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

NucPred

Fetching Q09794 from www.uniprot.org...

The NucPred score for your sequence is 0.23 (see score help below)

   1  MSGLLPSLSSSFPLVQSEALGMPRTHGPKPSENDPKEPTCSPSPAFYSVN    50
  51  GEMKDYKLMALELEDKSVLQGYSFGADHSVSGELVFQTGMVGYPESLTDP   100
 101  SYRGQILVFTFPTVGNYGVPDRRILDEISGLPKYFESNQIHVAAIIISSY   150
 151  SQNYSHFLAHSSLGEWLKEQGIPGIFGIDTRALTKKIRDQGSMLGRLLIQ   200
 201  KDESPINPSSITGLGKDWSTAFEDIPWKNPNTENLTSQVSIKEPKLYEPH   250
 251  PTTAIKKADGKIIRILVIDVGMKYNQIRCFLNRGVELLVVPWDYDFTKET   300
 301  YDGLFISNGPGDPSLMDLVVDRVKRVLESKTVPVFGICFGHQIMARAAGA   350
 351  STTKMKFGNRGHNIPCTCMISGRCYITSQNHGYAVDASSLSNGWKELFVN   400
 401  ANDGSNEGIYNTEYPFFSVQFHPESTPGPRDTEFLFDVFIDVVKRSADAK   450
 451  SLQPFKLPGGTIEENRSRHPLVDAKRVLILGSGGLSIGQAGEFDYSGSQA   500
 501  IKALREEGIYTILINPNIATIQTSKGLADKVYFLPVNADFVRKVIKQERP   550
 551  DSIYVTFGGQTALNVGIELKDEFEQLGVKVLGTPIDTIITTEDRELFARA   600
 601  MDEINEKCAKSASASSIEEAIKVSKDISFPVIVRAAYALGGLGSGFADNE   650
 651  AELIDLCTLAFATSPQVLIERSMKGWKEIEYEVVRDAFDNCITVCNMENF   700
 701  DPLGIHTGDSIVVAPSQTLTDEDYNMLRTTAVNVIRHLGVVGECNIQYAL   750
 751  NPFTKEYCIIEVNARLSRSSALASKATGYPLAFTAAKLGLNIPLNEVKNS   800
 801  VTKVTCACFEPSLDYVVVKIPRWDLKKFTRVSTQLSSAMKSVGEVMSIGR   850
 851  TFEEAIQKAIRAIDYSNTGFNVKDALMSIDTELQTPSDQRLFAIANAMAS   900
 901  GYSVDRIWELTRIDKWFLEKLMGLIRTSQLISKHDISSLPISLLKTAKQL   950
 951  GFADVQIAAFMNSTELAVRRIRTEAGIRPFVKQIDTVAAEFPAFTNYLYT  1000
1001  TYNAVEHDIHFNDKGVMVLGSGVYRIGSSVEFDWCAVRAVRTLRDRGVKT  1050
1051  IMVNYNPETVSTDYDEADRLYFENIGLETVLDIYEQESSSGIIIAMGGQT  1100
1101  ANNIALPLHRENVKILGTSPEMIDGAENRFKFSRMLDDIGVDQPKWKELT  1150
1151  SFDEADKFCDTVGYPVLVRPSYVLSGAAMNTVYSQSDLHSYLQQAVAINK  1200
1201  DHPVVISKYIENAKEIELDAVAREGKMVMHVISEHVENAGVHSGDATLVL  1250
1251  PPQDLAPTTIERIVDAAAKIGEALNITGPYNIQFIAKDNEIKVIECNVRA  1300
1301  SRSFPFVSKVIGVDMISMATDVIMGNPIQPYPDVDLPRDYVAVKVPQFSF  1350
1351  SRLSGADPVLGVEMASTGEVACFGHNKFEAYLKAMISTGFRLPKKNILIS  1400
1401  IGSYKEKAELLPYVKKLYENNYNIFATAGTSDYFMESGVPCKYLADLPAE  1450
1451  EANNEYSLSAHLANNMIDMYINLPSNNRYRRPANYISSGYKSRRLAIDYS  1500
1501  VPLVTNVKCAKLMIEAICRNLDFSLSTVDFQSSFQTANLPGLINISAFLP  1550
1551  EFTSEAVSDYTKECIASGFTMARFLPFSTSSTLADKDSLSAVKKLALDHA  1600
1601  HCDYNFSVIASSTNEVTISELTSESGCLFFHFEKDDSGIDHVTAVASHFN  1650
1651  VWPDTQTVMTDAKSTTLASLLLLASLHNRRIHITNVSSKDDLNLIVLAKQ  1700
1701  RSLPVTFDVSVYSLFLNQNDYPGATFLPTADDQVEIWNKLSYIDCFSIGS  1750
1751  IPSRLAKFVGNTAFTGFGVREAIPLLLTAVNEGRLTLKDVVDRFYSNPKA  1800
1801  IFRLHDQDDSGVQLEVDRSVSWSSKDWTPFNGKKLYGSIQSVQFDGHDVF  1850
1851  FDGELNFEHTYGRDYSSASLADKSKATRKVSALMSPGLPHAAPSLAEAFG  1900
1901  QAPENKAHPDISLNMTPNFKPSHELVQLINSSPFYRKHIISVHQVTRSDL  1950
1951  HVLFAIAHQMRIIVERQGVIDLCYGKLLCTMFFEPSTRTSSSFDAAMQRL  2000
2001  GGKVVAVTASASSVNKGESLADTIRTLGCYGDAIVLRHPSIESARIAANF  2050
2051  SPVPIINGGNGSKEHPTQAFLDLYTIREELGSVNGLTITFIGDLKYGRTV  2100
2101  HSLARLLAFWHVELHLVSPEQLALPDDVKDDIRANGLNFIEHRELTKEVV  2150
2151  AQSDVLYCTRVQKERFASVDEYEKLKDSFIVDNSVLASAKSHCIVMHPLP  2200
2201  RNREISEEVDFDQRRAAYFRQMRYGLYIRMALLACVMGATEVAN        2244

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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