COMEB - BACSU - GREMLIN Contacts

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COMEB - ComE operon protein 2

UniProt:	P32393	Sequences: MERISWNQYFMAQSHLLALRSTCPRLSVGATIVRDKRMIAGGYNGSIAGGVHCADEGCLMIDDHCARTIHAEMNAILQCSKFGVPTDGAEIYVTHYPCIQCCKSIIQAGIKTVYYAEDYKTHPYAQELFEQAGVTVEQVELDEMIVDLKNREKLSFVAGLIGKLADAGLAEEELKKIHEQANTLFTSYV	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	189 (148)
Sequences:	2765 (1834)
Seq/√Len:	150.8

ECOLI - TADA
BACSU - COMEB GUAD TADA

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
90_E	114_Y	3.369	1.00
88_G	111_K	2.945	1.00
13_Q	41_G	2.714	1.00
66_A	77_L	2.542	1.00
13_Q	16_L	2.539	1.00
115_Y	118_D	2.507	1.00
13_Q	38_M	2.502	1.00
22_T	163_K	2.460	1.00
154_L	158_A	2.454	1.00
7_N	112_T	2.400	1.00
67_R	80_S	2.236	1.00
130_E	133_G	2.204	1.00
95_H	157_V	2.180	1.00
17_L	41_G	2.177	1.00
90_E	112_T	2.131	1.00
32_I	75_A	2.092	1.00
155_S	159_G	2.092	1.00
126_Q	130_E	2.090	1.00
17_L	20_R	1.953	1.00
34_R	89_A	1.880	1.00
163_K	167_A	1.833	1.00
10_F	38_M	1.831	1.00
42_G	74_N	1.743	1.00
73_M	104_S	1.705	1.00
15_H	156_F	1.672	1.00
7_N	114_Y	1.669	1.00
6_W	36_K	1.661	1.00
17_L	43_Y	1.624	1.00
118_D	145_I	1.576	1.00
12_A	149_K	1.574	1.00
19_L	156_F	1.552	1.00
32_I	89_A	1.546	1.00
90_E	111_K	1.535	1.00
68_T	73_M	1.533	1.00
13_Q	17_L	1.481	1.00
116_A	153_K	1.448	1.00
12_A	152_E	1.447	1.00
112_T	142_D	1.422	1.00
34_R	39_I	1.352	1.00
20_R	43_Y	1.326	1.00
34_R	37_R	1.322	1.00
91_I	105_I	1.311	1.00
113_V	141_L	1.299	1.00
68_T	104_S	1.293	1.00
40_A	78_Q	1.268	1.00
32_I	79_C	1.248	1.00
7_N	144_M	1.245	1.00
113_V	132_A	1.244	1.00
150_N	154_L	1.221	1.00
65_C	84_V	1.196	1.00
6_W	9_Y	1.171	1.00
129_F	134_V	1.140	1.00
128_L	134_V	1.138	1.00
24_P	43_Y	1.138	1.00
112_T	144_M	1.126	1.00
76_I	80_S	1.115	0.99
40_A	82_F	1.110	0.99
149_K	152_E	1.089	0.99
10_F	33_V	1.088	0.99
153_K	156_F	1.075	0.99
125_A	132_A	1.062	0.99
115_Y	126_Q	1.042	0.99
45_G	64_H	1.027	0.99
118_D	150_N	1.023	0.99
40_A	75_A	1.007	0.99
8_Q	12_A	0.992	0.99
159_G	163_K	0.990	0.99
132_A	141_L	0.983	0.99
105_I	141_L	0.983	0.99
99_I	131_Q	0.982	0.99
76_I	105_I	0.982	0.99
159_G	162_G	0.973	0.99
124_Y	131_Q	0.973	0.99
15_H	116_A	0.972	0.99
106_I	132_A	0.970	0.98
22_T	156_F	0.970	0.98
10_F	36_K	0.967	0.98
32_I	91_I	0.965	0.98
76_I	104_S	0.963	0.98
30_A	71_A	0.960	0.98
35_D	88_G	0.960	0.98
87_D	111_K	0.959	0.98
9_Y	13_Q	0.959	0.98
15_H	153_K	0.958	0.98
68_T	77_L	0.957	0.98
163_K	166_D	0.954	0.98
78_Q	81_K	0.952	0.98
64_H	69_I	0.952	0.98
15_H	19_L	0.952	0.98
113_V	125_A	0.948	0.98
102_C	132_A	0.947	0.98
22_T	159_G	0.937	0.98
20_R	23_C	0.928	0.98
125_A	130_E	0.925	0.98
151_R	155_S	0.921	0.98
99_I	102_C	0.916	0.98
42_G	75_A	0.912	0.98
128_L	136_V	0.910	0.98
5_S	8_Q	0.893	0.97
78_Q	82_F	0.889	0.97
16_L	19_L	0.886	0.97
156_F	159_G	0.878	0.97
155_S	158_A	0.869	0.97
144_M	148_L	0.867	0.97
20_R	24_P	0.867	0.97
89_A	110_I	0.861	0.97
7_N	92_Y	0.859	0.97
102_C	124_Y	0.856	0.97
112_T	137_E	0.850	0.97
150_N	153_K	0.848	0.96
124_Y	129_F	0.842	0.96
