REX - BACSU - GREMLIN Contacts

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REX - Redox-sensing transcriptional repressor Rex

UniProt:	O05521	Sequences: MNKDQSKIPQATAKRLPLYYRFLKNLHASGKQRVSSAELSDAVKVDSATIRRDFSYFGALGKKGYGYNVDYLLSFFRKTLDQDEMTDVILIGVGNLGTAFLHYNFTKNNNTKISMAFDINESKIGTEVGGVPVYNLDDLEQHVKDESVAILTVPAVAAQSITDRLVALGIKGILNFTPARLNVPEHIRIHHIDLAVELQSLVYFLKHYSVLEEIE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	215 (203)
Sequences:	1257 (789)
Seq/√Len:	55.4

BACSU - REX

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
140_E	164_R	5.437	1.00
124_I	135_N	4.469	1.00
140_E	167_A	3.979	1.00
149_A	165_L	3.795	1.00
120_N	123_K	3.676	1.00
101_L	116_A	3.391	1.00
138_D	141_Q	3.220	1.00
159_Q	163_D	2.970	1.00
127_E	130_G	2.833	1.00
93_V	116_A	2.655	1.00
91_I	165_L	2.653	1.00
9_P	56_Y	2.647	1.00
141_Q	145_D	2.337	1.00
115_M	142_H	2.275	1.00
134_Y	138_D	2.227	1.00
174_L	197_E	2.222	1.00
142_H	146_E	2.116	1.00
171_K	186_H	2.029	1.00
89_I	149_A	2.023	1.00
175_N	191_H	2.014	1.00
20_Y	77_R	2.000	1.00
87_D	112_K	1.985	1.00
27_H	70_D	1.971	1.00
78_K	83_D	1.951	1.00
161_I	164_R	1.881	1.00
136_L	161_I	1.868	0.99
57_F	60_L	1.819	0.99
89_I	115_M	1.805	0.99
166_V	184_P	1.776	0.99
20_Y	73_L	1.776	0.99
149_A	168_L	1.717	0.99
127_E	132_P	1.709	0.99
139_L	165_L	1.704	0.99
90_L	101_L	1.683	0.99
163_D	183_V	1.664	0.99
40_S	50_I	1.657	0.99
143_V	168_L	1.648	0.99
87_D	114_S	1.614	0.98
163_D	167_A	1.598	0.98
90_L	113_I	1.598	0.98
26_L	34_V	1.546	0.98
164_R	168_L	1.545	0.98
192_I	197_E	1.530	0.98
183_V	189_I	1.505	0.98
162_T	181_L	1.493	0.97
17_P	199_Q	1.475	0.97
95_N	98_T	1.471	0.97
106_T	110_N	1.471	0.97
33_R	65_Y	1.464	0.97
149_A	170_I	1.456	0.97
57_F	79_T	1.392	0.96
166_V	187_I	1.391	0.96
142_H	145_D	1.380	0.96
190_H	197_E	1.379	0.96
157_A	160_S	1.378	0.96
90_L	93_V	1.373	0.96
160_S	164_R	1.367	0.96
24_K	77_R	1.366	0.96
172_G	205_L	1.314	0.95
153_V	178_P	1.312	0.95
89_I	142_H	1.291	0.94
162_T	173_I	1.269	0.94
164_R	167_A	1.227	0.92
134_Y	142_H	1.222	0.92
156_V	170_I	1.212	0.92
85_M	112_K	1.209	0.92
116_A	131_V	1.209	0.92
159_Q	184_P	1.206	0.92
89_I	146_E	1.203	0.92
113_I	150_I	1.183	0.91
63_K	192_I	1.180	0.91
115_M	134_Y	1.169	0.90
52_R	65_Y	1.151	0.90
48_A	174_L	1.146	0.89
151_L	177_T	1.144	0.89
60_L	64_G	1.140	0.89
98_T	126_T	1.130	0.89
58_G	64_G	1.129	0.89
176_F	194_L	1.103	0.88
68_N	71_Y	1.101	0.87
40_S	43_V	1.101	0.87
29_S	42_A	1.082	0.87
140_E	168_L	1.081	0.87
116_A	153_V	1.078	0.86
87_D	146_E	1.076	0.86
60_L	79_T	1.068	0.86
31_K	69_V	1.052	0.85
184_P	189_I	1.049	0.85
9_P	45_V	1.044	0.85
138_D	142_H	1.041	0.84
166_V	169_G	1.039	0.84
88_V	113_I	1.035	0.84
