GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
ATP-grasp_4 - ATP-grasp domain
Pfam: PF13535 (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: CL0179
Length: 184
Sequences: 20046
Seq/Len: 108.95
HH_delta: 0.107 (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
21_K86_E2.3453.321
36_E61_P1.983922.810
142_D146_K1.952432.765
60_S63_E1.857422.631
32_R65_E1.745312.472
145_R149_R1.612592.284
9_R85_Q1.527442.163
23_R37_D1.503262.129
4_D47_V1.48692.106
40_F61_P1.485782.104
27_S30_E1.45812.065
133_E136_L1.388621.967
14_K150_A1.347881.909
12_L172_F1.344821.905
61_P65_E1.289541.826
12_L147_L1.269171.798
6_Y24_I1.261281.786
57_I87_Y1.205571.707
6_Y10_E1.1941.691
65_E69_A1.156631.638
99_V104_V1.132731.604
59_H63_E1.131691.603
163_I173_I1.123121.591
7_R10_E1.104111.564
138_E142_D1.099311.557
164_V170_L1.077071.525
89_P166_P1.076941.525
43_V57_I1.076431.525
43_V87_Y1.075731.524
10_E14_K1.060141.501
10_E13_K1.038941.471
134_P138_E1.028531.457
34_F38_L1.025091.452
139_E142_D1.021371.447
28_E32_R1.006931.426
33_A37_D0.983241.393
143_L170_L0.982991.392
34_F37_D0.981921.391
138_E141_R0.979591.387
32_R61_P0.978611.386
8_M12_L0.942331.335
13_K21_K0.939771.331
23_R34_F0.938721.330
35_A40_F0.936971.327
22_T85_Q0.933551.322
146_K150_A0.930141.317
91_D111_R0.926291.312
136_L139_E0.923281.308
43_V55_V0.910381.289
26_D81_P0.898881.273
32_R36_E0.898661.273
141_R145_R0.889171.259
165_D171_Y0.889071.259
100_D103_E0.887531.257
160_I175_I0.886121.255
146_K149_R0.875441.240
30_E33_A0.872871.236
26_D30_E0.866431.227
139_E143_L0.86441.224
66_A70_E0.864041.224
86_E171_Y0.862831.222
47_V81_P0.86061.219
148_L158_F0.85441.210
6_Y47_V0.853881.209
42_F84_V0.828721.174
28_E69_A0.82811.173
21_K37_D0.824271.167
136_L164_V0.822131.164
33_A36_E0.821891.164
104_V145_R0.817751.158
18_P143_L0.815111.154
88_I171_Y0.803251.138
11_L15_A0.802291.136
58_V67_A0.795991.127
11_L14_K0.79441.125
137_P141_R0.79181.121
9_R19_V0.791331.121
56_F70_E0.791251.121
41_P57_I0.784551.111
11_L150_A0.783971.110
15_A150_A0.782431.108
35_A42_F0.779881.105
44_V84_V0.779211.104
95_V140_L0.771681.093
38_L42_F0.769511.090
72_R80_G0.769341.090
17_V172_F0.766911.086
93_Y164_V0.758851.075
97_G144_A0.758311.074
40_F60_S0.754351.068
68_L72_R0.75251.066
143_L146_K0.738391.046
97_G158_F0.735081.041
18_P171_Y0.725421.027
25_V34_F0.723871.025
41_P87_Y0.720671.021
28_E65_E0.713051.010
59_H89_P0.705320.999
41_P59_H0.699320.990
90_G166_P0.697440.988
109_I137_P0.696870.987
129_S132_S0.690520.978
95_V109_I0.690170.977
98_V157_F0.687530.974
40_F64_L0.685960.972
66_A69_A0.68220.966
99_V149_R0.680640.964
72_R82_V0.680450.964
29_E32_R0.678540.961
134_P137_P0.675440.957
102_G149_R0.67360.954
147_L150_A0.673370.954
142_D145_R0.665220.942
29_E33_A0.662070.938
96_D159_H0.659630.934
24_I81_P0.656630.930
157_F179_F0.651140.922
56_F67_A0.648040.918
116_S119_H0.62880.891
115_Q119_H0.626010.887
144_A162_F0.621490.880
70_E73_E0.618530.876
147_L151_L0.617270.874
13_K19_V0.609240.863
31_L64_L0.607650.861
47_V83_I0.603840.855
21_K38_L0.597280.846
164_V168_G0.597270.846
