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I-TASSER results for job id Rv3739c

[Click on result.tar.bz2 to download the tarball file including all modelling results listed on this page]

 Input Sequence in FASTA format
 Predicted Secondary Structure
 Predicted Solvent Accessibility
 Predicted Normalized B-facotr
 Top 10 threading templates used by I-TASSER
 Top 5 final models predicted by I-TASSER

(For each target, I-TASSER simulations generate a large ensemble of structural conformations, called decoys. To select the final models, I-TASSER uses the SPICKER program to cluster all the decoys based on the pair-wise structure similarity, and reports up to five models which corresponds to the five largest structure clusters. The confidence of each model is quantitatively measured by C-score that is calculated based on the significance of threading template alignments and the convergence parameters of the structure assembly simulations. C-score is typically in the range of [-5, 2], where a C-score of higher value signifies a model with a high confidence and vice-versa. TM-score and RMSD are estimated based on C-score and protein length following the correlation observed between these qualities. Since the top 5 models are ranked by the cluster size, it is possible that the lower-rank models have a higher C-score in rare cases. Although the first model has a better quality in most cases, it is also possible that the lower-rank models have a better quality than the higher-rank models as seen in our benchmark tests. If the I-TASSER simulations converge, it is possible to have less than 5 clusters generated. This is usually an indication that the models have a good quality because of the converged simulations.)
 Proteins structureally close to the target in PDB (as identified by TM-align

(After the structure assembly simulation, I-TASSER uses the TM-align structural alignment program to match the first I-TASSER model to all structures in the PDB library. This section reports the top 10 proteins from the PDB that have the closest structural similarity, i.e. the highest TM-score, to the predicted I-TASSER model. Due to the structural similarity, these proteins often have similar function to the target. However, users are encouraged to use the data in the next section 'Predicted function using COACH' to infer the function of the target protein, since COACH has been extensively trained to derive biological functions from multi-source of sequence and structure features which has on average a higher accuracy than the function annotations derived only from the global structure comparison.)
 Predicted function using COACH

(This section reports biological annotations of the target protein by COACH based on the I-TASSER structure prediction. COACH is a meta-server approach that combines multiple function annotation results from the COFACTOR, TM-SITE and S-SITE programs.)
  Ligand binding sites

Rank C-score Cluster
size		 PDB
Hit		 Lig
Name		 Download
Complex		 Ligand Binding Site Residues
10.18 42 4rkuB CLA Rep, Mult 30,33,34,37,41
20.09 23 1ybkC BEQ Rep, Mult 36,39,40,43,44
30.08 22 1nwqA NUC Rep, Mult 22,26,27,29,30,31,33
40.06 17 5d56C 78M Rep, Mult 44,45,48,49,52
50.05 15 1nkzB BCL Rep, Mult 33,34,37,38,41,44,48
60.04 11 2dyrB TGL Rep, Mult 48,51,52,55,56
70.03 8 1dh3C NUC Rep, Mult 22,23,26,27,30
80.03 9 3ze3C 78N Rep, Mult 45,49,52,53
90.01 2 5jqhB CLR Rep, Mult 52,76,77
100.00 1 1icrA NIO Rep, Mult 61,62
110.00 1 1mfuA UUU Rep, Mult 12,34
120.00 1 1xqwA III Rep, Mult 66,69,73
130.00 1 3io6A CA Rep, Mult 12,15
140.00 1 3ar3A PTY Rep, Mult 49,52,56,61,70

Download the all possible binding ligands and detailed prediction summary.
Download the templates clustering results.
(a)C-score is the confidence score of the prediction. C-score ranges [0-1], where a higher score indicates a more reliable prediction.
(b)Cluster size is the total number of templates in a cluster.
(c)Lig Name is name of possible binding ligand. Click the name to view its information in the BioLiP database.
(d)Rep is a single complex structure with the most representative ligand in the cluster, i.e., the one listed in the Lig Name column.
Mult is the complex structures with all potential binding ligands in the cluster.