158_A	177_T	1.031	0.84
50_I	65_Y	1.030	0.84
39_L	50_I	1.023	0.83
49_T	60_L	1.021	0.83
119_I	157_A	1.001	0.82
144_K	164_R	0.998	0.82
88_V	150_I	0.997	0.82
27_H	73_L	0.995	0.82
90_L	116_A	0.991	0.81
81_D	110_N	0.988	0.81
87_D	147_S	0.976	0.80
91_I	139_L	0.970	0.80
21_R	193_D	0.969	0.80
162_T	183_V	0.965	0.80
122_S	138_D	0.957	0.79
7_K	144_K	0.955	0.79
123_K	133_V	0.952	0.79
48_A	197_E	0.951	0.79
174_L	199_Q	0.945	0.78
151_L	161_I	0.942	0.78
38_E	42_A	0.940	0.78
125_G	128_V	0.922	0.76
151_L	162_T	0.921	0.76
117_F	134_Y	0.915	0.76
138_D	156_V	0.914	0.76
165_L	170_I	0.914	0.76
24_K	73_L	0.913	0.76
89_I	93_V	0.907	0.75
8_I	76_F	0.902	0.75
117_F	142_H	0.890	0.74
87_D	171_K	0.885	0.73
11_A	194_L	0.882	0.73
122_S	164_R	0.881	0.73
121_E	137_D	0.879	0.73
124_I	132_P	0.875	0.72
152_T	182_N	0.856	0.71
55_S	68_N	0.854	0.71
133_V	146_E	0.848	0.70
149_A	162_T	0.848	0.70
43_V	46_D	0.844	0.70
114_S	146_E	0.843	0.70
114_S	142_H	0.836	0.69
188_R	208_Y	0.832	0.69
63_K	111_T	0.832	0.69
174_L	192_I	0.831	0.69
64_G	203_Y	0.826	0.68
154_P	177_T	0.824	0.68
32_Q	70_D	0.821	0.68
193_D	199_Q	0.816	0.67
70_D	74_S	0.807	0.66
166_V	183_V	0.801	0.66
159_Q	183_V	0.797	0.65
55_S	59_A	0.792	0.65
91_I	168_L	0.792	0.65
122_S	126_T	0.781	0.64
138_D	144_K	0.777	0.63
149_A	169_G	0.763	0.62
200_S	204_F	0.763	0.62
70_D	167_A	0.760	0.62
154_P	176_F	0.760	0.62
119_I	136_L	0.759	0.62
157_A	166_V	0.756	0.61
25_N	42_A	0.751	0.61
119_I	124_I	0.748	0.60
105_F	113_I	0.746	0.60
17_P	62_K	0.746	0.60
13_A	60_L	0.735	0.59
135_N	184_P	0.735	0.59
20_Y	199_Q	0.730	0.59
139_L	143_V	0.721	0.58
84_E	206_K	0.717	0.57
90_L	189_I	0.714	0.57
29_S	156_V	0.713	0.57
141_Q	144_K	0.712	0.57
89_I	170_I	0.710	0.56
197_E	201_L	0.706	0.56
11_A	65_Y	0.704	0.56
52_R	193_D	0.703	0.56
52_R	55_S	0.700	0.55
128_V	133_V	0.698	0.55
43_V	50_I	0.697	0.55
139_L	168_L	0.694	0.55
57_F	64_G	0.685	0.54
133_V	186_H	0.684	0.54
24_K	76_F	0.684	0.54
12_T	63_K	0.682	0.53
158_A	175_N	0.681	0.53
91_I	136_L	0.678	0.53
21_R	58_G	0.677	0.53
81_D	206_K	0.673	0.52
125_G	133_V	0.666	0.52
49_T	79_T	0.665	0.52
46_D	49_T	0.664	0.51
89_I	117_F	0.663	0.51
159_Q	166_V	0.662	0.51
14_K	200_S	0.656	0.51
79_T	203_Y	0.655	0.50
25_N	155_A	0.655	0.50
48_A	190_H	0.650	0.50
17_P	174_L	0.650	0.50
50_I	194_L	0.646	0.50
29_S	32_Q	0.641	0.49
103_Y	176_F	0.640	0.49
59_A	64_G	0.637	0.49
86_T	202_V	0.637	0.49
153_V	199_Q	0.635	0.48
39_L	203_Y	0.633	0.48
23_L	76_F	0.632	0.48
115_M	148_V	0.631	0.48
9_P	193_D	0.630	0.48
23_L	111_T	0.630	0.48
12_T	56_Y	0.629	0.48
50_I	63_K	0.624	0.47
172_G	191_H	0.621	0.47
136_L	164_R	0.621	0.47
63_K	197_E	0.621	0.47
186_H	189_I	0.615	0.46
11_A	193_D	0.614	0.46
