GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
EMP24_GP25L - emp24gp25Lp24 familyGOLD
Pfam: PF01105 (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: CL0521
Length: 183
Sequences: 1198
Seq/Len: 6.55
HH_delta: 0.837 (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
146_R150_E0.354193.675
13_C78_C0.323713.359
26_G65_F0.284722.955
142_E146_R0.270092.803
161_I165_V0.214472.226
139_R142_E0.194512.018
48_P73_G0.193082.004
77_I96_I0.192671.999
30_V33_G0.174381.810
7_E10_E0.171661.781
137_Y141_R0.161631.677
52_V55_S0.159651.657
141_R155_R0.159031.650
48_P75_Y0.153961.598
148_L151_S0.153531.593
159_W163_Q0.153381.592
6_L39_V0.152891.587
160_S163_Q0.148141.537
47_D51_E0.147221.528
78_C182_F0.141711.471
137_Y151_S0.141411.467
120_S123_K0.138571.438
77_I94_F0.138081.433
163_Q171_S0.136951.421
49_N71_E0.136761.419
143_E146_R0.13111.360
144_R148_L0.130121.350
43_I77_I0.129261.341
135_Q163_Q0.128281.331
34_G90_K0.126911.317
24_I67_F0.125711.304
177_Y180_K0.123811.285
146_R156_I0.122341.270
165_V168_I0.122251.269
175_V179_K0.120171.247
5_E91_R0.118061.225
19_P22_T0.117081.215
152_T174_Q0.115151.195
28_Y59_K0.114641.190
105_Y126_S0.11421.185
28_Y63_G0.114191.185
153_N158_W0.114021.183
22_T69_A0.113561.178
137_Y152_T0.113281.175
137_Y148_L0.113271.175
160_S174_Q0.113161.174
44_R76_Q0.11231.165
24_I27_S0.112051.163
47_D71_E0.111261.155
54_Y65_F0.110731.149
160_S164_I0.110731.149
52_V121_L0.110511.147
146_R153_N0.110161.143
153_N157_M0.109471.136
177_Y181_F0.109461.136
152_T155_R0.109011.131
156_I160_S0.108961.131
178_L181_F0.106981.110
178_L182_F0.106181.102
34_G38_D0.10511.091
30_V39_V0.104951.089
142_E150_E0.104891.088
63_G73_G0.104631.086
64_S70_K0.104581.085
113_H150_E0.104361.083
44_R52_V0.103571.075
13_C182_F0.103441.073
145_H159_W0.103441.073
175_V182_F0.103331.072
52_V169_L0.103261.072
148_L155_R0.102931.068
156_I159_W0.102121.060
17_E74_E0.101461.053
145_H149_N0.101181.050
11_T42_T0.100111.039
162_I169_L0.099641.034
26_G157_M0.099151.029
79_F83_S0.0991.027
167_L175_V0.098951.027
142_E153_N0.098751.025
67_F149_N0.09871.024
32_D165_V0.098411.021
132_K136_K0.098381.021
126_S162_I0.097941.016
141_R148_L0.097831.015
26_G41_F0.09781.015
83_S87_S0.09721.009
149_N152_T0.096621.003
81_N90_K0.096491.001
124_L134_E0.096341.000
109_A112_E0.095890.995
148_L152_T0.095520.991
173_W177_Y0.095080.987
47_D56_K0.094990.986
110_K113_H0.094970.985
90_K94_F0.094170.977
145_H163_Q0.09390.974
156_I174_Q0.093160.967
175_V178_L0.093120.966
96_I113_H0.092390.959
41_F64_S0.091940.954
112_E123_K0.091890.954
159_W183_K0.091870.953
25_R28_Y0.091650.951
13_C142_E0.091590.950
86_F90_K0.091550.950
135_Q142_E0.091410.949
151_S155_R0.091050.945
75_Y128_L0.090870.943
5_E77_I0.090860.943
135_Q139_R0.090380.938
21_G49_N0.090290.937
174_Q182_F0.090060.935
30_V92_V0.089250.926
6_L141_R0.089060.924
26_G31_T0.089010.924
165_V169_L0.088780.921
33_G81_N0.088770.921
42_T55_S0.088350.917
154_S158_W0.088120.914
43_I119_E0.088050.914
44_R71_E0.088050.914
33_G123_K0.087910.912
2_L179_K0.087860.912
16_E149_N0.087240.905
23_T30_V0.087230.905
119_E129_K0.087210.905
145_H152_T0.087090.904
153_N156_I0.086660.899
142_E182_F0.086210.895
141_R151_S0.086030.893
