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

NucPred

Fetching P35580 from www.uniprot.org...

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

   1  MAQRTGLEDPERYLFVDRAVIYNPATQADWTAKKLVWIPSERHGFEAASI    50
  51  KEERGDEVMVELAENGKKAMVNKDDIQKMNPPKFSKVEDMAELTCLNEAS   100
 101  VLHNLKDRYYSGLIYTYSGLFCVVINPYKNLPIYSENIIEMYRGKKRHEM   150
 151  PPHIYAISESAYRCMLQDREDQSILCTGESGAGKTENTKKVIQYLAHVAS   200
 201  SHKGRKDHNIPGELERQLLQANPILESFGNAKTVKNDNSSRFGKFIRINF   250
 251  DVTGYIVGANIETYLLEKSRAVRQAKDERTFHIFYQLLSGAGEHLKSDLL   300
 301  LEGFNNYRFLSNGYIPIPGQQDKDNFQETMEAMHIMGFSHEEILSMLKVV   350
 351  SSVLQFGNISFKKERNTDQASMPENTVAQKLCHLLGMNVMEFTRAILTPR   400
 401  IKVGRDYVQKAQTKEQADFAVEALAKATYERLFRWLVHRINKALDRTKRQ   450
 451  GASFIGILDIAGFEIFELNSFEQLCINYTNEKLQQLFNHTMFILEQEEYQ   500
 501  REGIEWNFIDFGLDLQPCIDLIERPANPPGVLALLDEECWFPKATDKTFV   550
 551  EKLVQEQGSHSKFQKPRQLKDKADFCIIHYAGKVDYKADEWLMKNMDPLN   600
 601  DNVATLLHQSSDRFVAELWKDVDRIVGLDQVTGMTETAFGSAYKTKKGMF   650
 651  RTVGQLYKESLTKLMATLRNTNPNFVRCIIPNHEKRAGKLDPHLVLDQLR   700
 701  CNGVLEGIRICRQGFPNRIVFQEFRQRYEILTPNAIPKGFMDGKQACERM   750
 751  IRALELDPNLYRIGQSKIFFRAGVLAHLEEERDLKITDIIIFFQAVCRGY   800
 801  LARKAFAKKQQQLSALKVLQRNCAAYLKLRHWQWWRVFTKVKPLLQVTRQ   850
 851  EEELQAKDEELLKVKEKQTKVEGELEEMERKHQQLLEEKNILAEQLQAET   900
 901  ELFAEAEEMRARLAAKKQELEEILHDLESRVEEEEERNQILQNEKKKMQA   950
 951  HIQDLEEQLDEEEGARQKLQLEKVTAEAKIKKMEEEILLLEDQNSKFIKE  1000
1001  KKLMEDRIAECSSQLAEEEEKAKNLAKIRNKQEVMISDLEERLKKEEKTR  1050
1051  QELEKAKRKLDGETTDLQDQIAELQAQIDELKLQLAKKEEELQGALARGD  1100
1101  DETLHKNNALKVVRELQAQIAELQEDFESEKASRNKAEKQKRDLSEELEA  1150
1151  LKTELEDTLDTTAAQQELRTKREQEVAELKKALEEETKNHEAQIQDMRQR  1200
1201  HATALEELSEQLEQAKRFKANLEKNKQGLETDNKELACEVKVLQQVKAES  1250
1251  EHKRKKLDAQVQELHAKVSEGDRLRVELAEKASKLQNELDNVSTLLEEAE  1300
1301  KKGIKFAKDAASLESQLQDTQELLQEETRQKLNLSSRIRQLEEEKNSLQE  1350
1351  QQEEEEEARKNLEKQVLALQSQLADTKKKVDDDLGTIESLEEAKKKLLKD  1400
1401  AEALSQRLEEKALAYDKLEKTKNRLQQELDDLTVDLDHQRQVASNLEKKQ  1450
1451  KKFDQLLAEEKSISARYAEERDRAEAEAREKETKALSLARALEEALEAKE  1500
1501  EFERQNKQLRADMEDLMSSKDDVGKNVHELEKSKRALEQQVEEMRTQLEE  1550
1551  LEDELQATEDAKLRLEVNMQAMKAQFERDLQTRDEQNEEKKRLLIKQVRE  1600
1601  LEAELEDERKQRALAVASKKKMEIDLKDLEAQIEAANKARDEVIKQLRKL  1650
1651  QAQMKDYQRELEEARASRDEIFAQSKESEKKLKSLEAEILQLQEELASSE  1700
1701  RARRHAEQERDELADEITNSASGKSALLDEKRRLEARIAQLEEELEEEQS  1750
1751  NMELLNDRFRKTTLQVDTLNAELAAERSAAQKSDNARQQLERQNKELKAK  1800
1801  LQELEGAVKSKFKATISALEAKIGQLEEQLEQEAKERAAANKLVRRTEKK  1850
1851  LKEIFMQVEDERRHADQYKEQMEKANARMKQLKRQLEEAEEEATRANASR  1900
1901  RKLQRELDDATEANEGLSREVSTLKNRLRRGGPISFSSSRSGRRQLHLEG  1950
1951  ASLELSDDDTESKTSDVNETQPPQSE                          1976

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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