GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
CO_deh_flav_C - CO dehydrogenase flavoprotein C-terminal domain
Pfam: PF03450 (v27) Consensus Sequence
Download Alignment
(Note: includes all positions in family; we filtered this alignment to remove sites that had > 75% gaps before running GREMLIN. )
Length: 103
Sequences: 2550
Seq/Len: 24.76
HH_delta: 0.012 (20Jul13)
GREMLIN Results:
Residue pairs sorted by strength in covariance:

Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] gremlin predictions, sequence seperation > 3. The i and j are positions as given in the consensus sequence. Show Scaled Distribution

ij Raw Score Scaled Score
46_R51_E1.274194.135
23_S31_E0.750052.434
32_D55_I0.746222.422
25_D31_E0.636662.066
23_S32_D0.611751.985
17_N38_G0.557031.808
69_E93_R0.553051.795
59_L64_L0.542781.761
53_A70_A0.531661.725
30_I33_A0.514111.668
49_E52_A0.496941.613
37_V47_A0.488851.586
20_V99_A0.488531.585
6_G12_D0.46591.512
21_L34_R0.454581.475
5_I95_L0.43691.418
48_E52_A0.436431.416
49_E73_E0.433111.406
47_A50_V0.432441.403
65_E97_R0.43231.403
53_A57_K0.419631.362
53_A63_T0.414811.346
72_S93_R0.414351.345
57_K66_E0.408081.324
22_V33_A0.407031.321
37_V92_A0.403641.310
5_I91_L0.397731.291
20_V35_I0.39131.270
49_E74_E0.383241.244
90_H94_V0.383071.243
36_A46_R0.378511.228
14_A17_N0.372991.210
7_R10_A0.357941.162
3_Y17_N0.357661.161
79_S86_E0.356861.158
97_R101_E0.345861.122
61_E101_E0.344031.116
66_E70_A0.334291.085
90_H93_R0.333591.083
22_V30_I0.331961.077
64_L68_A0.328021.064
77_P89_R0.327491.063
50_V74_E0.326761.060
66_E69_E0.326331.059
85_A89_R0.324251.052
29_R58_P0.323541.050
54_L67_A0.320241.039
53_A66_E0.32011.039
34_R46_R0.311881.012
61_E65_E0.309261.004
94_V98_R0.307760.999
60_S63_T0.306220.994
37_V40_V0.305290.991
13_I38_G0.305010.990
4_K14_A0.301970.980
64_L100_L0.299440.972
7_R15_I0.298680.969
47_A71_V0.293510.952
52_A55_I0.292940.951
48_E51_E0.292840.950
58_P63_T0.290550.943
86_E90_H0.288960.938
70_A74_E0.286960.931
30_I59_L0.285580.927
85_A88_R0.280910.912
8_R13_I0.278930.905
15_I82_R0.278210.903
89_R93_R0.276850.898
10_A13_I0.276820.898
2_A102_E0.276450.897
4_K10_A0.276280.897
68_A97_R0.272560.884
35_I67_A0.272550.884
57_K63_T0.272370.884
7_R12_D0.271820.882
33_A54_L0.271490.881
40_V92_A0.267320.867
13_I82_R0.267310.867
18_V95_L0.266220.864
69_E73_E0.26560.862
6_G10_A0.26530.861
33_A55_I0.264180.857
50_V70_A0.262340.851
8_R14_A0.260510.845
70_A73_E0.260070.844
71_V96_V0.259610.842
79_S85_A0.25910.841
77_P86_E0.258990.840
37_V96_V0.25730.835
8_R12_D0.257250.835
24_V56_G0.25090.814
4_K38_G0.250670.813
6_G13_I0.250220.812
31_E55_I0.249710.810
35_I50_V0.249430.809
4_K82_R0.247170.802
72_S89_R0.245950.798
50_V67_A0.242460.787
15_I83_A0.23990.779
94_V97_R0.239020.776
6_G39_G0.237520.771
41_A45_V0.237110.769
67_A96_V0.233210.757
50_V71_V0.229150.744
83_A88_R0.227830.739
7_R39_G0.226980.737
5_I8_R0.226730.736
13_I41_A0.226150.734
7_R13_I0.225530.732
15_I39_G0.222220.721
45_V75_I0.222010.720
91_L96_V0.221440.719
2_A18_V0.220820.717
48_E61_E0.220410.715
62_E66_E0.220320.715
59_L63_T0.219770.713
6_G41_A0.218460.709
59_L100_L0.218150.708
3_Y9_K0.216320.702
64_L67_A0.216090.701
16_V40_V0.2160.701
87_Y95_L0.214120.695
16_V39_G0.210780.684
69_E97_R0.209450.680
3_Y38_G0.209220.679
63_T66_E0.208470.677
10_A39_G0.207050.672
18_V99_A0.20680.671
91_L95_L0.205950.668
68_A71_V0.205310.666
21_L32_D0.205250.666
35_I54_L0.205060.665
38_G41_A0.204410.663
5_I39_G0.204170.663
18_V42_P0.203330.660
57_K60_S0.202430.657
20_V100_L0.20230.656
64_L97_R0.2020.656
58_P69_E0.201440.654
63_T67_A0.200270.650
33_A51_E0.199840.649
15_I87_Y0.199750.648
6_G9_K0.199630.648
35_I47_A0.199610.648
5_I15_I0.199460.647
52_A58_P0.198150.643
39_G78_I0.196430.637
80_D88_R0.195070.633
12_D15_I0.194830.632
29_R65_E0.194830.632
Legend: The value of the raw score is the function of the learning procedure, L2 normalization and APC (entropic) correction. These are to be used for relative ranking only.
HHsearch Results:
Top (length/2) GREMLIN results overlayed on top 10 PDB hits:

Legend: The grey circles underneath are pdb residue contacts (min distance < 5 Angstroms). The coloring of these circles is based on HHsearch results which uses the overall probability, per-site alignment prob and agreement of top hits weighted by HHsearch score (Note we only consider monomeric contacts, there might be homo-oligomeric contacts in the pdb that are not shown.)
PDB Cov Prob HH_delta
3hrdC199.80.012
3zyvA199.80.018
3uncA199.80.022
3nvzB199.80.025
2w3sA0.990399.80.03
1ffvC0.980699.80.065
1n62C0.980699.80.068
1rm6B0.970999.80.072
1t3qC0.980699.80.075
2e5aA0.912667.70.834

Page generated in 0.0201 seconds.