113_H156_I0.085680.889
42_T168_I0.085260.885
15_Y76_Q0.084850.880
135_Q159_W0.084640.878
131_I145_H0.084270.874
115_D164_I0.084210.874
43_I51_E0.083690.868
141_R152_T0.08340.865
122_E156_I0.083390.865
101_E123_K0.082920.860
166_V174_Q0.082640.858
85_S179_K0.082610.857
63_G163_Q0.082590.857
43_I65_F0.082460.856
63_G159_W0.08190.850
156_I178_L0.081720.848
29_R32_D0.081570.846
24_I172_V0.081130.842
11_T82_S0.08110.842
115_D169_L0.080450.835
176_Y179_K0.080180.832
23_T33_G0.080120.831
154_S166_V0.080020.830
152_T156_I0.079880.829
145_H148_L0.079750.828
153_N177_Y0.079720.827
110_K168_I0.079280.823
2_L5_E0.079190.822
59_K65_F0.079120.821
134_E137_Y0.079070.821
6_L62_E0.07880.818
53_I76_Q0.07880.818
30_V90_K0.078750.817
56_K59_K0.078690.817
91_R96_I0.07840.814
28_Y38_D0.078380.813
79_F94_F0.07810.810
19_P24_I0.078040.810
150_E153_N0.0780.809
8_P87_S0.077680.806
160_S171_S0.077670.806
51_E91_R0.077650.806
167_L174_Q0.077630.806
31_T92_V0.077610.805
161_I166_V0.07760.805
171_S176_Y0.077560.805
114_L123_K0.077470.804
18_V100_N0.077260.802
2_L172_V0.077120.800
94_F125_E0.077110.800
47_D53_I0.076910.798
139_R143_E0.076480.794
43_I144_R0.07640.793
44_R96_I0.076060.789
134_E183_K0.076030.789
138_L156_I0.075780.786
78_C142_E0.075680.785
87_S90_K0.075620.785
78_C135_Q0.075560.784
43_I49_N0.075440.783
71_E167_L0.075430.783
32_D175_V0.07540.782
109_A123_K0.075360.782
29_R62_E0.075040.779
14_F166_V0.074860.777
146_R154_S0.074730.775
154_S165_V0.074660.775
42_T52_V0.074610.774
138_L149_N0.074570.774
104_D122_E0.07450.773
21_G42_T0.074290.771
19_P72_S0.074280.771
122_E162_I0.074060.769
114_L118_E0.073880.767
119_E161_I0.073730.765
4_F74_E0.073720.765
109_A114_L0.073720.765
100_N163_Q0.073420.762
168_I182_F0.073420.762
168_I176_Y0.073330.761
113_H129_K0.073290.761
122_E126_S0.073290.761
6_L75_Y0.073190.759
23_T69_A0.072830.756
36_A87_S0.072750.755
7_E32_D0.072740.755
16_E77_I0.072640.754
44_R50_G0.072440.752
16_E96_I0.072430.752
117_L156_I0.072390.751
2_L170_V0.072290.750
42_T49_N0.072280.750
6_L33_G0.072120.748
4_F92_V0.071960.747
135_Q180_K0.071960.747
123_K171_S0.071960.747
105_Y108_V0.07190.746
30_V79_F0.071620.743
29_R160_S0.07160.743
22_T28_Y0.071460.742
113_H131_I0.071430.741
33_G38_D0.071390.741
71_E165_V0.071320.740
11_T44_R0.07130.740
56_K66_S0.071210.739
158_W179_K0.071190.739
92_V166_V0.071060.737
40_D80_D0.070920.736
16_E22_T0.07090.736
162_I173_W0.070780.734
12_E181_F0.070760.734
138_L167_L0.070740.734
25_R29_R0.070680.733
11_T37_Y0.07060.733
23_T26_G0.070590.733
98_V101_E0.070580.732
150_E156_I0.070530.732
44_R65_F0.070470.731
40_D79_F0.070390.730
140_E143_E0.070370.730
28_Y58_D0.070240.729
153_N159_W0.070160.728
8_P160_S0.070140.728
24_I97_D0.070110.728
32_D39_V0.070110.728
83_S93_S0.070030.727
111_K168_I0.069890.725
94_F132_K0.069880.725
104_D107_N0.069860.725
36_A40_D0.069830.725
71_E168_I0.069670.723
63_G152_T0.069650.723
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
1olmA0.606696.80.837
4dzgA0.508284.70.893
4g9sB0.508273.40.903
3jqwA0.513773.30.904
2dj4A0.54158.50.912
2e9jA0.54152.10.915
1v05A0.497341.90.92
1nqjA0.480941.60.92
2xwxA0.513741.10.921
1wmdA0.519138.40.922
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