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

NucPred

Fetching P32870 from www.uniprot.org...

The NucPred score for your sequence is 0.87 (see score help below)

   1  MDHAVKATRGRPLNTLRFENDELECLYQRYTLKLQRFSVLGVVALVFVLC    50
  51  GVMAALSLTFNNAATFHNIFNAIVCGLFAVVLVLLQCSVIKDHHLPTLCY   100
 101  GILLFTASICVVSMPTLGSVFPVDTKEVMAEGVWQIVFVVFLAYAMMPLQ   150
 151  IWEAVAFGIALPSVHISLTVYKIFTDALRYLEYNQLIANIVIFIGVNVAG   200
 201  LVVNIMMERAQRRTFLDTRNCIASRLEIQDENEKLERLLLSVLPQHVAMQ   250
 251  MKNDILSPVAGQFHRIYIQKHENVSILFADIVGFTVLSSQCSAQELVRLL   300
 301  NELFGRFDQLAHDNHCLRIKILGDCYYCVSGLPEPRKDHAKCAVEMGLDM   350
 351  IDAIATVVEATDVILNMRVGIHTGRVLCGVLGLRKWQFDVWSNDVTLANH   400
 401  MESGGEPGRVHVTRATLDSLSGEYEVEAGHGDERSSYLRDHGVDTFFIVP   450
 451  PPHRRKPLMLNTLGVRSAIGSRRKLSFRNVSNVVMQLLHTIKFSEPVPFS   500
 501  NIATGSFPSAASALGGGVSVGGGGGGGGGGVARGSTCEANSGNVQVSEKG   550
 551  SRKVIRLQKILHATPPPHGMGYGSVVGSGGGVDSGISGGGGCVSGGIAGG   600
 601  GGVQVTVGTNPNSTASTISRIHRHNHKNNKSQSKVADKFKRPFRKRHSVA   650
 651  AHHQPTNRVNRFLSQAINARSVDCDKSEHVDRLTLRFRQSDMEREYHKDF   700
 701  DLGFTTAMGCSLLLLILGAALQVTALPRTLILLLLFLFAFIWVSAILMLL   750
 751  LAVRLKWIIWDISESFSLRMAITIFTVILIYSVGQVNVFTCVSDHPCSGN   800
 801  GTTSFQNDSHRKCSLPQYVSLSAAFAFLSVSVFLRLPIIFKSLLVLGMGT   850
 851  IYGLFIELSHQNIFECYDNRVNASIPLHLISLARIAIFMIAILVHGRLVE   900
 901  GTARLDFLWQLQASQEKKEMDVLQESNKRILHNLLPAHVAAHFLDAQFRN   950
 951  NMELYHQSYAKVGVIFASVPNFNEFYTEMDGSDQGLECLRLLNEIIADFD  1000
1001  ELLKEDRFRGIDKIKTVGSTYMAVVGLIPEYKIQPNDPNSVRRHMTALIE  1050
1051  YVKAMRHSLQEINSHSYNNFMLRVGINIGPVVAGVIGARKPQYDIWGNTV  1100
1101  NVASRMDSTGVPGYSQVTQEVVDSLVGSHFEFRCRGTIKVKGKGDMVTYF  1150
1151  LCDSGNKSLNGEVRNAMSLPQSLHAPDYYMKVSQFPENRVNTDTYSKKEN  1200
1201  GHLYAGNGVEEQQLLLQHQHKQHDPLPLPAPPPPVHHHLHQQQQQRLNSK  1250
1251  LQKQPIFMANGGLPNIRENGNGHNGEHQQQQQQQQQHQQQQQQQQQHGGF  1300
1301  MVATTTPPAAVAVPLQPQHHQLQFQHPHQHPLPSAVSVPVQHQILLHHQL  1350
1351  QLQHQPVPSVMLREFNIIENPTSGGRHQQMEQLPPHHGSLDLSGMGMGVG  1400
1401  AGVLGSDCFMMPRRDRERTYVPPLNQHGHHPPHHLHSNLNLNQSQHPPSF  1450
1451  TSLGYGQCRESEPLLHASSVAPVAKIMPMQHAPKYEPPRYTSPHTMLSQQ  1500
1501  HQQQQQQQHQHQQPQSQSAQDQQTHPAQDPHPLQRQYAMYSQQPQLPPKP  1550
1551  VLRTYMKPLPKLPTDLEESRDMSSTDDLSSRPHSPSMSSSDESYSKTTEG  1600
1601  EGEGDEDSPRMVNGGHLHHRNGYHLPAGGLVNPLQWLYPCDIQVDPTSPV  1650
1651  VDMAHLHDFELSSTTESQGHHTNSNTTSNTQHKGDSCNSFDFQKAAVGTA  1700
1701  AGAAIATKSPFERELQRLLNESSRARCLATATTTAGAISTTDQTASNGSR  1750
1751  ELSYSLSNGKLSSANGHGVGGSGSGSGSGSGSGSAVGNGSGGSGSSNGNL  1800
1801  SGGSGSNSNSGNNNSSHHKTEQQQNMDHEHLAGGKLLGSNSFMIAKHPVG  1850
1851  LEAIKEITRNKNPSESSQMQTSDTESCEILHENRNQMHVLAMLEMHTAKE  1900
1901  LNGSHAHHGQHHQQPQRTHRQRPRSKELQYSHESLDGLDGAVQSQSQQRH  1950
1951  QRYHHHHHHQQRQQQQQRYNHVQEQEERDDTEDNLADEEFEDDEVGRDVR  2000
2001  QKRLQKSELNHKRSEVATEAGNHHDDEVEEEDDDDDEEEDHRNGGREAAP  2050
2051  LTNGSMRGLEANVINDELKYGATHLNHQSMDSNPLESQSEWSDDDCREEA  2100
2101  TGGAESTGYITDEPGLENISLLNEAGLTDAEGALSDVNSLYNAPDVDDTS  2150
2151  VSSRASSRLLSLDSLSGLYDCDLDSKHELAIVNASHKISSKFGQPLSPAQ  2200
2201  QQHQQQQQQQQQQQQQHHQQQLQQNPQHTQAQSHLAPVQFQSAEELRE    2248

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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