GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Pro_CA - Carbonic anhydrase
Pfam: PF00484 (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: 153
Sequences: 2341
Seq/Len: 15.3
HH_delta: -0.003 (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
117_V143_G0.83043.754
125_R134_V0.825023.729
2_L45_L0.635222.871
121_V141_V0.564892.553
121_V143_G0.55082.490
31_G67_A0.531862.404
30_A44_S0.52622.379
56_E142_H0.520172.351
113_V145_V0.471692.132
63_T145_V0.455682.060
132_D136_K0.44872.028
131_P135_A0.435641.969
32_N116_N0.417351.886
46_E50_Y0.414241.872
133_A138_K0.386451.747
115_E119_Q0.368481.666
58_I144_F0.353721.599
114_E145_V0.351351.588
42_L127_H0.349941.582
64_D149_K0.348261.574
2_L54_V0.345271.561
19_L24_L0.34231.547
147_D150_T0.340211.538
3_V60_C0.334451.512
56_E140_K0.332191.502
60_C144_F0.328581.485
144_F153_V0.321471.453
17_F24_L0.321451.453
96_V99_L0.314411.421
53_G133_A0.312271.412
125_R141_V0.30841.394
63_T148_I0.308241.393
17_F60_C0.304441.376
48_A54_V0.30431.375
49_V133_A0.296371.340
49_V130_I0.293181.325
69_K73_D0.283431.281
27_I44_S0.283391.281
34_V41_A0.281971.275
61_G116_N0.276851.251
7_S25_F0.275441.245
32_N61_G0.274721.242
2_L57_I0.274381.240
49_V54_V0.273531.236
124_L141_V0.273481.236
62_H65_C0.273051.234
123_N126_S0.271131.226
117_V121_V0.268381.213
117_V145_V0.261761.183
59_V124_L0.258611.169
19_L23_D0.255711.156
47_Y51_H0.253831.147
4_I34_V0.251581.137
12_P26_V0.251221.136
3_V17_F0.250491.132
63_T147_D0.249491.128
119_Q122_E0.246941.116
10_R22_G0.245971.112
122_E125_R0.244911.107
7_S27_I0.244911.107
109_L113_V0.244681.106
47_Y66_G0.244311.104
55_K138_K0.242661.097
5_T11_V0.242051.094
89_R92_L0.236471.069
61_G117_V0.23021.041
72_L112_L0.229881.039
6_C65_C0.228011.031
122_E126_S0.226461.024
116_N120_Q0.224421.014
115_E118_R0.223791.012
72_L109_L0.221331.000
3_V24_L0.221110.999
106_F110_D0.218740.989
51_H81_L0.215290.973
94_E115_E0.214810.971
108_D112_L0.213830.967
45_L124_L0.212760.962
1_A56_E0.211770.957
86_Q89_R0.210970.954
73_D76_E0.209830.948
2_L44_S0.208750.944
9_S25_F0.208660.943
132_D135_A0.20450.924
69_K109_L0.204220.923
129_L132_D0.203330.919
25_F48_A0.198590.898
64_D69_K0.197760.894
118_R143_G0.19570.885
61_G120_Q0.194460.879
17_F144_F0.194130.878
40_S43_A0.193740.876
50_Y132_D0.189250.855
29_N34_V0.189090.855
105_D108_D0.18880.853
110_D145_V0.188630.853
1_A19_L0.188590.852
30_A66_G0.188480.852
105_D109_L0.187770.849
8_D62_H0.187340.847
108_D111_D0.187250.846
51_H78_D0.187110.846
26_V29_N0.186690.844
39_D80_F0.185770.840
125_R128_P0.185510.839
83_D87_K0.185440.838
25_F47_Y0.184980.836
40_S54_V0.184490.834
6_C66_G0.181940.822
30_A67_A0.18120.819
33_R120_Q0.180480.816
126_S141_V0.179560.812
3_V13_P0.178740.808
79_G82_R0.178080.805
98_E111_D0.177050.800
39_D83_D0.176960.800
34_V120_Q0.176580.798
121_V125_R0.175210.792
110_D113_V0.174770.790
74_S77_E0.173870.786
49_V139_L0.173450.784
62_H66_G0.173320.783
15_E18_G0.171750.776
107_E110_D0.171630.776
50_Y133_A0.171480.775
29_N32_N0.171040.773
25_F54_V0.170750.772
6_C62_H0.169570.766
77_E132_D0.169270.765
6_C10_R0.168680.762
7_S52_L0.16790.759
87_K90_P0.167710.758
4_I45_L0.16560.749
77_E135_A0.165160.747
68_I88_I0.165050.746
5_T60_C0.164230.742
73_D105_D0.163390.739
9_S52_L0.163340.738
49_V57_I0.161980.732
88_I91_A0.161150.728
84_W123_N0.16080.727
63_T114_E0.160640.726
71_A88_I0.16030.725
42_L124_L0.159650.722
83_D86_Q0.159480.721
107_E111_D0.159440.721
49_V61_G0.159320.720
3_V12_P0.158420.716
8_D65_C0.158130.715
25_F67_A0.156850.709
87_K91_A0.15680.709
133_A139_L0.156110.706
90_P93_E0.155020.701
58_I142_H0.153880.696
105_D111_D0.153740.695
1_A24_L0.15350.694
133_A136_K0.152990.692
134_V140_K0.152910.691
53_G138_K0.152540.690
15_E21_P0.151850.686
11_V26_V0.151270.684
49_V52_L0.150980.682
76_E135_A0.150810.682
7_S70_A0.150620.681
50_Y88_I0.150490.680
86_Q122_E0.150010.678
68_I113_V0.149470.676
93_E96_V0.149040.674
114_E152_K0.149020.674
82_R86_Q0.148470.671
14_E24_L0.14810.669
66_G148_I0.147940.669
34_V57_I0.147090.665
145_V148_I0.147040.665
66_G81_L0.146920.664
106_F109_L0.146830.664
3_V16_I0.146190.661
111_D114_E0.145840.659
14_E19_L0.145450.657
73_D108_D0.144520.653
22_G52_L0.144030.651
29_N41_A0.143970.651
42_L130_I0.143140.647
1_A58_I0.143110.647
9_S28_R0.142390.644
73_D78_D0.142270.643
42_L46_E0.142180.643
14_E20_K0.141730.641
69_K72_L0.141330.639
107_E152_K0.141280.639
27_I41_A0.140810.636
91_A119_Q0.140350.634
17_F153_V0.140230.634
27_I38_D0.140030.633
4_I124_L0.139280.630
9_S68_I0.138880.628
114_E118_R0.137570.622
47_Y52_L0.137540.622
122_E130_I0.137310.621
41_A45_L0.137170.620
67_A84_W0.1370.619
3_V120_Q0.13650.617
71_A92_L0.135290.612
76_E128_P0.135280.611
96_V112_L0.134970.610
121_V134_V0.134760.609
49_V55_K0.134690.609
133_A137_G0.134640.609
91_A115_E0.134450.608
51_H69_K0.133940.605
61_G68_I0.133890.605
42_L80_F0.133890.605
48_A52_L0.133460.603
13_P28_R0.133360.603
134_V139_L0.133240.602
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
1ddzA0.9935100-0.003
1ddzA0.99351000.007
3qy1A0.98691000.023
2w3qA0.94121000.025
1ekjA0.99351000.034
3eyxA0.99351000.036
3ucjA0.98691000.036
3e3iA0.98691000.038
1ym3A0.94121000.045
3vqjA0.97391000.125

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