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

NucPred

Fetching Q5EAK6 from www.uniprot.org...

The NucPred score for your sequence is 0.78 (see score help below)

   1  MSALLNEIQRILGDLQSGKAASRNKGIQQLDEKLSSCREDLDKLFLSKTS    50
  51  DISWTTIFEASKEALFKQAGNLEDVNEKVFKTLAGKNYLYDNVLEKITQF   100
 101  NLEAGSQTSGNGHFLAKTSIFSAFEDGIKMRVVVKYFGDRILSLLEKGIY   150
 151  SSVSYVRDLKINEYSRILSYLFELNVDMDEVLRTRILKCITRTVSLAKDR   200
 201  VQLHVDLVEYLPELSSFALSAFGARKTEIVRVYLIFASELAVNYNHQLNV   250
 251  HMQEILPKLCEYHDEDAFRDDTRNLFFQCVSKSLHSMYLKMDMCDFNTLG   300
 301  VPVHEKWPQTLLRLKTIVNVEIRKNSWARCKNALLSNNKFSDPFIKMSAL   350
 351  AMYIVLWHLETKKADENGEGDAPKKIPKPADKMETIFSLIDKKENTFNDV   400
 401  WLAIFTEILQLSSVILNVANYQMALTTVAEIMQMYGNAKNLRNLRLCLAH   450
 451  LLTKEQELLHSKSIREDFLGELWSQMANQLISETTTNSEEIKEKQLVLQM   500
 501  LIRHNKLNQKLSSTLLNNIISNEMLKRNECLATIREIFIHADKCGQDKAS   550
 551  ADLEPIIAWAYGSADRFIAAQMIHNIDSIDAQLQADTFAISIINFLDVQQ   600
 601  LRQISQSEHIVPSTERNLLAYKYNEQLICFDKDYATPFESITHIQSETKN   650
 651  CLIQSNYDCLMRGLNFEIAKENKPAAIIKNLNSLLKLICTMERLLHYKVF   700
 701  DADTYTGCPLIKRIGLYLSHIEFQLKANGAEILDKSDLPEILRLEIYVLD   750
 751  VFRTNLVLLDYLERQPIEMLVEFVGAALKLHSMQRERSVDADHGTITRLC   800
 801  LNILAGLCAYNSHRDEAFEHIVKVTMRWHPQDVLIVTKMLCSCQTISEAS   850
 851  SSWLVSKLKTLFQQHHQDAELMDKVVQHMPTIFYFVRHKENHLDDMLMAL   900
 901  NSLLRIAIKKSYTSNLTAKIVRCVGLIAQRCPDIYLLENFAVICKSTAKF   950
 951  ITMPTLEVRFATLFTFTILLESNCVTSDAIGHSRTHWDFCQELYESIEFK  1000
1001  KLTYNNEDAIQNSNALIVQMLIAIFLRSSFHQEIALKELLHHCALRRLTE  1050
1051  REFISLQSMSSCHRQTVRDLIRPFAAILLHHWSSKRWPISKFPYFLCYST  1100
1101  KSEFRKTHASEIMAYTFLYGKTEDIERCSKSISEELALPILASFLLIKNS  1150
1151  SCSESEGQNFKEHLQLLSENLSYSQLNATDVDLDLDILCYVISMLHDPQE  1200
1201  MMRLFGSLAICNRTASWYSLSGESLFKCLNFHIDPEMRPSMDSRIQSMTT  1250
1251  LQTKHSRVLVDIFGRLKTNCYSASFSSQALHDFFLYCEVADAVYDAARKN  1300
1301  ETIVTQCSFFVRDIWFFVVRLLIHTKFIRVQMAALTFLELLLNKHNFRLD  1350
1351  DYQNHFGDIAKLLSNFQLCCEAKEVREKTMSIVMYILESKKGHINLNSFL  1400
1401  EETTDCEFLKPLREDCKSSQPNIDRADVANYLRSFLLSPTPERLRDLRTY  1450
1451  IAEHKDKVQEHEKLLFGVINKLIQMTRDAHNKTTSIDSLKCLAQIGPLKI  1500
1501  STVSYYFQTDFEAFEKSNGEPMEAFLGVVCHSLDTSLFQFDPKTHEGLVS  1550
1551  VAIQVVNSKPGSNIMERYKNLRIFADKSTASTFLHSNKQIRRIDWLSILK  1600
1601  ATKSLSYEPWMCAFVSKVFQMCGWLGFDKLAATSFAFAKTCLLPFIKLLL  1650
1651  ENSLEHVESLSQMLDYFFEGFTSSTAPNSQEIFRNKRAIKKFLHICEYIR  1700
1701  IFNNWTIPINLSNVVMASNHCQAYFLSIMYLELWACSESPKSKADFLDNE  1750
1751  CFQDGAKKAYESIGCLDAIPGFVNPMRSRLDFLGHGSNLSTILLESDHLD  1800
1801  RASGQLCIDIMKGNGLWSFAKLQQHQNIEPDYEIFWRLGQWDSLTDPKHQ  1850
1851  QNQTVVRTSLDLEQEFKRHHFVALRSIGQREEENSLSAIEQAYSCVRDIL  1900
1901  MEISVECLQSVYKYLTWLCSLQQAEDFCQIQFGTQLDPASTTKIFRKWQT  1950
1951  ELELKYGNFSCKEYVIAHQIALLKLAGTRASRRMSEFYQKDPISTYLMKG  2000
2001  IEECKSAGKLNLAAKYTATLRELPNIRESIKISVLLEDAEINLKMGNQQI  2050
2051  AKAILDYVTNNNEFVYCVQRVPALRMQGEFLLDCNAETLSWVQSHKFNNS  2100
2101  LKLIDDFVQHRQTLSEKYRDIFDWHQLDAYASKQRTAAYATIAKYADREY  2150
2151  QQLHDYRHSQEYQTLKDIIEQNRQTAEKVTQRENQDRRVISVQMKRYASL  2200
2201  DEQQLNQIEEKLTEYLRLALTNYMAYCRLDSGFSSAAIYRIISLWFTNAT  2250
2251  SKQCQECIKDEILTVPSYKFICAANQLTARLNSKNTSLLKGLTDLLVQCG  2300
2301  KDHPYHTFYQLYPLVFAHLDGENSNTERSGIARKIIAMICEKNGTAGECS  2350
2351  KQLESLLPALITFANEGKTNDNRPVSDSVRNKQFDKVRRWRNLNAVHCPT  2400
2401  LELPVMPSKEYSIISVVKWTNETTQCGGLNAPVKIMCVCSDGKIRAQLVK  2450
2451  GKDDLRQDAVMQQVFGIVNELLNQDSEFIERKLKLRTYKVTPLSMRSGIL  2500
2501  EWCTNSVPVGHYLVVEGKGGAHARYRPNDWNNNKCRKLSSDHLKSPKETR  2550
2551  YAIYKKICENIKPVFHYFLLEKFPIPGVWFERRLAYTNSVATTSMVGYVL  2600
2601  GLGDRHTQNILVDQQTAEVIHIDFGIAFEQGKIQTTPETVPFRLTRDFVA  2650
2651  PMGICGTKGVFAKSCEATMHILRRYKSVFTTILEVLLYDPLFIWGVLKKK  2700
2701  QSPQQSGEESVNLVAQRALLLVQNKLDGREAGTMGDSNVEAQVERLINEA  2750
2751  TLPSNLCMLFPGWDPHL                                   2767

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.)

Go back to the NucPred Home Page.