COMEA - BACSU - GREMLIN Contacts

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COMEA - ComE operon protein 1

UniProt:	P39694	Sequences: MNWLNQHKKAIILAASAAVFTAIMIFLATGKNKEPVKQAVPTETENTVVKQEANNDESNETIVIDIKGAVQHPGVYEMRTGDRVSQAIEKAGGTSEQADEAQVNLAEILQDGTVVYIPKKGEETAVQQGGGGSVQSDGGKGALVNINTATLEELQGISGVGPSKAEAIIAYREENGRFQTIEDITKVSGIGEKSFEKIKSSITVK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	205 (194)
Sequences:	1627 (1473)
Seq/√Len:	105.7

BACSU - COMEA

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
150_T	153_E	4.494	1.00
94_T	100_E	4.215	1.00
166_E	170_A	3.645	1.00
164_K	167_A	3.565	1.00
107_E	113_T	3.495	1.00
151_L	166_E	3.304	1.00
185_T	192_E	3.185	1.00
151_L	155_Q	3.183	1.00
185_T	195_F	3.027	1.00
183_D	186_K	3.011	1.00
61_T	77_E	2.835	1.00
155_Q	162_P	2.750	1.00
158_S	201_S	2.724	1.00
67_K	114_V	2.642	1.00
151_L	169_I	2.437	1.00
79_R	82_D	2.435	1.00
83_R	111_D	2.433	1.00
78_M	87_A	2.418	1.00
164_K	194_S	2.337	1.00
69_A	119_K	2.253	1.00
63_V	77_E	2.211	1.00
78_M	82_D	2.150	1.00
103_V	117_I	2.095	1.00
171_Y	186_K	2.092	1.00
116_Y	122_E	2.064	1.00
170_A	174_E	2.048	1.00
157_I	201_S	2.023	1.00
65_D	114_V	1.992	1.00
145_N	203_T	1.988	1.00
145_N	148_T	1.964	1.00
75_V	85_S	1.823	1.00
78_M	90_K	1.769	1.00
146_I	202_I	1.729	1.00
66_I	87_A	1.704	1.00
181_I	195_F	1.658	1.00
102_Q	118_P	1.632	1.00
69_A	95_S	1.608	1.00
195_F	199_K	1.575	1.00
184_I	202_I	1.545	1.00
193_K	196_E	1.526	1.00
76_Y	91_A	1.493	1.00
145_N	204_V	1.480	1.00
65_D	105_L	1.472	1.00
184_I	198_I	1.455	1.00
157_I	202_I	1.433	1.00
192_E	196_E	1.427	1.00
179_Q	183_D	1.423	1.00
65_D	101_A	1.377	1.00
67_K	116_Y	1.377	1.00
85_S	89_E	1.364	1.00
143_L	200_S	1.356	1.00
160_V	164_K	1.350	1.00
62_I	109_L	1.346	0.99
151_L	162_P	1.332	0.99
180_T	183_D	1.330	0.99
181_I	204_V	1.299	0.99
146_I	177_R	1.293	0.99
87_A	109_L	1.288	0.99
152_E	155_Q	1.277	0.99
119_K	122_E	1.273	0.99
157_I	198_I	1.273	0.99
109_L	115_V	1.226	0.99
167_A	197_K	1.225	0.99
167_A	194_S	1.215	0.99
196_E	199_K	1.214	0.99
182_E	195_F	1.212	0.99
181_I	202_I	1.210	0.99
171_Y	175_N	1.210	0.99
81_G	108_I	1.201	0.99
144_V	156_G	1.194	0.99
167_A	170_A	1.187	0.99
97_Q	119_K	1.185	0.99
78_M	109_L	1.163	0.98
88_I	94_T	1.142	0.98
69_A	97_Q	1.135	0.98
67_K	164_K	1.110	0.98
84_V	115_V	1.108	0.98
98_A	121_G	1.103	0.98
190_I	195_F	1.094	0.98
121_G	124_T	1.090	0.98
143_L	203_T	1.090	0.98
151_L	170_A	1.077	0.98
70_V	87_A	1.063	0.97
24_M	28_A	1.045	0.97
82_D	86_Q	1.029	0.97
21_T	24_M	1.019	0.97
64_I	87_A	1.005	0.96
60_E	80_T	0.997	0.96
108_I	112_G	0.996	0.96
94_T	98_A	0.994	0.96
163_S	167_A	0.990	0.96
99_D	121_G	0.986	0.96
170_A	173_E	0.982	0.96
