MscS_TM - PFAM28P - GREMLIN Contacts

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MscS_TM - Mechanosensitive ion channel inner membrane domain 1

PFAM:	PF12794	Sequences: PLLFLLLLLLLLLLLWLRRRLRRRLERLAEKVGRVRTDSFLHTLRALLLTLLLALPLPLLLALLGWLLSASPEATPFSRALGAGLLALALLLLVLEFLRRLCRPGGLAEAHFRWPEAAVRRLRRQLRWLILVLLPLVFVVALAEASPDALASDSLGRLAFILALLALAVFLYRLLRPGRGLLASLLARNPNGWRLRYLWYPLLVLLPLALAVLALAGYYYTALQLLGRLIDTLWLLLGLLLLYALVLRWLLVARRRLALRRALERREAALAAREAEEAEGEEGEEAPPVEEPEIDLEAISQQSRRLLRTLLLLAFLVGLWLIWSDLLPALSILDNITLW	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	339 (337)
Sequences:	2015 (1576)
Seq/√Len:	85.8
META:	0.739

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
161_I	215_L	5.220	1.00
32_V	38_D	4.752	1.00
65_G	82_G	4.261	1.00
214_A	219_Y	4.176	1.00
25_L	46_A	4.125	1.00
101_L	107_L	3.731	1.00
21_L	49_L	3.134	1.00
239_L	315_F	3.127	1.00
38_D	42_H	3.124	1.00
212_V	216_A	2.988	1.00
131_L	135_P	2.955	1.00
129_L	170_F	2.929	1.00
176_R	179_R	2.923	1.00
235_L	318_G	2.760	1.00
109_E	119_V	2.594	1.00
81_L	138_F	2.583	1.00
17_L	20_R	2.548	1.00
125_Q	173_R	2.509	1.00
38_D	248_R	2.500	1.00
176_R	180_G	2.483	1.00
100_R	103_R	2.480	1.00
172_Y	200_Y	2.437	1.00
84_G	142_L	2.382	1.00
161_I	211_A	2.371	1.00
232_T	323_W	2.367	1.00
35_V	38_D	2.344	1.00
125_Q	128_W	2.306	1.00
43_T	111_H	2.247	1.00
132_V	166_A	2.231	1.00
33_G	38_D	2.153	1.00
105_G	109_E	2.137	1.00
111_H	248_R	2.136	1.00
258_A	262_A	2.124	1.00
268_A	272_A	2.037	1.00
125_Q	170_F	2.031	1.00
96_E	100_R	2.029	1.00
20_R	23_R	1.979	1.00
24_R	45_R	1.970	1.00
24_R	27_R	1.960	1.00
40_F	245_L	1.957	1.00
98_L	237_L	1.947	1.00
46_A	107_L	1.941	1.00
32_V	37_T	1.892	1.00
151_A	154_S	1.886	1.00
160_F	164_L	1.884	1.00
21_L	52_L	1.875	1.00
32_V	42_H	1.854	1.00
39_S	42_H	1.847	1.00
109_E	116_E	1.811	1.00
29_A	32_V	1.796	1.00
25_L	50_T	1.786	1.00
38_D	111_H	1.762	1.00
116_E	120_R	1.758	1.00
208_L	212_V	1.726	1.00
108_A	114_W	1.703	1.00
102_C	108_A	1.658	1.00
262_A	266_R	1.649	1.00
219_Y	223_L	1.634	1.00
160_F	222_A	1.632	1.00
160_F	214_A	1.625	1.00
56_P	59_L	1.619	1.00
168_A	204_V	1.618	1.00
81_L	142_L	1.612	1.00
32_V	35_V	1.601	1.00
259_L	263_L	1.580	1.00
329_A	339_W	1.574	1.00
24_R	28_L	1.556	1.00
262_A	265_R	1.551	1.00
88_L	134_L	1.541	1.00
43_T	248_R	1.539	1.00
170_F	174_L	1.525	1.00
212_V	215_L	1.521	1.00
18_R	22_R	1.515	1.00
235_L	322_I	1.500	0.99
128_W	131_L	1.479	0.99
142_L	156_G	1.474	0.99
121_R	180_G	1.443	0.99
299_I	302_Q	1.424	0.99
101_L	108_A	1.413	0.99
