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

NucPred

Fetching O75165 from www.uniprot.org...

The NucPred score for your sequence is 0.74 (see score help below)

   1  MNIIRENKDLACFYTTKHSWRGKYKRVFSVGTHAITTYNPNTLEVTNQWP    50
  51  YGDICSISPVGKGQGTEFNLTFRKGSGKKSETLKFSTEHRTELLTEALRF   100
 101  RTDFSEGKITGRRYNCYKHHWSDSRKPVILEVTPGGFDQINPATNRVLCS   150
 151  YDYRNIEGFVDLSDYQGGFCILYGGFSRLHLFASEQREEIIKSAIDHAGN   200
 201  YIGISLRIRKEPLEFEQYLNLRFGKYSTDESITSLAEFVVQKISPRHSEP   250
 251  VKRVLALTETCLVERDPATYNIATLKPLGEVFALVCDSENPQLFTIEFIK   300
 301  GQVRKYSSTERDSLLASLLDGVRASGNRDVCVKMTPTHKGQRWGLLSMPV   350
 351  DEEVESLHLRFLATPPNGNFADAVFRFNANISYSGVLHAVTQDGLFSENK   400
 401  EKLINNAITALLSQEGDVVASNAELESQFQAVRRLVASKAGFLAFTQLPK   450
 451  FRERLGVKVVKALKRSNNGIIHAAVDMLCALMCPMHDDYDLRQEQLNKAS   500
 501  LLSSKKFLENLLEKFNSHVDHGTGALVISSLLDFLTFALCAPYSETTEGQ   550
 551  QFDMLLEMVASNGRTLFKLFQHPSMAIIKGAGLVMKAIIEEGDKEIATKM   600
 601  QELALSEGALPRHLHTAMFTISSDQRMLTNRQLSRHLVGLWTADNATATN   650
 651  LLKRILPPGLLAYLESSDLVPEKDADRMHVRDNVKIAMDQYGKFNKVPEW   700
 701  QRLAGKAAKEVEKFAKEKVDLVLMHWRDRMGIAQKENINQKPVVLRKRRQ   750
 751  RIKIEANWDLFYYRFGQDHARSNLIWNFKTREELKDTLESEMRAFNIDRE   800
 801  LGSANVISWNHHEFEVKYECLAEEIKIGDYYLRLLLEEDENEESGSIKRS   850
 851  YEFFNELYHRFLLTPKVNMKCLCLQALAIVYGRCHEEIGPFTDTRYIIGM   900
 901  LERCTDKLERDRLILFLNKLILNKKNVKDLMDSNGIRILVDLLTLAHLHV   950
 951  SRATVPLQSNVIEAAPDMKRESEKEWYFGNADKERSGPYGFHEMQELWTK  1000
1001  GMLNAKTRCWAQGMDGWRPLQSIPQLKWCLLASGQAVLNETDLATLILNM  1050
1051  LITMCGYFPSRDQDNAIIRPLPKVKRLLSDSTCLPHIIQLLLTFDPILVE  1100
1101  KVAILLYHIMQDNPQLPRLYLSGVFFFIMMYTGSNVLPVARFLKYTHTKQ  1150
1151  AFKSEETKGQDIFQRSILGHILPEAMVCYLENYEPEKFSEIFLGEFDTPE  1200
1201  AIWSSEMRRLMIEKIAAHLADFTPRLQSNTRALYQYCPIPIINYPQLENE  1250
1251  LFCNIYYLKQLCDTLRFPDWPIKDPVKLLKDTLDAWKKEVEKKPPMMSID  1300
1301  DAYEVLNLPQGQGPHDESKIRKAYFRLAQKYHPDKNPEGRDMFEKVNKAY  1350
1351  EFLCTKSAKIVDGPDPENIILILKTQSILFNRHKEDLQPYKYAGYPMLIR  1400
1401  TITMETSDDLLFSKESPLLPAATELAFHTVNCSALNAEELRRENGLEVLQ  1450
1451  EAFSRCVAVLTRASKPSDMSVQVCGYISKCYSVAAQFEECREKITEMPSI  1500
1501  IKDLCRVLYFGKSIPRVAALGVECVSSFAVDFWLQTHLFQAGILWYLLGF  1550
1551  LFNYDYTLEESGIQKSEETNQQEVANSLAKLSVHALSRLGGYLAEEQATP  1600
1601  ENPTIRKSLAGMLTPYVARKLAVASVTEILKMLNSNTESPYLIWNNSTRA  1650
1651  ELLEFLESQQENMIKKGDCDKTYGSEFVYSDHAKELIVGEIFVRVYNEVP  1700
1701  TFQLEVPKAFAASLLDYIGSQAQYLHTFMAITHAAKVESEQHGDRLPRVE  1750
1751  MALEALRNVIKYNPGSESECIGHFKLIFSLLRVHGAGQVQQLALEVVNIV  1800
1801  TSNQDCVNNIAESMVLSSLLALLHSLPSSRQLVLETLYALTSSTKIIKEA  1850
1851  MAKGALIYLLDMFCNSTHPQVRAQTAELFAKMTADKLIGPKVRITLMKFL  1900
1901  PSVFMDAMRDNPEAAVHIFEGTHENPELIWNDNSRDKVSTTVREMMLEHF  1950
1951  KNQQDNPEANWKLPEDFAVVFGEAEGELAVGGVFLRIFIAQPAWVLRKPR  2000
2001  EFLIALLEKLTELLEKNNPHGETLETLTMATVCLFSAQPQLADQVPPLGH  2050
2051  LPKVIQAMNHRNNAIPKSAIRVIHALSENELCVRAMASLETIGPLMNGMK  2100
2101  KRADTVGLACEAINRMFQKEQSELVAQALKADLVPYLLKLLEGIGLENLD  2150
2151  SPAATKAQIVKALKAMTRSLQYGEQVNEILCRSSVWSAFKDQKHDLFISE  2200
2201  SQTAGYLTGPGVAGYLTAGTSTSVMSNLPPPVDHEAGDLGYQT         2243

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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