  Enzyme Commission (EC) numbers and active sites

RankCscoreECPDB
Hit		TM-scoreRMSDaIDENaCovEC NumberActive Site Residues
10.1533e7kH0.5162.610.0370.6752.7.11.1NA
20.1511wt6B0.5192.270.0970.6492.7.11.154
30.1191qleD0.4521.810.1190.5191.9.3.129
40.0601k7wD0.6282.520.0680.8314.3.2.1NA
50.0601pg0A0.5253.830.1520.8186.1.1.10NA
60.0602veaA0.5783.090.1510.9092.7.13.3NA
70.0601w07B0.5743.170.0990.8441.3.3.6NA
80.0601pfuA0.5024.010.0710.8446.1.1.10NA
90.0601ygeA0.5952.180.0260.7921.13.11.12NA
100.0602wl2B0.5863.410.1200.9225.99.1.3NA
110.0603ilwA0.5882.730.0650.7925.99.1.3NA
120.0603kvnX0.5943.310.0910.9483.1.1.124
130.0603fofA0.5303.720.0410.8705.99.1.-NA
140.0603bnjA0.5692.980.0270.7921.7.2.2NA
150.0602fonB0.5792.860.1410.8441.3.3.651
160.0601i0aA0.6142.730.0810.8574.3.2.1NA
170.0601eulA0.5473.800.0280.9353.6.3.8NA
180.0603kb9A0.5731.550.0270.6884.2.3.37NA
190.0601clqA0.5122.740.0650.6752.7.7.748
200.0603a68R0.5803.230.0560.8051.16.3.151
210.0601k62B0.6262.840.0410.8574.3.2.1NA
220.0602e9fB0.6032.160.0810.7404.3.2.1NA

(a)CscoreEC is the confidence score for the EC number prediction. CscoreEC values range in between [0-1];
where a higher score indicates a more reliable EC number prediction.
(b)TM-score is a measure of global structural similarity between query and template protein.
(c)RMSDa is the RMSD between residues that are structurally aligned by TM-align.
(d)IDENa is the percentage sequence identity in the structurally aligned region.
(e)Cov represents the coverage of global structural alignment and is equal to the number of structurally aligned residues divided
by length of the query protein.

