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

NucPred

Fetching Q63862 from www.uniprot.org...

The NucPred score for your sequence is 0.94 (see score help below)

   1  KKRHEMPPHIYAIADTAYRSMLQDREDQSILCTGESGAGKTENTKKVIQY    50
  51  LAVVASSHKGKKDSSITQGPSFAYGELEKQLLQANPILEAFGNAKTVKND   100
 101  NSSRFGKFIRINFDVTGYIVGANIETYLLEKSRAIRHARDERTFHIFYYL   150
 151  IAGAKEKMRNDLLLESFNSYTFLSNGFVPIPAAQDDEMFQETLEAMSIMG   200
 201  FSEEEQLAILKVVSSVLQLGNIVFKKERNTDQASMPDNTAAQKVCHLVGI   250
 251  NVTDFTRAILTPRIKVGRDVVQKAQTKEQADFAIEALAKATYERLFRWIL   300
 301  SRVNKALDKTHRQGASFLGILDIAGFEIFEVNSFEQLCINYTNEKLQQLF   350
 351  NHTMFILEQEEYQREGIEWNFIDFGLDLQPCIELIERPNNPPGVLALLDE   400
 401  ECWFPKATDKSFVEKLCSEQGNHPKFQKPKQLKDKTEFSIIHYAGKVDYN   450
 451  ASAWLTKNMDPLNDNVTSLLNASSDKFVADLWKDVDRIVGLDQMAKMTES   500
 501  SLPSASKTKKGMFRTVGQLYKEQLGKLMTTLRNTTPNFVRCIIPNHEKRS   550
 551  GKLDAFLVLEQLRCNGVLEGIRICRQGFPNRIVFQEFRQRYEILAANAIP   600
 601  KGFMDGKQACILMIKALELDPNLYRIGQSKIFFRTGVLAHLEEERDLKIT   650
 651  DVIMAFQAMCRGYLARKAFTKRQQQLTASKVIQRNCAAYLKLRNWQWWRL   700
 701  FTKVKPLDEEMEAKQNLERHVSTLNIQLSDSKKKLQDLASTIEVMEEGKK   750
 751  RLQKEMEGLGQQYEEKAAAYDKLEKTKNRLQQELDDLVVDLDNQRQLVSN   800
 801  LEKKQKKFDQLLAEEKNISSKYADERDRAEAEAREKETKALSLARALEEA   850
 851  LEAKEELERTNKMLKAEMEDLVSSKDDVGKNVHELEKSKRALETQMEEMR   900
 901  TQLEELEDELQATEDAKLRLEVNMQALKGQFERDLQARDEQNEEKRRQLQ   950
 951  RQLHEYETELEDERKQRALAAAAKKKLEGDLKDLELQADSAVKGREEAIK  1000
1001  QLRKLQAQMKDFQRELDDARASRDEIFATSKENEKKAKSLEAELMQLQED  1050
1051  LAAAERARKQADLEKEELAEELASSLSGRNTLQDEKRRLEARIAQLEEEL  1100
1101  EEEQGNMEAMSDRVRKATLQAEQLSNELVTERSAAQKNESARQQLERQNK  1150
1151  ELRSKLQEVEGAVKAKLKSTVAALEAKIVQLEEQIEQEAREKQAATKLLK  1200
1201  QKDKKLKEVLLQVEDERKMVEQYKEQAEKGNTKVKQLKRQLEEAEEESQR  1250
1251  INANRRKLQRELDEATESNEAMGREVNALKSKLRRGNEASFVPSRRAGGR  1300
1301  RVIENTDGSEEEMDARDSDFNGTKASE                         1327

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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