92_L	96_E	1.411	0.99
96_E	99_R	1.404	0.99
320_W	332_I	1.386	0.99
177_P	180_G	1.385	0.99
6_L	10_L	1.365	0.99
31_K	37_T	1.356	0.99
46_A	111_H	1.343	0.99
136_L	162_L	1.340	0.99
94_V	234_W	1.338	0.99
36_R	259_L	1.332	0.99
11_L	60_L	1.325	0.99
165_L	169_V	1.323	0.99
130_I	134_L	1.320	0.99
92_L	130_I	1.307	0.99
161_I	165_L	1.307	0.99
51_L	93_L	1.307	0.99
25_L	53_L	1.301	0.99
40_F	44_L	1.284	0.98
36_R	263_L	1.283	0.98
97_F	101_L	1.279	0.98
69_S	82_G	1.271	0.98
140_V	163_A	1.271	0.98
153_D	219_Y	1.267	0.98
267_E	271_A	1.257	0.98
31_K	42_H	1.255	0.98
62_A	66_W	1.254	0.98
168_A	208_L	1.251	0.98
144_E	219_Y	1.242	0.98
168_A	211_A	1.235	0.98
295_D	298_A	1.224	0.98
32_V	110_A	1.216	0.98
261_R	299_I	1.213	0.98
264_E	267_E	1.208	0.98
50_T	106_G	1.202	0.98
65_G	86_L	1.192	0.97
239_L	311_L	1.190	0.97
168_A	207_P	1.189	0.97
38_D	43_T	1.186	0.97
279_E	283_G	1.175	0.97
34_R	37_T	1.172	0.97
294_I	299_I	1.162	0.97
19_R	23_R	1.162	0.97
26_E	105_G	1.151	0.97
29_A	111_H	1.137	0.97
260_R	264_E	1.123	0.96
128_W	169_V	1.121	0.96
132_V	162_L	1.111	0.96
264_E	268_A	1.109	0.96
62_A	86_L	1.109	0.96
266_R	269_A	1.106	0.96
35_V	42_H	1.103	0.96
115_P	118_A	1.098	0.96
292_P	299_I	1.093	0.96
50_T	108_A	1.091	0.96
276_E	283_G	1.089	0.96
270_L	274_E	1.087	0.96
98_L	126_L	1.080	0.95
213_L	221_T	1.079	0.95
138_F	322_I	1.073	0.95
32_V	111_H	1.073	0.95
250_L	300_S	1.070	0.95
40_F	249_W	1.066	0.95
260_R	263_L	1.065	0.95
104_P	119_V	1.059	0.95
261_R	264_E	1.059	0.95
75_T	78_S	1.054	0.95
25_L	49_L	1.045	0.95
40_F	107_L	1.041	0.94
210_L	226_L	1.034	0.94
43_T	107_L	1.033	0.94
248_R	252_V	1.031	0.94
139_V	159_A	1.027	0.94
251_L	254_R	1.023	0.94
283_G	287_P	1.018	0.94
246_V	307_L	1.009	0.93
160_F	228_R	1.006	0.93
261_R	265_R	1.006	0.93
23_R	27_R	1.004	0.93
119_V	123_R	1.001	0.93
33_G	37_T	1.001	0.93
284_E	287_P	0.997	0.93
13_L	17_L	0.995	0.93
300_S	304_R	0.992	0.93
219_Y	299_I	0.984	0.93
28_L	49_L	0.983	0.92
106_G	157_R	0.981	0.92
37_T	42_H	0.981	0.92
136_L	163_A	0.972	0.92
267_E	270_L	0.969	0.92
4_F	67_L	0.966	0.92
41_L	45_R	0.965	0.92
239_L	254_R	0.963	0.92
57_L	134_L	0.961	0.92
147_P	153_D	0.960	0.92
276_E	281_E	0.959	0.92
206_L	209_A	0.957	0.91
125_Q	174_L	0.954	0.91
251_L	255_R	0.952	0.91
84_G	88_L	0.951	0.91
63_L	67_L	0.951	0.91
247_L	251_L	0.949	0.91
296_L	299_I	0.945	0.91
136_L	166_A	0.943	0.91
153_D	221_T	0.940	0.91
283_G	314_A	0.940	0.91
175_L	203_L	0.934	0.90
44_L	157_R	0.930	0.90
164_L	211_A	0.928	0.90
310_L	314_A	0.928	0.90