32_I	40_A	0.830	0.96
108_A	111_K	0.821	0.96
139_V	143_E	0.820	0.96
24_P	63_D	0.817	0.96
45_G	74_N	0.815	0.96
115_Y	145_I	0.810	0.95
164_L	167_A	0.806	0.95
38_M	41_G	0.804	0.95
144_M	147_D	0.801	0.95
95_H	117_E	0.797	0.95
105_I	113_V	0.796	0.95
7_N	90_E	0.792	0.95
69_I	74_N	0.789	0.95
138_Q	143_E	0.780	0.94
106_I	140_E	0.779	0.94
117_E	150_N	0.775	0.94
127_E	131_Q	0.772	0.94
134_V	137_E	0.771	0.94
91_I	115_Y	0.767	0.94
37_R	82_F	0.763	0.94
6_W	10_F	0.763	0.94
99_I	119_Y	0.762	0.94
28_V	122_H	0.757	0.94
138_Q	141_L	0.747	0.93
155_S	162_G	0.747	0.93
124_Y	137_E	0.744	0.93
118_D	126_Q	0.741	0.93
21_S	119_Y	0.740	0.93
19_L	22_T	0.729	0.92
61_I	107_Q	0.720	0.92
64_H	68_T	0.716	0.91
34_R	88_G	0.715	0.91
107_Q	122_H	0.707	0.91
19_L	23_C	0.706	0.91
64_H	81_K	0.706	0.91
72_E	98_C	0.703	0.91
106_I	137_E	0.699	0.90
137_E	141_L	0.696	0.90
25_R	63_D	0.688	0.90
106_I	134_V	0.685	0.90
129_F	137_E	0.684	0.90
41_G	78_Q	0.678	0.89
160_L	164_L	0.668	0.88
91_I	110_I	0.667	0.88
129_F	132_A	0.663	0.88
10_F	13_Q	0.658	0.88
145_I	148_L	0.647	0.87
43_Y	74_N	0.645	0.87
99_I	122_H	0.639	0.86
28_V	95_H	0.638	0.86
61_I	80_S	0.635	0.86
34_R	83_G	0.634	0.86
158_A	162_G	0.631	0.85
106_I	141_L	0.623	0.85
14_S	31_T	0.622	0.85
20_R	41_G	0.619	0.84
39_I	89_A	0.619	0.84
129_F	136_V	0.616	0.84
24_P	64_H	0.609	0.83
64_H	77_L	0.606	0.83
99_I	134_V	0.605	0.83
162_G	166_D	0.604	0.83
36_K	90_E	0.602	0.83
119_Y	157_V	0.596	0.82
138_Q	142_D	0.588	0.81
9_Y	12_A	0.588	0.81
70_H	101_C	0.586	0.81
8_Q	149_K	0.583	0.81
32_I	76_I	0.582	0.81
9_Y	20_R	0.582	0.81
73_M	77_L	0.581	0.80
98_C	101_C	0.581	0.80
126_Q	129_F	0.577	0.80
61_I	122_H	0.576	0.80
62_D	107_Q	0.572	0.79
152_E	156_F	0.568	0.79
79_C	86_T	0.565	0.79
161_I	165_A	0.565	0.79
102_C	129_F	0.563	0.78
85_P	109_G	0.558	0.78
10_F	92_Y	0.557	0.78
68_T	80_S	0.554	0.77
126_Q	131_Q	0.553	0.77
32_I	110_I	0.551	0.77
74_N	78_Q	0.550	0.77
122_H	128_L	0.547	0.76
120_K	158_A	0.547	0.76
16_L	20_R	0.547	0.76
147_D	150_N	0.546	0.76
27_S	100_Q	0.539	0.75
148_L	153_K	0.538	0.75
133_G	140_E	0.535	0.75
19_L	159_G	0.530	0.74
66_A	69_I	0.527	0.74
73_M	76_I	0.526	0.74
64_H	74_N	0.526	0.74
27_S	96_Y	0.526	0.74
159_G	166_D	0.522	0.73
125_A	128_L	0.522	0.73
120_K	123_P	0.519	0.73
96_Y	100_Q	0.519	0.73
94_T	116_A	0.518	0.72
131_Q	137_E	0.518	0.72
130_E	136_V	0.516	0.72
34_R	90_E	0.515	0.72
124_Y	127_E	0.511	0.71
9_Y	82_F	0.509	0.71
79_C	100_Q	0.502	0.70
40_A	83_G	0.500	0.70
136_V	140_E	0.500	0.70
99_I	128_L	0.500	0.70

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
2hvwA	3	0.7778	100	0.381	Contact Map
1vq2A	3	0.8148	100	0.394	Contact Map
2w4lA	3	0.7725	100	0.395	Contact Map
1z3aA	2	0.7989	100	0.415	Contact Map
2nx8A	2	0.8519	100	0.42	Contact Map
4p9cA	5	0.7143	100	0.427	Contact Map
2b3jA	2	0.7884	100	0.433	Contact Map
1wwrA	3	0.8042	100	0.449	Contact Map
3dh1A	2	0.7778	100	0.453	Contact Map
1p6oA	2	0.7937	100	0.464	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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