31_L68_L0.596860.845
45_K85_Q0.594820.842
143_L162_F0.593330.840
7_R11_L0.592150.839
44_V82_V0.587810.833
6_Y81_P0.585930.830
28_E72_R0.585880.830
67_A71_I0.58380.827
71_I75_S0.582010.824
159_H180_G0.581090.823
30_E34_F0.580310.822
165_D168_G0.580080.822
42_F58_V0.576520.817
132_S136_L0.575670.815
135_P139_E0.57430.813
63_E66_A0.572620.811
35_A64_L0.572410.811
25_V31_L0.56010.793
11_L151_L0.555530.787
140_L170_L0.55550.787
143_L147_L0.554870.786
20_P171_Y0.552930.783
6_Y83_I0.550480.780
20_P86_E0.548750.777
94_S110_S0.548470.777
110_S113_V0.547580.776
162_F170_L0.539560.764
89_P165_D0.536580.760
28_E68_L0.534360.757
173_I176_N0.530740.752
103_E145_R0.529140.749
62_E65_E0.528530.749
35_A39_G0.526330.745
97_G148_L0.525370.744
161_D180_G0.52490.743
88_I165_D0.523090.741
13_K22_T0.522230.740
20_P88_I0.518650.735
91_D164_V0.507970.719
62_E66_A0.507720.719
95_V144_A0.506890.718
36_E65_E0.505950.717
4_D7_R0.505640.716
112_Y115_Q0.50150.710
58_V64_L0.500290.709
4_D48_D0.499440.707
56_F74_D0.498860.707
103_E149_R0.498790.706
110_S114_R0.497510.705
69_A73_E0.495570.702
97_G104_V0.495330.702
44_V67_A0.494250.700
97_G160_I0.494020.700
10_E22_T0.492940.698
124_V127_G0.491660.696
107_A110_S0.490760.695
52_S159_H0.488940.692
44_V58_V0.488780.692
53_R74_D0.48870.692
156_G178_R0.486070.688
144_A160_I0.482340.683
86_E165_D0.476450.675
106_F141_R0.474890.673
41_P58_V0.472780.670
96_D178_R0.471970.668
148_L151_L0.470170.666
5_K49_G0.468050.663
8_M172_F0.465640.659
96_D173_I0.462320.655
23_R33_A0.461080.653
157_F178_R0.459870.651
68_L82_V0.459590.651
111_R114_R0.457070.647
135_P138_E0.454610.644
56_F71_I0.454520.644
71_I82_V0.453320.642
35_A61_P0.451070.639
17_V146_K0.45050.638
39_G86_E0.450480.638
5_K55_V0.449190.636
133_E168_G0.44850.635
70_E74_D0.447760.634
174_E178_R0.447380.634
144_A148_L0.446510.632
152_G155_N0.441260.625
32_R35_A0.438040.620
63_E67_A0.437770.620
17_V143_L0.436520.618
95_V141_R0.436210.618
112_Y118_G0.43450.615
110_S115_Q0.431240.611
87_Y163_I0.431180.611
92_E112_Y0.43050.610
125_P128_Y0.428990.608
139_E170_L0.428840.607
12_L175_I0.427070.605
92_E161_D0.425270.602
67_A70_E0.424160.601
160_I172_F0.420880.596
13_K23_R0.419810.595
144_A147_L0.417430.591
58_V63_E0.413280.585
23_R26_D0.411630.583
5_K45_K0.410640.582
104_V149_R0.40960.580
104_V148_L0.407110.577
148_L153_Y0.404730.573
140_L162_F0.403740.572
8_M176_N0.402690.570
5_K8_M0.400790.568
106_F145_R0.400610.567
99_V155_N0.398940.565
9_R13_K0.395880.561
98_V107_A0.393990.558
92_E180_G0.392070.555
59_H87_Y0.389980.552
148_L160_I0.384860.545
9_R22_T0.384710.545
111_R129_S0.383750.544
31_L34_F0.383580.543
99_V148_L0.383480.543
93_Y109_I0.38240.542
139_E168_G0.381880.541
88_I173_I0.379870.538
23_R38_L0.379450.537
135_P168_G0.379370.537
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
3votA0.98371000.107
4dimA0.972899.90.129
1a9xA0.978399.90.151
3jrxA0.972899.90.162
3glkA0.972899.90.163
3u9tA0.983799.90.167
3q2oA0.940299.90.167
3vmmA0.978399.90.167
1a9xA0.983799.90.171
3n6rA0.983799.90.173

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