  Gene Ontology (GO) terms

Homologous GO templates in PDB 
RankCscoreGOTM-scoreRMSDaIDENaCovPDB HitAssociated GO Terms
00.180.8221.280.360.954kxrB GO:0005576 GO:0009405 GO:0009986
10.160.5132.670.060.682x7rC GO:0002223 GO:0005198 GO:0016020 GO:0016021 GO:0016032 GO:0019012 GO:0019031 GO:0019062 GO:0019064 GO:0019082 GO:0020002 GO:0030683 GO:0033644 GO:0039654 GO:0039663 GO:0044174 GO:0044175 GO:0046718 GO:0055036 GO:0075509 GO:0075512
20.120.5801.790.090.743wfvA GO:0005198 GO:0016020 GO:0016021 GO:0016032 GO:0019012 GO:0019031 GO:0019062 GO:0020002 GO:0033644 GO:0039663 GO:0044174 GO:0044175 GO:0046718 GO:0055036
30.110.6932.630.140.971y1uA GO:0000255 GO:0000979 GO:0001553 GO:0001779 GO:0001938 GO:0003677 GO:0003700 GO:0004871 GO:0005634 GO:0005654 GO:0005737 GO:0005829 GO:0006101 GO:0006103 GO:0006105 GO:0006107 GO:0006351 GO:0006355 GO:0006357 GO:0006549 GO:0006573 GO:0006600 GO:0006631 GO:0007165 GO:0007259 GO:0007565 GO:0007595 GO:0008284 GO:0018108 GO:0019218 GO:0019221 GO:0019530 GO:0019903 GO:0019915 GO:0030155 GO:0030856 GO:0030879 GO:0032825 GO:0033026 GO:0033077 GO:0038161 GO:0040014 GO:0040018 GO:0042104 GO:0043029 GO:0043066 GO:0043434 GO:0043536 GO:0045086 GO:0045579 GO:0045588 GO:0045621 GO:0045647 GO:0045931 GO:0045944 GO:0045954 GO:0046449 GO:0046543 GO:0046544 GO:0048541 GO:0050729 GO:0060376 GO:0060397 GO:0060740 GO:0060742 GO:0061180 GO:0070668 GO:0071345 GO:0071407 GO:0097011
40.090.6292.530.070.881y2oA GO:0001726 GO:0005737 GO:0005829 GO:0005856 GO:0005886 GO:0005913 GO:0007009 GO:0007409 GO:0008022 GO:0008093 GO:0008286 GO:0008360 GO:0009617 GO:0014069 GO:0015629 GO:0016020 GO:0016358 GO:0030141 GO:0030165 GO:0030175 GO:0030838 GO:0032956 GO:0038096 GO:0042802 GO:0042995 GO:0043005 GO:0043025 GO:0043197 GO:0048010 GO:0048167 GO:0051017 GO:0051764 GO:0061003 GO:0070062 GO:0070064 GO:0097481 GO:0098609 GO:0098641 GO:2000251
50.080.6941.950.090.883ok8A GO:0005543 GO:0005829 GO:0005886 GO:0007009 GO:0008093 GO:0008286 GO:0008289 GO:0012506 GO:0015629 GO:0016020 GO:0030054 GO:0030659 GO:0030838 GO:0031410 GO:0044291 GO:0051017 GO:0051764 GO:0061024 GO:0071439 GO:2000251
60.070.5712.910.040.862y3aB GO:0001678 GO:0005634 GO:0005925 GO:0005942 GO:0006810 GO:0007165 GO:0008134 GO:0008286 GO:0010506 GO:0014065 GO:0015031 GO:0016303 GO:0019903 GO:0030833 GO:0030971 GO:0032869 GO:0034976 GO:0036092 GO:0036312 GO:0042325 GO:0042993 GO:0043551 GO:0045785 GO:0045944 GO:0046935 GO:0046982 GO:0051492 GO:0090003
70.070.6582.720.110.923cwgB GO:0000790 GO:0000978 GO:0000981 GO:0001077 GO:0001103 GO:0001228 GO:0001659 GO:0001754 GO:0003677 GO:0003700 GO:0004871 GO:0004879 GO:0005634 GO:0005654 GO:0005737 GO:0005739 GO:0005743 GO:0005829 GO:0005886 GO:0006351 GO:0006355 GO:0006366 GO:0006606 GO:0006953 GO:0007165 GO:0007259 GO:0007568 GO:0008134 GO:0008283 GO:0008285 GO:0010033 GO:0010628 GO:0010730 GO:0014070 GO:0016310 GO:0019221 GO:0019827 GO:0019901 GO:0019903 GO:0019953 GO:0030522 GO:0031490 GO:0031730 GO:0032355 GO:0032870 GO:0033210 GO:0034097 GO:0035259 GO:0035278 GO:0040014 GO:0042493 GO:0042517 GO:0042593 GO:0042755 GO:0042802 GO:0043066 GO:0043434 GO:0043565 GO:0044212 GO:0044320 GO:0044321 GO:0045471 GO:0045747 GO:0045820 GO:0045893 GO:0045944 GO:0046902 GO:0046983 GO:0048708 GO:0051726 GO:0060019 GO:0060259 GO:0060396 GO:0060397 GO:0060548 GO:0070102 GO:0071345 GO:0071407 GO:0090575 GO:0097009 GO:1901215 GO:1902728 GO:1902895 GO:1904685 GO:2000637 GO:2000737 GO:2001171 GO:2001223
