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

NucPred

Fetching O93845 from www.uniprot.org...

The NucPred score for your sequence is 0.95 (see score help below)

   1  MPSRKPSKYGNKFRSGAASFNPKRTKTVEFSSLRSSEATSQDEKFEAIRL    50
  51  ANSIDESLGFPRFEAGEKRVGWLINMHSTSIEDPNVPGGRAGVDYYFLDD   100
 101  DGGSFKATVEYDPYFLIAVKTGHEAEVEEWCRRMFEGLIKKIKRVVKEDL   150
 151  KLPNHLLGHRRTFLQLDFANVSHLLEVRKTLLPLAEKNRKNARPNGTTNA   200
 201  SDFIIDIREYDVPYHVRVAIDKDIRIGKWYTVEATHGIISLTCLEERLTR   250
 251  ADPVVLAFDIETTKLPLKFPDSVIDQIMMISYMIDGQGFLITNREIVSED   300
 301  IDDFEYTPKPEYSGPFMIFNEPNERAVIERFFEHIKEAKPTVIATYNGDF   350
 351  FDWPFVEARASVLGIDMYKEIGFRKNSEDIYQSDHCAHMDCFAWVNRDSY   400
 401  LPQGSRGLKAVTVAKLGYDPDELDPELMTPYASERPQTLAEYSVSDAVAT   450
 451  YYLYMKYIHPFIFSLCTILPLNPDDTLRKGTGTLCEMLLMVQAYKGNIVL   500
 501  PNKHKDPPEAFYEGHLLESETYVGGHVESIEAGVFRSDIPVPFNIDPTAV   550
 551  DELLRDLDAALKFSIEVEEKKSLDDVTNYEEVKGQIAKLLTDLRENPHRN   600
 601  EVPFIYHLDVASMYPNIMITNRLQPDSLIQESNCAACDFNRPGKTCDRRL   650
 651  PWAWRGEFLPAKRDEYNMIRQAVQNERFPGRTKKSPMRAFTELSAEEQAA   700
 701  IVKKRLQDYSKKIYHKIHDSKTMVREAIICQRENPFYVDTVRSFRDRRYD   750
 751  FKGKQKVWKGKTESLKSSGAPAAEIEEAKKMIVLYDSLQLAHKVILNSFY   800
 801  GYVMRKGSRWYSMEMAGVTCLTGARIIQMARELVERIGRPLELDTDGIWC   850
 851  MLPGTFPENFSFTLKNGKKLGISYPCVMLNHLVHGSYTNHQYQSLANPAT   900
 901  FRYETHSENSIFFEVDGPYRAMILPTSKEEDKNLKKRYAVFNDDGSLAEL   950
 951  KGFEVKRRGELKLIKIFQTQIFKFFLEGTTLAETYAAVARVADRWLDVLY  1000
1001  EHGATLADEELIELISENRSMTKTLEEYGNQKSTSITTARRLAEFLGEQM  1050
1051  VKDKGLNCKYIISARPRNTPVTERAIPVTIFSAEDSIKRHFLRKWLKDDP  1100
1101  GDMDPRSVIDWDYYLERLGSVVQKLITIPAALQKIRNPVPRVAHPEWLQR  1150
1151  RINKQDDRFKQVKMTDMFGKSEKNPLSDISTNIIDHRVQHADNLDEAMAD  1200
1201  SMEKLKSSSPQKASGKRKHPENQTKTSLDPFASLPAKMPSIDDDYVGFLK  1250
1251  YQKQKWKIQKQARLRRRQLFGERANTGGDSLSHLFRNQAELLYISTWQVL  1300
1301  QLAETSRPGIVRAFVLIDRKIHALTIKVPRCVYINLKQDSLPDVEVPECE  1350
1351  VEKVNHTLPNGHPSVHLFKLTLSEETFLREADKIHVLLQHPSVEGVYERN  1400
1401  IPLNLRAVLKLGSICTFDEAQRGVLGDGLERGFDLSTLCRTSSEQQYLQD  1450
1451  SPLAYHFLYHVSSGEKQIFAIFSSTKNEAHIVILNRARDVQGLPNVDKIY  1500
1501  SELLARKLQGQGDQAEGAFQYQEKIHFRTTQITTRRKAYLEVSDLIKKLR  1550
1551  NDESLPAIMIIQSQQRSRLCHDIPILKEYPILSVKPEVSDMNLPPLGWQS  1600
1601  FIAKRLVTHYLYLSSWVQHLTMLARYGDVPLCNLESDDPRFLIDISYARR  1650
1651  LQQNNVVLWWSSTAKPDHAGYEKDDITGPLERVGMPCVNVPGSYTTVCVE  1700
1701  LEVRNLAINTILTSSIINEAEGADSLLAPSDPSAESSGSGVLYSEKAFAS  1750
1751  AGAVVLREMVKHWWSEACQGNNMADIMVQHLIRWVESPASCLYDRSLHQY  1800
1801  VRMLSRKSFQQLMAEFRRVGSNVVFASPTRLLLQTSKTEVGNAYAYSQYV  1850
1851  LKSIRANPSFHFIDLDIKEYWDYLVWYDEYNYGGKGCQEVAETEEQPLET  1900
1901  VMHWQLSRFLPTPMQTIFHDWVVEYIELMHSFKRPESDDSSTPRLTQIPI  1950
1951  GQPEPGQENEELSAALSDRFSKPLKKQISGLIRRQREELLHPELASDYVF  2000
2001  PILPGVLTDPNEEKRNPVLELVKLLMQVLSLSKTTALETRLLRRELLALF  2050
2051  EVREFSKEGRFENPGSSLKIPELTCSACCLIRDLDLCRDEDVLPERGSGS  2100
2101  GPDSATSSRPWCCPFCQTEYDRLAQEEMLIGQVWGMVVAWQTQDLKCSKC  2150
2151  GTLKISEFMEHCSCSGQWTETMNRADIEKRLKVLESVAKFHELKLLQVVV  2200
2201  EEVLSQT                                             2207

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.