENKRLKNDLGCTKERLKNVEF   550
 551  EYNSTVRKLEDKDIALKHLEDTKLDLLKDLENQRTRYDAVTNELDTLQTT   600
 601  FETSTKNIAQLEANIKEINLMRDEISKEKDSLAQKLADVTHKLEIETVRR   650
 651  EDIQRSCVGHSEDVEKQRLQIIEYEREVMALRRLNDELDTNVKTGQAKVT   700
 701  SLENSIISVQTEVTKLTTLNDKLQKEKQSIMSSKQKADTDVDLLKEKLRK   750
 751  LEQECDKLKEENKALHEDEQIARQMCKEEASRIHLLERDLKDAMTEVEEL   800
 801  KKQLQKMDEENSERLESVLRTKISSDTVDTSEIAEYTEVKVKELREKYKA   850
 851  DLERLQSNKDDLERRVQILEDELAERQRIVERQRTEMNDLKLEYQLESDR   900
 901  LRAEMATVELKYQSEVEDERDQRSRDADSWKVTSEELRSKISFMEKMLEE   950
 951  AKHRETVLREEATEWEEKHDIISNESLKLRNEIERIRSDAEEDIQKWKKD  1000
1001  VHMAQNELKNLERVCETLRSQLTAANDRVASLNTTINEQTSKIRELNSHE  1050
1051  HRLEEDLADSRATSSAIENDLGNATGRLRSSEEHNAILQSENRKSKTEIE  1100
1101  ALKHQIDTIMNTKESCESEVERLKKKIVQTTTITKEQNEKIEKLRIEHDH  1150
1151  LERDYREKTKEVDRLKEVEKTFELKVNRARQELDEFSKKLIVTETERNAI  1200
1201  SGEAQKLDKEVQLVKEQLQYKSDEFHKALDELANAHRISEEGRVNAIHQL  1250
1251  EARRFEIDDLKSRLENSEQRLATLQQEYVNADKERGALNDAMRRFQATIS  1300
1301  RSVVAEEHVDVSTIETQMQKLMSRIEAIERERNEYRDSLNRLKNRCSTSY  1350
1351  SSVDRQETVYRTFEERVISAEDERRKVELKLSSMKEMLKSQEEKLKQRDE  1400
1401  ERRNLKSNIVTFELEARAKDAQIRHLNDLLKRVQAELENSQNDNRALRER  1450
1451  QEQYETNRIHLEQRLPTDEGEPRVKALMAAFATERQSLSDSLKKLASQLQ  1500
1501  ISETKNADLRDDAERLKRDLLKAERVEEDLRRNLVEQTEIMRENQQLRSQ  1550
1551  LGVAQSDLANASGRKQQLEGELAAVRAELRDHKQHLHDAISRIAELQRQL  1600
1601  QDANAEKSRLTDRIIGLEKTIGTLRNTETELRAQLSTAADERKALNSELE  1650
1651  EMRRRIVQMESEKKDVDNQLEEVNKARIIMTKKIEILETEKHSAELVISE  1700
1701  TASQREAIERSLNALERENKELYKNCAQLQQQIAQLEMDNGERLIALTTK  1750
1751  QKEDHEKFVAAVKAEKVQVERIVENRDRAQKSRIRQLENQLSMMREQLDN  1800
1801  ERARSHQMSERFIVNETNRRVSSSSFRLSGDAAGVAAATILHPQTDRLDY  1850
1851  VFANRSALSSYYTVPTEQHASRGKEAYRTSSTIKSSEGTTRESYTYQSRT  1900
1901  VSSNIIEQANGMTSSASGEGMSRAYPPTEVNQGDVTGRKSRPATRKQQMK  1950
1951  STFSE                                               1955

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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