174_L	194_L	0.614	0.46
59_A	194_L	0.614	0.46
11_A	33_R	0.613	0.46
119_I	135_N	0.610	0.46
106_T	195_A	0.609	0.46
134_Y	187_I	0.608	0.45
100_F	176_F	0.607	0.45
94_G	154_P	0.606	0.45
110_N	174_L	0.601	0.45
40_S	86_T	0.600	0.45
41_D	119_I	0.599	0.44
174_L	203_Y	0.598	0.44
98_T	123_K	0.597	0.44
127_E	164_R	0.597	0.44
27_H	69_V	0.594	0.44
124_I	134_Y	0.593	0.44
54_F	60_L	0.593	0.44
64_G	192_I	0.592	0.44
52_R	63_K	0.592	0.44
48_A	95_N	0.590	0.44
98_T	102_H	0.589	0.43
174_L	193_D	0.587	0.43
93_V	101_L	0.586	0.43
171_K	205_L	0.582	0.43
17_P	65_Y	0.582	0.43
48_A	199_Q	0.578	0.42
138_D	185_E	0.578	0.42
121_E	135_N	0.577	0.42
137_D	164_R	0.573	0.42
93_V	113_I	0.573	0.42
198_L	201_L	0.572	0.42
17_P	20_Y	0.572	0.42
134_Y	141_Q	0.568	0.41
64_G	201_L	0.567	0.41
30_G	122_S	0.565	0.41
30_G	149_A	0.565	0.41
163_D	166_V	0.564	0.41
202_V	206_K	0.563	0.41
174_L	198_L	0.563	0.41
46_D	143_V	0.561	0.40
185_E	208_Y	0.555	0.40
12_T	193_D	0.553	0.40
36_S	64_G	0.553	0.40
111_T	195_A	0.551	0.39
21_R	64_G	0.547	0.39
105_F	178_P	0.547	0.39
116_A	134_Y	0.545	0.39
43_V	47_S	0.544	0.39
100_F	105_F	0.543	0.39
47_S	55_S	0.540	0.38
24_K	115_M	0.540	0.38
146_E	179_A	0.538	0.38
51_R	201_L	0.538	0.38
39_L	202_V	0.536	0.38
108_N	161_I	0.534	0.38
110_N	195_A	0.533	0.38
104_N	178_P	0.532	0.37
34_V	117_F	0.532	0.37
52_R	196_V	0.532	0.37
17_P	22_F	0.532	0.37
163_D	189_I	0.531	0.37
95_N	128_V	0.531	0.37
58_G	203_Y	0.531	0.37
64_G	111_T	0.529	0.37
143_V	151_L	0.528	0.37
91_I	149_A	0.527	0.37
40_S	192_I	0.526	0.37
183_V	187_I	0.526	0.37
175_N	194_L	0.524	0.37
76_F	80_L	0.523	0.37
9_P	43_V	0.522	0.36
52_R	62_K	0.522	0.36
62_K	65_Y	0.522	0.36
74_S	205_L	0.521	0.36
9_P	86_T	0.520	0.36
117_F	143_V	0.516	0.36
176_F	197_E	0.514	0.36
37_A	47_S	0.514	0.36
36_S	57_F	0.514	0.36
38_E	41_D	0.514	0.36
34_V	102_H	0.512	0.35
102_H	129_G	0.511	0.35
40_S	52_R	0.509	0.35
26_L	31_K	0.509	0.35
85_M	152_T	0.509	0.35
55_S	197_E	0.508	0.35
8_I	57_F	0.508	0.35
29_S	160_S	0.507	0.35
95_N	176_F	0.505	0.35
77_R	191_H	0.505	0.35
17_P	50_I	0.504	0.35
45_V	50_I	0.503	0.35
48_A	63_K	0.503	0.35
46_D	62_K	0.500	0.34

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
3keoA	2	0.9442	100	0.343	Contact Map
2vt3A	2	0.9674	100	0.348	Contact Map
3wg9A	2	0.9721	100	0.362	Contact Map
2dt5A	3	0.9721	100	0.366	Contact Map
2py6A	4	0.7395	100	0.635	Contact Map
4e2xA	1	0.8047	99.8	0.759	Contact Map
1gr0A	3	0.6093	99.8	0.762	Contact Map
3ff4A	1	0.4698	99.2	0.831	Contact Map
4rv9A	1	0.8372	99.2	0.839	Contact Map
2fp4A	1	0.6372	98.9	0.852	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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