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

NucPred

Fetching Q12789 from www.uniprot.org...

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

   1  MDALESLLDEVALEGLDGLCLPALWSRLETRVPPFPLPLEPCTQEFLWRA    50
  51  LATHPGISFYEEPRERPDLQLQDRYEEIDLETGILESRRDPVALEDVYPI   100
 101  HMILENKDGIQGSCRYFKERKNITNDIRTKSLQPRCTMVEAFDRWGKKLI   150
 151  IVASQAMRYRALIGQEGDPDLKLPDFSYCILERLGRSRWQGELQRDLHTT   200
 201  AFKVDAGKLHYHRKILNKNGLITMQSHVIRLPTGAQQHSILLLLNRFHVD   250
 251  RRSKYDILMEKLSVMLSTRTNHIETLGKLREELGLCERTFKRLYQYMLNA   300
 301  GLAKVVSLRLQEIHPECGPCKTKKGTDVMVRCLKLLKEFKRNDHDDDEDE   350
 351  EVISKTVPPVDIVFERDMLTQTYDLIERRGTKGISQAEIRVAMNVGKLEA   400
 401  RMLCRLLQRFKVVKGFMEDEGRQRTTKYISCVFAEESDLSRQYQREKARS   450
 451  ELLTTVSLASMQEESLLPEGEDTFLSESDSEEERSSSKRRGRGSQKDTRA   500
 501  SANLRPKTQPHHSTPTKGGWKVVNLHPLKKQPPSFPGAAEERACQSLASR   550
 551  DSLLDTSSVSEPNVSFVSHCADSNSGDIAVIEEVRMENPKESSSSLKTGR   600
 601  HSSGQDKPHETYRLLKRRNLIIEAVTNLRLIESLFTIQKMIMDQEKQEGV   650
 651  STKCCKKSIVRLVRNLSEEGLLRLYRTTVIQDGIKKKVDLVVHPSMDQND   700
 701  PLVRSAIEQVRFRISNSSTANRVKTSQPPVPQGEAEEDSQGKEGPSGSGD   750
 751  SQLSASSRSESGRMKKSDNKMGITPLRNYHPIVVPGLGRSLGFLPKMPRL   800
 801  RVVHMFLWYLIYGHPASNTVEKPSFISERRTIKQESGRAGVRPSSSGSAW   850
 851  EACSEAPSKGSQDGVTWEAEVELATETVYVDDASWMRYIPPIPVHRDFGF   900
 901  GWALVSDILLCLPLSIFIQIVQVSYKVDNLEEFLNDPLKKHTLIRFLPRP   950
 951  IRQQLLYKRRYIFSVVENLQRLCYMGLLQFGPTEKFQDKDQVFIFLKKNA  1000
1001  VIVDTTICDPHYNLARSSRPFERRLYVLNSMQDVENYWFDLQCVCLNTPL  1050
1051  GVVRCPRVRKNSSTDQGSDEEGSLQKEQESAMDKHNLERKCAMLEYTTGS  1100
1101  REVVDEGLIPGDGLGAAGLDSSFYGHLKRNWIWTSYIINQAKKENTAAEN  1150
1151  GLTVRLQTFLSKRPMPLSARGNSRLNIWGEARVGSELCAGWEEQFEVDRE  1200
1201  PSLDRNRRVRGGKSQKRKRLKKDPGKKIKRKKKGEFPGEKSKRLRYHDEA  1250
1251  DQSALQRMTRLRVTWSMQEDGLLVLCRIASNVLNTKVKGPFVTWQVVRDI  1300
1301  LHATFEESLDKTSHSVGRRARYIVKNPQAYLNYKVCLAEVYQDKALVGDF  1350
1351  MNRRGDYDDPKVCANEFKEFVEKLKEKFSSALRNSNLEIPDTLQELFARY  1400
1401  RVLAIGDEKDQTRKEDELNSVDDIHFLVLQNLIQSTLALSDSQMKSYQSF  1450
1451  QTFRLYREYKDHVLVKAFMECQKRSLVNRRRVNHTLGPKKNRALPFVPMS  1500
1501  YQLSQTYYRIFTWRFPSTICTESFQFLDRMRAAGKLDQPDRFSFKDQDNN  1550
1551  EPTNDMVAFSLDGPGGNCVAVLTLFSLGLISVDVRIPEQIIVVDSSMVEN  1600
1601  EVIKSLGKDGSLEDDEDEEDDLDEGVGGKRRSMEVKPAQASHTNYLLMRG  1650
1651  YYSPGIVSTRNLNPNDSIVVNSCQMKFQLRCTPVPARLRPAAAPLEELTM  1700
1701  GTSCLPDTFTKLINPQENTCSLEEFVLQLELSGYSPEDLTAALEILEAII  1750
1751  ATGCFGIDKEELRRRFSALEKAGGGRTRTFADCIQALLEQHQVLEVGGNT  1800
1801  ARLVAMGSAWPWLLHSVRLKDREDADIQREDPQARPLEGSSSEDSPPEGQ  1850
1851  APPSHSPRGTKRRASWASENGETDAEGTQMTPAKRPALQDSNLAPSLGPG  1900
1901  AEDGAEAQAPSPPPALEDTAAAGAAQEDQEGVGEFSSPGQEQLSGQAQPP  1950
1951  EGSEDPRGFTESFGAANISQAARERDCESVCFIGRPWRVVDGHLNLPVCK  2000
2001  GMMEAMLYHIMTRPGIPESSLLRHYQGVLQPVAVLELLQGLESLGCIRKR  2050
2051  WLRKPRPVSLFSTPVVEEVEVPSSLDESPMAFYEPTLDCTLRLGRVFPHE  2100
2101  VNWNKWIHL                                           2109

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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