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

NucPred

Fetching Q8VDR9 from www.uniprot.org...

The NucPred score for your sequence is 0.85 (see score help below)

   1  MAASERRAFAHKINRTVAAEVRKQVSRERSGSPHSSRRSSSSLGVPLTEV    50
  51  IEPLDFEDVLLSRPPEVEPGPLRDLIEFPVDDLELLKQPRECRTTESGVP   100
 101  EDGQLDAQVRAAVEMYSEDWVIVRRRYQHLSTAYSPITTETQREWQKGLT   150
 151  CQVFEQDTPGDERTGPEDVDDPQHCSGSPEDTPRSSGASGIFSLRNLAAD   200
 201  SLLPTLLEQAAPEDVDRRNEALRRQHRAPTLLTLYPAPDEDEAVERCSRP   250
 251  EPPREHFGQRILVKCLSLKFEIEIEPIFGTLALYDVREKKKISENFYFDL   300
 301  NSDSVKGLLRAHGTHPAISTLARSAIFSVTYPSPDIFLVVKLEKVLQQGD   350
 351  ISECCEPYMVMKEADTAKNKEKLEKLRLAAEQFCTRLGRYRMPFAWTAVH   400
 401  LANIVSRPQDRDSDSEGERRPTWAERRRRGPQDRGYSGDDACSFSSFRPA   450
 451  TLTVTNFFKQEAERLSDEDLFKFLADMRRPSSLLRRLRPVTAQLKLDISP   500
 501  APENLHFCLSPDLLHVKPYPDPRGRPTKEILEFPAREVYAPHSCYRNLLF   550
 551  VYPHSLNFSSRQGSVRNLAVRIQYMAGEDQSQALPVIFGKSSCSEFTREA   600
 601  FTPVVYHNKSPEFYEEFKLRLPACVTENHHLFFTFYHVSCQPRPGTALET   650
 651  PVGFTWIPLLQHGRLRTGPFCLPVSVDQPPPSYSVLTPDVALPGMRWVDG   700
 701  HKGVFSVELTAVSSVHPQDPHLDKFFTLVHVLEEGIFPFRLKETVLSEGT   750
 751  MEQELRASLAALRLASPEPLVAFSHLVLDKLVRLVVRPPIICGQMVNLGR   800
 801  GAFEAMAHVASLVHRNLEAVQDSRGHCPLLASYVHYAFRLPGGDLSLPGE   850
 851  APPATVQAATLARGSGRPASLYLARSKSISSSNPDLAVVPGSVDDEVSRI   900
 901  LASKGVDRSHSWVNSAYAPGGSKAVLRRVPPYCGADPRQLLHEELALQWV   950
 951  VSGSAVRELVLQHAWFFFQLMVKSMELHLLLGQRLDTPRKLRFPGRFLDD  1000
1001  IAALVASVGLEVITRVHKDMKLAERLNASLAFFLSDLLSIADRGYIFSLV  1050
1051  RAHYKQVATRLQSAPNPTALLTLRMDFTRILCSHEHYVTLNLPCCPLSPP  1100
1101  ASPSPSVSSTTSQSSTFSSQAPDPKVTSMFELSGPFRQQHFLSGLLLTEL  1150
1151  ALALDPEAEGASLLHKKAISAVHSLLCSHDVDSRYAEATVKAKVAELYLP  1200
1201  LLSLARDTLPQLHGFAEGSGQRSRLASMLDSDTEGEGDIGSTINPSVAMA  1250
1251  IAGGPLAPGSRTSISQGPSTAARSGCPLSAESSRTLLVCVLWVLKNAEPT  1300
1301  LLQRWAADLALPQLGRLLDLLYLCLAAFEYKGKKAFERINSLTFKKSLDM  1350
1351  KARLEEAILGTIGARQEMVRRSRERSPFGNQENVRWRKSATHWRQTSDRV  1400
1401  DKTKDEMEHEALVDGNLATEASLVVLDTLETIVQTVMLSEARESILSAVL  1450
1451  KVVLYSLGSAQSALFLQHGLATQRALVSKFPELLFEEDTELCADLCLRLL  1500
1501  RHCGSRISTIRMHASASLYLLMRQNFEIGHNFARVKMLVTMSLSSLVGTT  1550
1551  QNFSEEHLRKSLKTILTYAEEDIGLRDSTFAEQVQDLMFNLHMILTDTVK  1600
1601  MKEHQEDPEMLMDLMYRIARGYQGSPDLRLTWLQNMAGKHAELGNHAEAA  1650
1651  QCMVHAAALVAEYLALLEDSRHLPVGCVSFQNVSSNVLEESAISDDILSP  1700
1701  DEEGFCSGKNFTELGLVGLLEQAAGYFTMGGLYEAVNEVYKNLIPILEAH  1750
1751  RDYKKLAAVHGKLQEAFTKIMHQSSGWERVFGTYFRVGFYGTRFGDLDEQ  1800
1801  EFVYKEPSITKLAEISHRLEEFYTERFGDDVVEIIKDSNPVDKSKLDPQK  1850
1851  AYIQITYVEPHFDTYELKDRVTYFDRNYGLRAFLFCTPFTPDGRAHGELA  1900
1901  EQHKRKTLLSTEHAFPYIKTRIRVCHREETVLTPVEVAIEDMQKKTRELA  1950
1951  FATEQDPPDAKMLQMVLQGSVGPTVNQGPLEVAQVFLSEIPEDPKLFRHH  2000
2001  NKLRLCFKDFCKKCEDALRKNKALIGPDQKEYHRELERHYSRLREALQPL  2050
2051  LTQRLPQLLAPSSTSLRSSMNRSSFRKADL                      2080

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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