94_T	105_L	0.979	0.96
65_D	164_K	0.971	0.95
94_T	103_V	0.950	0.95
191_G	194_S	0.948	0.95
194_S	198_I	0.945	0.95
159_G	197_K	0.939	0.95
162_P	166_E	0.926	0.94
182_E	199_K	0.921	0.94
23_I	26_F	0.918	0.94
193_K	197_K	0.915	0.94
71_Q	95_S	0.905	0.93
110_Q	113_T	0.900	0.93
83_R	112_G	0.897	0.93
159_G	194_S	0.896	0.93
146_I	150_T	0.883	0.92
66_I	84_V	0.882	0.92
185_T	199_K	0.875	0.92
23_I	27_L	0.872	0.92
101_A	116_Y	0.870	0.92
184_I	195_F	0.868	0.92
65_D	75_V	0.868	0.92
146_I	195_F	0.865	0.92
67_K	191_G	0.861	0.92
164_K	187_V	0.857	0.91
69_A	98_A	0.853	0.91
19_V	27_L	0.844	0.91
188_S	193_K	0.843	0.91
99_D	119_K	0.842	0.91
163_S	189_G	0.841	0.91
155_Q	158_S	0.839	0.90
65_D	194_S	0.838	0.90
106_A	112_G	0.821	0.89
66_I	117_I	0.812	0.89
82_D	90_K	0.811	0.89
63_V	85_S	0.804	0.89
107_E	114_V	0.794	0.88
175_N	183_D	0.793	0.88
88_I	105_L	0.790	0.88
158_S	167_A	0.790	0.88
163_S	188_S	0.786	0.87
194_S	197_K	0.785	0.87
163_S	193_K	0.777	0.87
187_V	191_G	0.775	0.87
99_D	102_Q	0.766	0.86
153_E	156_G	0.765	0.86
167_A	187_V	0.761	0.86
118_P	122_E	0.760	0.86
70_V	117_I	0.759	0.85
82_D	112_G	0.744	0.84
62_I	81_G	0.735	0.84
22_A	26_F	0.730	0.83
191_G	196_E	0.728	0.83
69_A	122_E	0.726	0.83
164_K	188_S	0.720	0.82
21_T	36_V	0.714	0.82
103_V	114_V	0.710	0.81
65_D	167_A	0.710	0.81
63_V	75_V	0.707	0.81
76_Y	87_A	0.707	0.81
118_P	157_I	0.705	0.81
178_F	189_G	0.704	0.81
58_S	61_T	0.700	0.81
71_Q	88_I	0.693	0.80
82_D	85_S	0.692	0.80
61_T	79_R	0.690	0.80
37_K	40_V	0.689	0.79
107_E	112_G	0.683	0.79
89_E	115_V	0.678	0.78
27_L	30_G	0.677	0.78
163_S	166_E	0.675	0.78
37_K	44_T	0.668	0.77
37_K	46_N	0.665	0.77
71_Q	92_G	0.664	0.77
76_Y	160_V	0.662	0.77
171_Y	177_R	0.662	0.77
86_Q	89_E	0.659	0.76
74_G	83_R	0.653	0.76
85_S	105_L	0.652	0.76
178_F	187_V	0.650	0.75
164_K	189_G	0.649	0.75
88_I	92_G	0.645	0.75
181_I	199_K	0.645	0.75
99_D	158_S	0.643	0.75
173_E	179_Q	0.641	0.74
84_V	117_I	0.636	0.74
155_Q	185_T	0.634	0.74
60_E	138_G	0.631	0.73
45_E	49_V	0.631	0.73
188_S	197_K	0.631	0.73
160_V	198_I	0.630	0.73
164_K	197_K	0.626	0.73
20_F	135_Q	0.622	0.72
23_I	28_A	0.622	0.72
43_E	47_T	0.617	0.72
67_K	101_A	0.617	0.72
164_K	171_Y	0.614	0.71
164_K	191_G	0.613	0.71
37_K	41_P	0.611	0.71
65_D	116_Y	0.610	0.71
20_F	24_M	0.610	0.71
45_E	48_V	0.605	0.70
157_I	187_V	0.604	0.70
67_K	76_Y	0.604	0.70
66_I	88_I	0.602	0.70
145_N	177_R	0.602	0.70
146_I	184_I	0.601	0.70
195_F	202_I	0.595	0.69
69_A	183_D	0.594	0.69
159_G	171_Y	0.594	0.69
47_T	53_A	0.593	0.69
130_G	134_V	0.592	0.69
163_S	197_K	0.590	0.68
39_A	44_T	0.589	0.68
76_Y	164_K	0.587	0.68
107_E	110_Q	0.584	0.67
100_E	105_L	0.583	0.67
50_K	56_D	0.581	0.67
160_V	167_A	0.581	0.67
