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

NucPred

Fetching Q9WVC7 from www.uniprot.org...

The NucPred score for your sequence is 0.93 (see score help below)

   1  MLTMSVTLSPLRSQGPDPMATDASPMAINMTPTVEQEEGEGEEAVKAIDA    50
  51  EQQYGKPPPLHTAADWKIVLHLPEIETWLRMTSERVRDLTYSVQQDADSK   100
 101  HVDVHLVQLKDICEDISDHVEQIHALLETEFSLKLLSYSVNVIVDIHAVQ   150
 151  LLWHQLRVSVLVLRERILQGLQDANGNYTRQTDILQAFSEETTEGRLDSL   200
 201  TEVDDSGQLTIKCSQDYLSLDCGITAFELSDYSPSEDLLGGLGDMTTSQA   250
 251  KTKSFDSWSYSEMEKEFPELIRSVGLLTVATEPVPSSCGEANEDSSQASL   300
 301  SDDHKGEHGEDGAPVPGQQLDSTVGMSSLDGTLANAAEHPSETAKQDSTS   350
 351  SPQLGAKKTQPGPCEITTPKRSIRDCFNYNEDSPTQPTLPKRGLFLKETQ   400
 401  KNERKGSDRKGQVVDLKPELSRSTPSLVDPPDRSKLCLVLQSSYPSSPSA   450
 451  ASQSYECLHKVGLGNLENIVRSHIKEISSSLGRLTDCHKEKLRLKKPHKT   500
 501  LAEVSLCRIPKQGGGSGKRSESTGSSAGPSMVSPGAPKATMRPETDSAST   550
 551  ASGGLCHQRNRSGQLPVQSKASSSPPCSHSSESSLGSDSIKSPVPLLSKN   600
 601  KSQKSSPPAPCHATQNGQVVEAWYGSDEYLALPSHLKQTEVLALKLESLT   650
 651  KLLPQKPRGETIQDIDDWELSEMNSDSEIYPTYHIKKKHTRLGTVSPSSS   700
 701  SDIASSLGESIESGPLSDILSDEDLCLPLSSVKKFTDEKSERPSSSEKNE   750
 751  SHSATRSALIQKLMHDIQHQENYEAIWERIEGFVNKLDEFIQWLNEAMET   800
 801  TENWTPPKAETDSLRLYLETHLSFKLNVDSHCALKEAVEEEGHQLLELVV   850
 851  SHKAGLKDTLRMIASQWKELQRQIKRQHSWILRALDTIKAEILATDVSVE   900
 901  DEEGTGSPKAEVQLCHLETQRDAVEQMSLKLYSEQYTSGSKRKEEFANMS   950
 951  KAHAEGSNGLLDFDSEYQELWDWLIDMESLVMDSHDLMMSEEQQQHLYKR  1000
1001  YSVEMSIRHLKKSELLSKVEALKKGGLSLPDDILEKVDSINEKWELLGKT  1050
1051  LREKIQDTIAGHSGSGPRDLLSPESGSLVRQLEVRIKELKRWLRDTELFI  1100
1101  FNSCLRQEKEGTSAEKQLQYFKSLCREIKQRRRGVASILRLCQHLLDDRD  1150
1151  TCNLNADHQPMQLIIVNLERRWEAIVMQAVQWQTRLQKKMGKESETLNVI  1200
1201  DPGLMDLNGMSEDALEWDETDISNKLISVHEESNDLDQDPEPMLPAVKLE  1250
1251  ETHHKDSGYEEEAGDCGGSPYTSNITAPSSPHIYQVYSLHNVELHEDSHT  1300
1301  PFLKSSPKFTGTTQPTVLTKSLSKDSSFSSTKSLPDLLGGSGLVRPYSCH  1350
1351  SGDLSQNSGSESGIVSEGDNEMPTNSDMSLFSMVDGSPSNPETEHPDPQM  1400
1401  GDAANVLEQKFKDNGESIKLSSVSRASVSPVGCVNGKAGDLNSVTKHTAD  1450
1451  CLGEELQGKHDVFTFYDYSYLQGSKLKLPMIMKQPQSEKAHVEDPLLGGF  1500
1501  YFDKKSCKAKHQASESQPDAPPHERILASAPHEMGRSAYKSSDIEKTFTG  1550
1551  IQSARQLSLLSRSSSVESLSPGGDLFGLGIFKNGSDSLQRSTSLESWLTS  1600
1601  YKSNEDLFSCHSSGDISVSSGSVGELSKRTLDLLNRLENIQSPSEQKIKR  1650
1651  SVSDMTLQSSSQKMPFAGQMSLDVASSINEDSPASLTELSSSDELSLCSE  1700
1701  DIVLHKNKIPESNASFRKRLNRSVADESDVNVSMIVNVSCTSACTDDEDD  1750
1751  SDLLSSSTLTLTEEELCLKDEDDDSSIATDDEIYEESNLMSGLDYIKNEL  1800
1801  QTWIRPKLSLTREKKRSGVTDEIKVNKDGGGNEKANPSDTLDIEALLNGS  1850
1851  IRCLSENNGNGKTPPRTHGSGTKGENKKSTYDVSKDPHVADMENGNIEST  1900
1901  PEREREKPQGLPEVSENLASNVKTISESELSEYEAVMDGSEDSSVARKEF  1950
1951  CPPNDRHPPQMGPKLQHPENQSGDCKPVQNPCPGLLSEAGVGSRQDSNGL  2000
2001  KSLPNDAPSGARKPAGCCLLEQNETEESASISSNASCCNCKPDVFHQKDD  2050
2051  EDCSVHDFVKEIIDMASTALKSKSQPESEVAAPTSLTQIKEKVLEHSHRP  2100
2101  IHLRKGDFYSYLSLSSHDSDCGEVTNYIDEKSSTPLPPDAVDSGLDDKED  2150
2151  MDCFFEACVEDEPVNEEAGLPGALPNESAIEDGAEQKSEQKTASSPVLSD  2200
2201  KTDLVPLSGLSPQKGADDAKEGDDVSHTSQGCAESTEPTTPSGKANAEGR  2250
2251  SRMQGVSATPEENAASAKPKIQAFSLNAKQPKGKVAMRYPSPQTLTCKEK  2300
2301  LVNFHEDRHSNMHR                                      2314

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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