320_W	328_P	0.926	0.90
38_D	56_P	0.925	0.90
331_S	334_D	0.919	0.90
207_P	210_L	0.919	0.90
11_L	15_L	0.919	0.90
52_L	59_L	0.909	0.89
289_V	292_P	0.907	0.89
4_F	63_L	0.905	0.89
81_L	95_L	0.902	0.89
312_L	316_L	0.901	0.89
126_L	170_F	0.900	0.89
8_L	11_L	0.898	0.89
95_L	99_R	0.895	0.88
186_L	201_P	0.892	0.88
249_W	258_A	0.890	0.88
156_G	219_Y	0.887	0.88
302_Q	305_R	0.887	0.88
297_E	305_R	0.886	0.88
213_L	260_R	0.884	0.88
254_R	300_S	0.879	0.88
140_V	159_A	0.878	0.88
224_Q	324_S	0.871	0.87
143_A	239_L	0.870	0.87
25_L	218_Y	0.868	0.87
224_Q	228_R	0.856	0.86
265_R	293_E	0.855	0.86
123_R	127_R	0.851	0.86
28_L	32_V	0.851	0.86
117_A	310_L	0.842	0.85
126_L	131_L	0.842	0.85
293_E	299_I	0.840	0.85
285_E	288_P	0.839	0.85
157_R	214_A	0.830	0.84
128_W	135_P	0.830	0.84
101_L	241_L	0.829	0.84
143_A	151_A	0.827	0.84
158_L	162_L	0.827	0.84
169_V	173_R	0.827	0.84
51_L	97_F	0.826	0.84
44_L	252_V	0.824	0.84
195_L	200_Y	0.820	0.84
25_L	28_L	0.820	0.84
93_L	96_E	0.819	0.84
197_Y	200_Y	0.819	0.84
102_C	114_W	0.810	0.83
220_Y	256_R	0.810	0.83
160_F	219_Y	0.809	0.83
317_V	321_L	0.802	0.82
62_A	89_A	0.801	0.82
61_L	85_L	0.801	0.82
311_L	314_A	0.799	0.82
303_S	306_L	0.797	0.82
238_G	242_L	0.795	0.82
20_R	28_L	0.794	0.82
305_R	333_L	0.793	0.82
137_V	171_L	0.790	0.81
277_E	282_E	0.788	0.81
11_L	14_L	0.786	0.81
299_I	310_L	0.786	0.81
39_S	44_L	0.785	0.81
109_E	120_R	0.785	0.81
138_F	142_L	0.784	0.81
47_L	245_L	0.780	0.81
269_A	272_A	0.779	0.80
104_P	113_R	0.778	0.80
198_L	201_P	0.777	0.80
43_T	112_F	0.775	0.80
304_R	328_P	0.775	0.80
280_G	283_G	0.775	0.80
7_L	142_L	0.771	0.80
44_L	249_W	0.770	0.80
105_G	110_A	0.768	0.80
273_R	278_A	0.764	0.79
250_L	303_S	0.763	0.79
143_A	155_L	0.762	0.79
54_A	97_F	0.760	0.79
180_G	186_L	0.759	0.79
46_A	50_T	0.759	0.79
277_E	284_E	0.758	0.79
228_R	231_D	0.754	0.78
56_P	60_L	0.754	0.78
133_L	163_A	0.747	0.78
212_V	279_E	0.746	0.78
228_R	326_L	0.745	0.77
307_L	320_W	0.744	0.77
206_L	339_W	0.742	0.77
50_T	97_F	0.742	0.77
25_L	71_S	0.742	0.77
277_E	283_G	0.741	0.77
48_L	91_L	0.740	0.77
81_L	84_G	0.735	0.76
229_L	308_R	0.734	0.76
164_L	226_L	0.732	0.76
48_L	51_L	0.731	0.76
28_L	137_V	0.727	0.76
194_R	200_Y	0.727	0.76
135_P	157_R	0.726	0.76
284_E	288_P	0.726	0.76
283_G	286_A	0.725	0.75
314_A	324_S	0.725	0.75
7_L	63_L	0.723	0.75
258_A	296_L	0.719	0.75
221_T	225_L	0.717	0.75
35_V	254_R	0.715	0.74
9_L	75_T	0.710	0.74
268_A	271_A	0.709	0.74
266_R	273_R	0.701	0.73
57_L	92_L	0.701	0.73
153_D	296_L	0.698	0.73
