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

NucPred

Fetching Q10411 from www.uniprot.org...

The NucPred score for your sequence is 0.86 (see score help below)

   1  MSNQSSSGSNTSDLDEESASSLVSSAASPFIDSDLETPRPNISRASTGQL    50
  51  AEDGDTSSQHEDSSEELKRQEVRGMRRHSDLSIDAKLGSSEGSTASSALP   100
 101  LTPRSPSNASWLLVRGGLLDSPILDINSVTQKSNLLNELKQVRSKLAALE   150
 151  HENGILSLQLSSSNKKDKNTSSVTTLTSEEDVSYFQKKLTNMESNFSAKQ   200
 201  SEAYDLSRQLLTVTEKLDKKEKDYEKIKEDVSSIKASLAEEQASNKSLRG   250
 251  EQERLEKLLVSSNKTVSTLRQTENSLRAECKTLQEKLEKCAINEEDSKLL   300
 301  EELKHNVANYSDAIVHKDKLIEDLSTRISEFDNLKSERDTLSIKNEKLEK   350
 351  LLRNTIGSLKDSRTSNSQLEEEMVELKESNRTIHSQLTDAESKLSSFEQE   400
 401  NKSLKGSIDEYQNNLSSKDKMVKQVSSQLEEARSSLAHATGKLAEINSER   450
 451  DFQNKKIKDFEKIEQDLRACLNSSSNELKEKSALIDKKDQELNNLREQIK   500
 501  EQKKVSESTQSSLQSLQRDILNEKKKHEVYESQLNELKGELQTEISNSEH   550
 551  LSSQLSTLAAEKEAAVATNNELSESKNSLQTLCNAFQEKLAKSVMQLKEN   600
 601  EQNFSSLDTSFKKLNESHQELENNHQTITKQLKDTSSKLQQLQLERANFE   650
 651  QKESTLSDENNDLRTKLLKLEESNKSLIKKQEDVDSLEKNIQTLKEDLRK   700
 701  SEEALRFSKLEAKNLREVIDNLKGKHETLEAQRNDLHSSLSDAKNTNAIL   750
 751  SSELTKSSEDVKRLTANVETLTQDSKAMKQSFTSLVNSYQSISNLYHELR   800
 801  DDHVNMQSQNNTLLESESKLKTDCENLTQQNMTLIDNVQKLMHKHVNQES   850
 851  KVSELKEVNGKLSLDLKNLRSSLNVAISDNDQILTQLAELSKNYDSLEQE   900
 901  SAQLNSGLKSLEAEKQLLHTENEELHIRLDKLTGKLKIEESKSSDLGKKL   950
 951  TARQEEISNLKEENMSQSQAITSVKSKLDETLSKSSKLEADIEHLKNKVS  1000
1001  EVEVERNALLASNERLMDDLKNNGENIASLQTEIEKKRAENDDLQSKLSV  1050
1051  VSSEYENLLLISSQTNKSLEDKTNQLKYIEKNVQKLLDEKDQRNVELEEL  1100
1101  TSKYGKLGEENAQIKDELLALRKKSKKQHDLCANFVDDLKEKSDALEQLT  1150
1151  NEKNELIVSLEQSNSNNEALVEERSDLANRLSDMKKSLSDSDNVISVIRS  1200
1201  DLVRVNDELDTLKKDKDSLSTQYSEVCQDRDDLLDSLKGCEESFNKYAVS  1250
1251  LRELCTKSEIDVPVSEILDDNFVFNAGNFSELSRLTVLSLENYLDAFNQV  1300
1301  NFKKMELDNRLTTTDAEFTKVVADLEKLQHEHDDWLIQRGDLEKALKDSE  1350
1351  KNFLRKEAEMTENIHSLEEGKEETKKEIAELSSRLEDNQLATNKLKNQLD  1400
1401  HLNQEIRLKEDVLKEKESLIISLEESLSNQRQKESSLLDAKNELEHMLDD  1450
1451  TSRKNSSLMEKIESINSSLDDKSFELASAVEKLGALQKLHSESLSLMENI  1500
1501  KSQLQEAKEKIQVDESTIQELDHEITASKNNYEGKLNDKDSIIRDLSENI  1550
1551  EQLNNLLAEEKSAVKRLSTEKESEILQFNSRLADLEYHKSQVESELGRSK  1600
1601  LKLASTTEELQLAENERLSLTTRMLDLQNQVKDLSNIKDSLSEDLRTLRS  1650
1651  LEDSVASLQKECKIKSNTVESLQDVLTSVQARNAELEDEVSRSVDKIRRR  1700
1701  DDRCEHLSGKLKKLHSQLEEQHETFFRAEQQRMTQLGFLKETVKKQEKLL  1750
1751  KKLNLRQEQLIPRSSILVYESYIRDIEKEIIVLQERLNGIELSQQLPKGY  1800
1801  FGYFFKTNRVEMEVLDSFKQQVAKLQFLAGAEFIVKFKEDLEKCAAEEKE  1850
1851  KQATFDNYSEKVENLGKSIEALYFALNREISFRKSLALSKSAYHNLLVRD  1900
1901  SPKFNPDSQITYSIPVTNTKQSLLRSAILCVISLQRLRLLGQRHSFCEEV  1950
1951  IENLSCV                                             1957

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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