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

NucPred

Fetching Q6ZS30 from www.uniprot.org...

The NucPred score for your sequence is 0.91 (see score help below)

   1  MASRERLFELWMLYCTKKDPDYLKLWLDTFVSSYEQFLDVDFEKLPTRVD    50
  51  DMPPGISLLPDNILQVLRIQLLQCVQKMADGLEEQQQALSILLVKFFIIL   100
 101  CRNLSNVEEIGTCSYINYVITMTTLYIQQLKSKKKEKEMADQTCIEEFVI   150
 151  HALAFCESLYDPYRNWRHRISGRILSTVEKSRQKYKPASLTVEFVPFFYQ   200
 201  CFQESEHLKESLKCCLLHLFGAIVAGGQRNALQAISPATMEVLMRVLADC   250
 251  DSWEDGDPEEVGRKAELTLKCLTEVVHILLSSNSDQRQVETSTILENYFK   300
 301  LLNSDHSALPNQRRSRQWENRFIALQIKMLNTITAMLDCTDRPVLQAIFL   350
 351  NSNCFEHLIRLLQNCKVFQGQLDCLAISTIQALTAVMNKSPAAKEVFKER   400
 401  IGYTHMLEVLKSLGQPPLELLKELMNMAVEGDHTSVGILGISNVQPLLLL   450
 451  IQWLPELQSHDLQIFISDWLKRICCINRQSRTTCVNANMGIRIIETLDLH   500
 501  SSLHQTCAENLIAIHGSLGSQSVSSEEIRRLLRLLRVDESESVHPYVTPV   550
 551  TRAILTMARKLSLESALQYFNLSHSMAGISVPPIQKWPGSAFSFSAWFCL   600
 601  DQDQLTLGIANKGGKRKQLYSFFTGSGMGFEAFITHSGMLVVAVCTKREY   650
 651  ATVMLPDHSFCDSLWHNITVVHMPGKRPFGQSFVYIYDNGQQKVSAPLRF   700
 701  PAMNEPFTSCCIGSAGQRTTTPPPSQIPDPPFSSPITPHRTSFGGILSSA   750
 751  SWGGTIEKSKLITKLISAGTQDSEWGCPTSLEGQLGSVIIFYEPLQPPQV   800
 801  KALYLAGPNCLSPWKCQESDMADLPGNILLYYTAKACKNSICLDLSTNCL   850
 851  HGRLTGNKVVNWDIKDIINCIGGLNVLFPLLEQISHFSEGQIPEEKNEST   900
 901  VPESVTPVEGDWLVWTSTKASESRLERNLVATFILIVKHFIQRHPINQGN   950
 951  LIHSHGVATLGALLQKVPSTLMDVNVLMAVQLLIEQVSLEKNMQLLQQMY  1000
1001  QYLLFDFRIWNRGDFPFRIGHIQYLSTIIKDSRRVFRKKYGVQFLLDTLR  1050
1051  IYYGNGCKYNELSLDDIRTIRTSLYGLIKYFLCKGGSHEEIQSIMGYIAA  1100
1101  TNEEEQLFGILDVLFSLLRTSPTRGQLFLLLFEPGNADILYALLLNQKYS  1150
1151  DRLREIIFKIMEQMLKCTNVYERSKQHIRLREVGYSGLGLLLNEALVNTS  1200
1201  LIKNLTHQIINTDPVINFKDLLSVVYISHRAHINVRVAICRKVLQILQFQ  1250
1251  PDAAHQISQQVGWQDTLVRLFLKAKFENGNTLHKHSRAVLMKDNDKNMST  1300
1301  EDTKKNSDEKTDEEKITSFASANVSSDQWSLEDRHSLDSNTPLFPEDSSV  1350
1351  GELSFKSENQEEFWHSNPSHLSLDLSGIDSCEMSDSGSQVPDSLPSTPSP  1400
1401  VESTKSFSVHSDRESSITNDMGFSDDFSLLESQERCEEELLQLLTHILNY  1450
1451  VMCKGLEKSDDDTWIERGQVFSALSKPGISSELLRPSDEIKLTLLQKMLE  1500
1501  WAISENREAKTNPVTAENAFRLVLIIQDFLQSEGLVNSNMWTEKLLEDMM  1550
1551  LLFDCLSVCYSESPVWVKLSQIQIQLLLGFIGRGNLQVCAMASAKLNTLL  1600
1601  QTKVIENQDEACYILGKLEHVLSQSIKEQTEIYSFLIPLVRTLVSKIYEL  1650
1651  LFMNLHLPSLPFTNGSSSFFEDFQEYCNSNEWQVYIEKYIVPYMKQYEAH  1700
1701  TFYDGHENMALYWKDCYEALMVNMHKRDREGGESKLKFQELFVEPFNRKA  1750
1751  RQENLRYNNMLKQLSSQQLATLRRWKAIQLYLTCERGPWAKRKQNPIHWK  1800
1801  LANVENYSRMRLKLVPNYNFKTHEEASALRDNLGIQHSQPSSDTLLLEVV  1850
1851  KQVKVSDMVEDKLDLPEEDITARVNVDEKEEQDQKEKLVLMEDCELITII  1900
1901  DVIPGRLEITTQHIYFYDGSIEKEDGVGFDFKWPHSQIREIHLRRYNLRR  1950
1951  SALEIFHVDQSNYFLNFKKEVRNKIYSRLLSLHSPNSYYGSRSPQELFKA  2000
2001  SGLTQKWVNREISNFDYLIQINTMAGRTYNDLAQYPVFPWILQDYTSEEL  2050
2051  DLNNPAVFRDLSKPIGVVNEKNAKAMREKYENFEDPMGTIDKFHYGTHYS  2100
2101  NSAGVMHYLIRVEPFTTLHIQLQSGRFDCADRQFHSIPATWQALMDNPYD  2150
2151  VKELIPEFFYFPEFLENQNQFNLGRLQISKELVNDVILPKWAKSAEDFIY  2200
2201  KHRKALESEYVSAHLHEWIDLIFGYKQRGPAAVEALNVFYYCSYEGAVDL  2250
2251  DALTDEKERKALEGMINNFGQTPCQLLKEPHPPRLSAEEAVQKPTKIDTS  2300
2301  TLNLFQHLPELKSFFIEGISDGIPLLKATIPKNQYRSFMSQGSPELLITI  2350
2351  SMNYVIGTHGWLPYDRNISNYFTFIKDQTVTNPKTQRSINGSFAPGLEIT  2400
2401  SKLFVVSHDAKLLFSAGYWDNSIQVMSLTKGKIISHIIRHMDIVTCLATD  2450
2451  YCGIHLISGSRDTTCMIWQITQQGGVPVGLASKPFQILYGHTNEVLSVGI  2500
2501  STELDMAVSGSRDGTVIIHTIQKGQYMRTLRPPCESSLFLTIPNLAISWE  2550
2551  GHIVVYSSTEEKTTLKDKNALHLFSINGKYLGSQILKEQVSDICIIGEHI  2600
2601  VTGSIQGFLSIRDLHSLNLSINPLAMRLPIHCVCVTKEYSHILVGLEDGK  2650
2651  LIVVGVGKPAEMRSGQLSRKFWGSSKRLSQISAGETEYNTQDSK        2694

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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