80.070.6132.600.120.814e68A GO:0000790 GO:0000978 GO:0000981 GO:0001077 GO:0001103 GO:0001228 GO:0001659 GO:0001754 GO:0003677 GO:0003700 GO:0004871 GO:0004879 GO:0005634 GO:0005654 GO:0005737 GO:0005739 GO:0005743 GO:0005829 GO:0005886 GO:0006351 GO:0006355 GO:0006366 GO:0006606 GO:0006953 GO:0007165 GO:0007259 GO:0007568 GO:0008134 GO:0008283 GO:0008285 GO:0010033 GO:0010628 GO:0010730 GO:0014070 GO:0016310 GO:0019221 GO:0019827 GO:0019901 GO:0019903 GO:0019953 GO:0030522 GO:0031490 GO:0031730 GO:0032355 GO:0032870 GO:0033210 GO:0034097 GO:0035259 GO:0035278 GO:0040014 GO:0042493 GO:0042517 GO:0042593 GO:0042755 GO:0042802 GO:0043066 GO:0043434 GO:0043565 GO:0044212 GO:0044320 GO:0044321 GO:0045471 GO:0045747 GO:0045820 GO:0045893 GO:0045944 GO:0046902 GO:0046983 GO:0048708 GO:0051726 GO:0060019 GO:0060259 GO:0060396 GO:0060397 GO:0060548 GO:0070102 GO:0071345 GO:0071407 GO:0090575 GO:0097009 GO:1901215 GO:1902728 GO:1902895 GO:1904685 GO:2000637 GO:2000737 GO:2001171 GO:2001223
90.070.5873.090.030.871yvlB GO:0000122 GO:0000790 GO:0000978 GO:0000979 GO:0000983 GO:0001937 GO:0002053 GO:0003340 GO:0003677 GO:0003690 GO:0003700 GO:0004871 GO:0005164 GO:0005634 GO:0005654 GO:0005730 GO:0005737 GO:0005829 GO:0005913 GO:0006351 GO:0006355 GO:0006357 GO:0006915 GO:0007165 GO:0007259 GO:0008015 GO:0016032 GO:0016525 GO:0019899 GO:0030424 GO:0030425 GO:0033209 GO:0034097 GO:0035456 GO:0035458 GO:0042802 GO:0042803 GO:0042981 GO:0043124 GO:0043434 GO:0043542 GO:0045893 GO:0045944 GO:0046725 GO:0048471 GO:0048661 GO:0051591 GO:0051607 GO:0060333 GO:0060334 GO:0060337 GO:0060338 GO:0061326 GO:0071345 GO:0071407 GO:0072136 GO:0072162 GO:0072308 GO:0098609 GO:0098641
100.070.5813.200.000.824pxzA GO:0001609 GO:0001621 GO:0001973 GO:0004871 GO:0004930 GO:0005085 GO:0005506 GO:0005622 GO:0005739 GO:0005886 GO:0005887 GO:0005901 GO:0006930 GO:0007165 GO:0007186 GO:0007188 GO:0007193 GO:0007596 GO:0007599 GO:0008347 GO:0009055 GO:0009897 GO:0009925 GO:0009986 GO:0010700 GO:0016020 GO:0016021 GO:0020037 GO:0022900 GO:0030030 GO:0030168 GO:0031224 GO:0035589 GO:0042597 GO:0043270 GO:0043491 GO:0043547 GO:0045028 GO:0045596 GO:0046872 GO:0051924 GO:0055114 GO:0070527 GO:0070588 GO:0071318 GO:0071407 GO:0071805 GO:1904139
110.070.7002.370.080.974l6rA GO:0004871 GO:0004888 GO:0004930 GO:0004967 GO:0005085 GO:0005506 GO:0005768 GO:0005886 GO:0005887 GO:0006091 GO:0006887 GO:0007165 GO:0007166 GO:0007186 GO:0007188 GO:0007189 GO:0007584 GO:0008217 GO:0009055 GO:0009755 GO:0016020 GO:0016021 GO:0017046 GO:0020037 GO:0022900 GO:0042593 GO:0042594 GO:0042597 GO:0043547 GO:0046872 GO:0055114 GO:0070873 GO:0071377
120.070.6952.770.100.921fewA GO:0005737 GO:0005739 GO:0005758 GO:0005829 GO:0006915 GO:0006919 GO:0008625 GO:0008631 GO:0008635 GO:0009898 GO:0035631 GO:0043065 GO:0051402 GO:0097193
130.070.6313.020.080.964iarA GO:0002031 GO:0004871 GO:0004930 GO:0004993 GO:0005506 GO:0005737 GO:0005886 GO:0005887 GO:0007165 GO:0007186 GO:0007187 GO:0007198 GO:0007205 GO:0007268 GO:0007610 GO:0007631 GO:0008144 GO:0009055 GO:0014059 GO:0014063 GO:0016020 GO:0016021 GO:0020037 GO:0022900 GO:0030818 GO:0032229 GO:0035690 GO:0042220 GO:0042310 GO:0042493 GO:0042597 GO:0042756 GO:0045471 GO:0046849 GO:0046872 GO:0050795 GO:0051378 GO:0051385 GO:0051967 GO:0055114 GO:0071312 GO:0071502
140.070.6443.090.040.964eiyA GO:0001609 GO:0001973 GO:0004871 GO:0004930 GO:0005506 GO:0005886 GO:0005887 GO:0006171 GO:0006909 GO:0006915 GO:0006954 GO:0006968 GO:0007165 GO:0007186 GO:0007188 GO:0007267 GO:0007417 GO:0007596 GO:0007600 GO:0008015 GO:0009055 GO:0010579 GO:0016020 GO:0016021 GO:0019899 GO:0020037 GO:0022900 GO:0042597 GO:0042802 GO:0044267 GO:0046872 GO:0055114
