GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Ring_hydroxyl_A - Ring hydroxylating alpha subunit (catalytic domain)
Pfam: PF00848 (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. )
Clan: CL0209
Length: 209
Sequences: 2466
Seq/Len: 11.8
HH_delta: 0.235 (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
15_D130_R0.639315.178
127_G130_R0.612814.963
15_D172_E0.47513.848
13_E130_R0.439423.559
129_D179_R0.386973.134
126_I130_R0.379533.074
34_L170_I0.357092.892
126_I132_E0.335382.716
11_R132_E0.289812.347
28_G31_V0.28572.314
13_E132_E0.269782.185
151_E155_R0.265582.151
202_W205_R0.256682.079
203_W207_M0.246391.996
13_E126_I0.240021.944
123_I131_T0.236711.917
38_T166_E0.228311.849
19_K29_Y0.224931.822
202_W206_Y0.219491.778
201_R205_R0.214441.737
16_C171_V0.208071.685
146_P149_F0.205171.662
11_R134_W0.204461.656
37_S166_E0.203831.651
129_D175_Q0.202191.638
175_Q179_R0.193371.566
168_I172_E0.18811.523
16_C21_A0.177561.438
20_L174_Q0.175671.423
189_S196_V0.171611.390
29_Y193_E0.170291.379
124_I134_W0.162171.313
169_E173_R0.161031.304
201_R204_R0.151791.229
176_R179_R0.151341.226
17_N175_Q0.145681.180
19_K193_E0.144811.173
197_R200_H0.143781.165
137_W157_W0.143341.161
200_H203_W0.140361.137
194_R198_H0.140031.134
124_I132_E0.13781.116
14_V171_V0.137641.115
20_L175_Q0.137121.111
173_R176_R0.136361.104
114_Y117_H0.136161.103
21_A131_T0.134681.091
19_K177_G0.134111.086
152_A155_R0.133261.079
16_C20_L0.132841.076
18_W29_Y0.132551.074
10_W158_D0.132351.072
106_F206_Y0.132021.069
122_T136_W0.131661.066
192_S197_R0.131261.063
27_E196_V0.130981.061
177_G193_E0.128271.039
77_P81_R0.128091.037
38_T41_F0.124761.010
165_A169_E0.124361.007
23_E100_Y0.124341.007
24_N27_E0.123471.000
105_I111_I0.123330.999
78_S85_G0.123080.997
27_E103_Y0.122720.994
148_E152_A0.121730.986
29_Y106_F0.121620.985
27_E31_V0.121590.985
27_E192_S0.120770.978
25_F123_I0.120170.973
19_K106_F0.120090.973
174_Q178_L0.118720.962
154_I158_D0.118640.961
62_G195_G0.117390.951
165_A168_I0.117210.949
45_S48_E0.117130.949
33_F193_E0.116820.946
86_R193_E0.116310.942
16_C131_T0.115850.938
155_R158_D0.114650.929
20_L171_V0.114310.926
26_L199_F0.114040.924
98_M115_P0.11280.914
86_R182_G0.112050.908
33_F40_G0.111660.904
30_H35_H0.11160.904
40_G196_V0.111360.902
112_I121_R0.110880.898
110_S121_R0.109620.888
27_E106_F0.109570.887
123_I134_W0.109530.887
129_D132_E0.109290.885
112_I119_T0.108670.880
42_F47_D0.108650.880
112_I117_H0.107740.873
31_V34_L0.107190.868
32_P40_G0.106910.866
103_Y193_E0.10670.864
147_P151_E0.106590.863
174_Q195_G0.106570.863
121_R164_F0.106270.861
27_E200_H0.106040.859
76_E84_K0.105940.858
17_N129_D0.105760.857
21_A163_V0.105590.855
78_S86_R0.105540.855
22_V123_I0.105140.852
27_E193_E0.105040.851
181_R201_R0.104730.848
137_W163_V0.104050.843
108_N124_I0.103620.839
23_E202_W0.103560.839
113_V116_D0.103470.838
60_G105_I0.103050.835
87_P91_G0.102930.834
103_Y111_I0.102750.832
78_S147_P0.102620.831
39_L43_D0.102290.828
21_A24_N0.102030.826
191_T195_G0.101850.825
18_W199_F0.10180.825
149_F156_N0.101690.824
15_D179_R0.10120.820
27_E113_V0.101060.819
79_E84_K0.100750.816
60_G63_S0.100030.810
24_N170_I0.099920.809
56_E63_S0.099850.809