87_A	90_K	0.580	0.67
99_D	123_E	0.579	0.67
67_K	194_S	0.578	0.67
141_G	203_T	0.578	0.67
159_G	186_K	0.578	0.67
69_A	120_K	0.576	0.66
114_V	164_K	0.575	0.66
14_A	20_F	0.573	0.66
65_D	112_G	0.573	0.66
69_A	116_Y	0.573	0.66
164_K	179_Q	0.573	0.66
164_K	190_I	0.571	0.66
88_I	100_E	0.568	0.65
18_A	21_T	0.566	0.65
36_V	53_A	0.564	0.65
160_V	194_S	0.561	0.64
187_V	190_I	0.560	0.64
157_I	195_F	0.560	0.64
62_I	87_A	0.559	0.64
19_V	23_I	0.558	0.64
43_E	55_N	0.558	0.64
18_A	22_A	0.558	0.64
65_D	85_S	0.557	0.64
167_A	188_S	0.557	0.64
162_P	195_F	0.555	0.64
16_S	21_T	0.552	0.63
91_A	115_V	0.551	0.63
118_P	121_G	0.550	0.63
21_T	25_I	0.547	0.62
107_E	167_A	0.546	0.62
173_E	177_R	0.545	0.62
175_N	186_K	0.543	0.62
164_K	170_A	0.542	0.62
48_V	51_Q	0.542	0.62
65_D	193_K	0.541	0.62
49_V	53_A	0.541	0.62
182_E	185_T	0.538	0.61
10_A	21_T	0.536	0.61
192_E	201_S	0.535	0.61
104_N	190_I	0.534	0.61
14_A	18_A	0.533	0.60
154_L	168_I	0.533	0.60
162_P	192_E	0.532	0.60
133_S	136_S	0.531	0.60
41_P	50_K	0.530	0.60
105_L	191_G	0.526	0.59
171_Y	202_I	0.526	0.59
181_I	185_T	0.526	0.59
105_L	193_K	0.523	0.59
20_F	27_L	0.522	0.59
171_Y	197_K	0.522	0.59
69_A	192_E	0.521	0.59
66_I	101_A	0.521	0.59
53_A	56_D	0.520	0.59
112_G	163_S	0.519	0.58
40_V	56_D	0.517	0.58
158_S	198_I	0.516	0.58
74_G	78_M	0.516	0.58
88_I	93_G	0.516	0.58
62_I	78_M	0.516	0.58
88_I	180_T	0.516	0.58
159_G	201_S	0.514	0.58
110_Q	117_I	0.511	0.57
147_N	176_G	0.511	0.57
18_A	50_K	0.510	0.57
169_I	177_R	0.509	0.57
17_A	20_F	0.509	0.57
157_I	197_K	0.509	0.57
144_V	150_T	0.509	0.57
13_L	28_A	0.508	0.57
109_L	134_V	0.507	0.57
30_G	144_V	0.506	0.57
127_Q	137_D	0.505	0.56
67_K	105_L	0.504	0.56
163_S	194_S	0.504	0.56
88_I	117_I	0.503	0.56
63_V	99_D	0.503	0.56
125_A	136_S	0.502	0.56
49_V	55_N	0.502	0.56
75_V	122_E	0.500	0.56

Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

Text file of predictions (all 3L/2 predictions)
Generate restraints for ROSETTA Structure Modeling
Upload PDB model overlay contacts on the model

HHsearch Results:

Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.

PDB	Chains	Cov	%	HHΔ
3psiA	1	0.8683	100	0.574	Contact Map
3psfA	1	0.8683	100	0.588	Contact Map
3bzcA	1	0.8244	100	0.61	Contact Map
2i5hA	1	0.6829	99.8	0.717	Contact Map
4pj0U	1	0.361	99.7	0.729	Contact Map
3wu2U	1	0.3659	99.7	0.744	Contact Map
2j58A	5	0.9659	99.5	0.767	Contact Map
2duyA	1	0.3171	99.5	0.771	Contact Map
3ci0K	1	0.9024	99.5	0.771	Contact Map
2eduA	1	0.4537	99.4	0.782	Contact Map

Sequence Conservation (Image Generated using WebLogo v3)

Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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