150.070.5903.090.040.954ntjA GO:0001609 GO:0001621 GO:0001973 GO:0004871 GO:0004930 GO:0005085 GO:0005506 GO:0005622 GO:0005739 GO:0005886 GO:0005887 GO:0005901 GO:0006930 GO:0007165 GO:0007186 GO:0007188 GO:0007193 GO:0007596 GO:0007599 GO:0008347 GO:0009055 GO:0009897 GO:0009925 GO:0009986 GO:0010700 GO:0016020 GO:0016021 GO:0020037 GO:0022900 GO:0030030 GO:0030168 GO:0031224 GO:0035589 GO:0042597 GO:0043270 GO:0043491 GO:0043547 GO:0045028 GO:0045596 GO:0046872 GO:0051924 GO:0055114 GO:0070527 GO:0070588 GO:0071318 GO:0071407 GO:0071805 GO:1904139
160.070.5023.120.050.664y5wA GO:0000122 GO:0000790 GO:0000979 GO:0002296 GO:0002829 GO:0003677 GO:0003700 GO:0004871 GO:0005634 GO:0005654 GO:0005737 GO:0005829 GO:0006351 GO:0006355 GO:0006357 GO:0007165 GO:0019221 GO:0019903 GO:0032481 GO:0033598 GO:0034097 GO:0035771 GO:0042127 GO:0042802 GO:0043565 GO:0045121 GO:0045944 GO:0048295 GO:0060443 GO:0070301 GO:1902170
170.070.4783.080.030.664y5uA GO:0000122 GO:0000790 GO:0000979 GO:0002296 GO:0002829 GO:0003677 GO:0003700 GO:0004871 GO:0005634 GO:0005654 GO:0005737 GO:0005829 GO:0006351 GO:0006355 GO:0006357 GO:0007165 GO:0019221 GO:0019903 GO:0032481 GO:0033598 GO:0034097 GO:0035771 GO:0042127 GO:0042802 GO:0043565 GO:0045121 GO:0045944 GO:0048295 GO:0060443 GO:0070301 GO:1902170
180.070.5602.870.050.774k5yC GO:0003796 GO:0003824 GO:0004871 GO:0004888 GO:0004930 GO:0005768 GO:0005886 GO:0005887 GO:0006955 GO:0007165 GO:0007166 GO:0007186 GO:0007190 GO:0007565 GO:0007567 GO:0008152 GO:0009253 GO:0010578 GO:0010579 GO:0015056 GO:0016020 GO:0016021 GO:0016787 GO:0016798 GO:0016998 GO:0019076 GO:0019835 GO:0030430 GO:0031226 GO:0042742 GO:0051458 GO:0071376 GO:1901386 GO:2000852
190.070.6673.010.080.954qimA GO:0000122 GO:0001503 GO:0001570 GO:0001649 GO:0001701 GO:0001708 GO:0001755 GO:0001947 GO:0002052 GO:0002053 GO:0003007 GO:0003140 GO:0003323 GO:0004871 GO:0004888 GO:0004930 GO:0005113 GO:0005506 GO:0005737 GO:0005794 GO:0005886 GO:0005901 GO:0005929 GO:0007165 GO:0007166 GO:0007186 GO:0007224 GO:0007228 GO:0007275 GO:0007368 GO:0007371 GO:0007389 GO:0007417 GO:0007494 GO:0008144 GO:0008284 GO:0009055 GO:0009952 GO:0009953 GO:0010468 GO:0010628 GO:0010629 GO:0016020 GO:0016021 GO:0017147 GO:0020037 GO:0021542 GO:0021696 GO:0021794 GO:0021904 GO:0021910 GO:0021938 GO:0021953 GO:0021987 GO:0022900 GO:0030666 GO:0030857 GO:0031069 GO:0034504 GO:0035264 GO:0035567 GO:0040018 GO:0042307 GO:0042475 GO:0042597 GO:0042813 GO:0042995 GO:0043066 GO:0043231 GO:0043392 GO:0045880 GO:0045892 GO:0045893 GO:0045944 GO:0046622 GO:0046872 GO:0048143 GO:0048468 GO:0048565 GO:0048568 GO:0048589 GO:0048741 GO:0048853 GO:0048873 GO:0050679 GO:0050821 GO:0051451 GO:0051799 GO:0055114 GO:0060070 GO:0060170 GO:0060248 GO:0060413 GO:0060644 GO:0060684 GO:0061053 GO:0061113 GO:0070062 GO:0070986 GO:0071397 GO:0072001 GO:0072285 GO:0072372 GO:0090190 GO:0097542 GO:2000036 GO:2000826
200.070.6912.440.080.994ib4A GO:0001755 GO:0001819 GO:0001938 GO:0001965 GO:0002031 GO:0003007 GO:0003300 GO:0004871 GO:0004930 GO:0004993 GO:0005096 GO:0005506 GO:0005737 GO:0005886 GO:0005887 GO:0006182 GO:0006874 GO:0006939 GO:0007165 GO:0007186 GO:0007202 GO:0007205 GO:0007210 GO:0007507 GO:0007610 GO:0008144 GO:0008284 GO:0009055 GO:0010507 GO:0010513 GO:0014033 GO:0014065 GO:0014827 GO:0016020 GO:0016021 GO:0016310 GO:0019722 GO:0020037 GO:0022900 GO:0030054 GO:0030425 GO:0034220 GO:0035733 GO:0042310 GO:0042493 GO:0042597 GO:0043005 GO:0043025 GO:0043066 GO:0043123 GO:0043406 GO:0043547 GO:0043647 GO:0045202 GO:0046872 GO:0048598 GO:0050715 GO:0050795 GO:0051000 GO:0051209 GO:0051378 GO:0051781 GO:0055114 GO:0060548 GO:0070371 GO:0070374 GO:0070528 GO:0071418 GO:0071502 GO:1904015