188_L192_S0.099780.808
21_A121_R0.099420.805
12_Y171_V0.099230.804
119_T137_W0.099110.803
165_A172_E0.098670.799
126_I131_T0.098440.797
20_L110_S0.097680.791
92_L95_D0.097670.791
164_F171_V0.097660.791
44_P47_D0.097610.791
179_R206_Y0.097540.790
106_F202_W0.096910.785
25_F171_V0.09680.784
19_K128_P0.096760.784
57_F198_H0.096430.781
55_V59_G0.096390.781
43_D46_N0.096260.780
78_S81_R0.096030.778
155_R159_R0.095980.777
59_G64_V0.095650.775
77_P80_R0.095450.773
151_E154_I0.095290.772
16_C156_N0.095020.770
55_V80_R0.094780.768
175_Q178_L0.094740.767
29_Y186_G0.094560.766
189_S201_R0.094410.765
46_N118_F0.094340.764
23_E136_W0.094330.764
121_R166_E0.094250.763
84_K98_M0.093890.760
154_I205_R0.093830.760
191_T206_Y0.093720.759
61_H105_I0.093710.759
110_S186_G0.093690.759
180_S185_P0.093280.756
93_P203_W0.093280.756
18_W108_N0.093270.755
27_E171_V0.093210.755
44_P48_E0.09310.754
26_L196_V0.092850.752
18_W122_T0.092840.752
42_F193_E0.09280.752
28_G156_N0.092530.749
23_E135_S0.092410.748
12_Y23_E0.09220.747
12_Y164_F0.092170.747
61_H64_V0.092120.746
80_R87_P0.091940.745
18_W106_F0.091840.744
17_N20_L0.091550.741
62_G65_W0.091290.739
31_V188_L0.091150.738
126_I129_D0.091150.738
93_P96_Q0.091060.738
91_G96_Q0.091010.737
149_F152_A0.090860.736
116_D119_T0.090790.735
62_G181_R0.090360.732
27_E33_F0.090120.730
131_T169_E0.090.729
76_E94_D0.08980.727
94_D152_A0.089620.726
31_V195_G0.089180.722
17_N131_T0.089150.722
15_D55_V0.089060.721
60_G101_R0.089010.721
135_S195_G0.088780.719
30_H167_D0.088570.717
55_V87_P0.08840.716
22_V34_L0.088320.715
45_S82_A0.08820.714
111_I120_V0.088150.714
164_F170_I0.087620.710
40_G47_D0.087320.707
150_R154_I0.087320.707
140_P145_A0.087040.705
31_V157_W0.086970.704
191_T194_R0.086950.704
27_E121_R0.086350.699
142_D148_E0.086320.699
25_F170_I0.086310.699
187_R200_H0.086050.697
145_A165_A0.086030.697
145_A148_E0.0860.697
31_V171_V0.085980.696
77_P82_A0.085860.695
179_R201_R0.085760.695
76_E79_E0.085730.694
23_E198_H0.085680.694
57_F182_G0.085640.694
148_E151_E0.085460.692
56_E59_G0.085440.692
191_T197_R0.085370.691
176_R206_Y0.08530.691
48_E168_I0.085250.690
25_F110_S0.085060.689
26_L135_S0.085030.689
127_G131_T0.084970.688
34_L37_S0.084890.688
141_K198_H0.084530.685
100_Y104_V0.084380.683
28_G193_E0.084290.683
172_E176_R0.084150.682
45_S56_E0.08410.681
57_F201_R0.083950.680
20_L34_L0.083750.678
108_N136_W0.083670.678
14_V168_I0.083360.675
56_E201_R0.083320.675
138_F152_A0.083270.674
180_S189_S0.083180.674
19_K175_Q0.083150.673
25_F102_N0.082870.671
12_Y112_I0.082780.670
180_S186_G0.082780.670
16_C175_Q0.082610.669
48_E55_V0.082370.667
118_F138_F0.082340.667
85_G96_Q0.082290.666
28_G199_F0.08210.665
114_Y153_R0.082080.665
24_N133_V0.082070.665
59_G205_R0.081980.664
16_C102_N0.081960.664
58_F61_H0.08160.661
19_K108_N0.081590.661
18_W31_V0.081580.661
45_S76_E0.081530.660
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
3n0qA0.985699.90.235
3vcaA0.966599.90.24
3gkeA0.918799.80.36
2b1xA0.985699.80.395
2gbwA0.976199.80.397
2bmoA0.976199.80.409
1z01A0.942699.80.41
2zylA0.842199.80.424
3gzxA0.980999.80.43
1uliA0.980999.70.446

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