Consensus prediction of GO terms		 
Molecular Function GO:0005198 GO:0019903 GO:0004871 GO:0003700 GO:0000979 GO:0070064 GO:0008022 GO:0008093 GO:0098641 GO:0042802 GO:0030165
GO-Score 0.27 0.11 0.11 0.11 0.11 0.09 0.09 0.09 0.09 0.09 0.09
Biological Processes GO:0044800 GO:0044650 GO:0002220 GO:0019065 GO:0050687 GO:0072583 GO:0019080 GO:0016485 GO:0050690 GO:0019049 GO:0020012
GO-Score 0.53 0.53 0.32 0.32 0.32 0.32 0.32 0.32 0.32 0.32 0.32
Cellular Component GO:0036338 GO:0033644 GO:0033655 GO:0033648 GO:0031224 GO:0044444 GO:0097458 GO:0099572 GO:0060076
GO-Score 0.53 0.53 0.53 0.53 0.42 0.37 0.33 0.33 0.33

(a)CscoreGO is a combined measure for evaluating global and local similarity between query and template protein. It's range is [0-1] and higher values indicate more confident predictions.
(b)TM-score is a measure of global structural similarity between query and template protein.
(c)RMSDa is the RMSD between residues that are structurally aligned by TM-align.
(d)IDENa is the percentage sequence identity in the structurally aligned region.
(e)Cov represents the coverage of global structural alignment and is equal to the number of structurally aligned residues divided by length of the query protein.
(f)The second table shows a consensus GO terms amongst the top scoring templates. The GO-Score associated with each prediction is defined as the average weight of the GO term, where the weights are assigned based on CscoreGO of the template.

[Click on result.tar.bz2 to download the tarball file including all modelling results listed on this page]


Please cite the following articles when you use the I-TASSER server:
1. J Yang, R Yan, A Roy, D Xu, J Poisson, Y Zhang. The I-TASSER Suite: Protein structure and function prediction. Nature Methods, 12: 7-8, 2015.
2. J Yang, Y Zhang. I-TASSER server: new development for protein structure and function predictions, Nucleic Acids Research, 43: W174-W181, 2015.
3.A Roy, A Kucukural, Y Zhang. I-TASSER: a unified platform for automated protein structure and function prediction. Nature Protocols, 5: 725-738, 2010.
4.Y Zhang. I-TASSER server for protein 3D structure prediction. BMC Bioinformatics, 9: 40, 2008.