8_L	12_L	0.696	0.72
320_W	330_L	0.695	0.72
121_R	176_R	0.693	0.72
38_D	336_I	0.692	0.72
22_R	59_L	0.690	0.72
193_W	199_W	0.690	0.72
336_I	339_W	0.688	0.72
118_A	121_R	0.686	0.71
179_R	183_A	0.684	0.71
141_A	242_L	0.683	0.71
250_L	253_A	0.683	0.71
50_T	54_A	0.683	0.71
106_G	114_W	0.679	0.71
28_L	42_H	0.679	0.71
124_R	162_L	0.678	0.71
51_L	245_L	0.676	0.70
25_L	228_R	0.676	0.70
45_R	49_L	0.676	0.70
25_L	103_R	0.675	0.70
32_V	43_T	0.673	0.70
177_P	200_Y	0.673	0.70
223_L	226_L	0.672	0.70
144_E	223_L	0.669	0.70
196_R	199_W	0.669	0.70
302_Q	315_F	0.668	0.69
57_L	252_V	0.668	0.69
230_I	234_W	0.667	0.69
234_W	238_G	0.667	0.69
235_L	315_F	0.666	0.69
279_E	284_E	0.666	0.69
182_L	221_T	0.665	0.69
170_F	317_V	0.665	0.69
156_G	159_A	0.662	0.69
144_E	224_Q	0.662	0.69
17_L	21_L	0.661	0.69
179_R	214_A	0.661	0.69
52_L	64_L	0.660	0.68
112_F	179_R	0.656	0.68
114_W	240_L	0.656	0.68
151_A	156_G	0.654	0.68
261_R	296_L	0.653	0.68
126_L	168_A	0.653	0.68
311_L	321_L	0.652	0.68
124_R	216_A	0.648	0.67
326_L	329_A	0.647	0.67
205_L	241_L	0.646	0.67
140_V	219_Y	0.644	0.67
221_T	325_D	0.644	0.67
210_L	222_A	0.643	0.66
21_L	25_L	0.642	0.66
177_P	181_L	0.640	0.66
6_L	13_L	0.639	0.66
38_D	259_L	0.639	0.66
143_A	156_G	0.638	0.66
256_R	297_E	0.638	0.66
82_G	114_W	0.638	0.66
156_G	223_L	0.634	0.65
95_L	130_I	0.633	0.65
11_L	63_L	0.632	0.65
309_T	312_L	0.630	0.65
58_P	126_L	0.629	0.65
307_L	318_G	0.629	0.65
259_L	262_A	0.628	0.65
147_P	150_L	0.628	0.65
82_G	218_Y	0.628	0.65
74_A	82_G	0.626	0.64
53_L	100_R	0.626	0.64
247_L	304_R	0.625	0.64
121_R	241_L	0.625	0.64
20_R	24_R	0.625	0.64
232_T	333_L	0.625	0.64
260_R	309_T	0.623	0.64
107_L	230_I	0.620	0.64
52_L	105_G	0.619	0.64
255_R	259_L	0.619	0.64
231_D	321_L	0.619	0.64
194_R	197_Y	0.618	0.63
317_V	327_L	0.617	0.63
96_E	130_I	0.615	0.63
270_L	275_A	0.615	0.63
26_E	30_E	0.615	0.63
151_A	155_L	0.614	0.63
5_L	19_R	0.612	0.63
226_L	267_E	0.612	0.63
56_P	243_Y	0.606	0.62
96_E	103_R	0.605	0.62
84_G	138_F	0.604	0.62
83_A	87_A	0.602	0.61
23_R	26_E	0.602	0.61
164_L	210_L	0.601	0.61
92_L	134_L	0.601	0.61
40_F	112_F	0.600	0.61
80_A	84_G	0.600	0.61
226_L	247_L	0.600	0.61
15_L	163_A	0.599	0.61
35_V	252_V	0.594	0.60
9_L	13_L	0.594	0.60
232_T	296_L	0.593	0.60
10_L	70_A	0.590	0.60
298_A	330_L	0.590	0.60
28_L	45_R	0.588	0.60
318_G	321_L	0.587	0.59
33_G	259_L	0.586	0.59
15_L	18_R	0.585	0.59
272_A	276_E	0.583	0.59
221_T	268_A	0.582	0.59
299_I	315_F	0.582	0.59
311_L	317_V	0.580	0.59
270_L	273_R	0.579	0.58
307_L	328_P	0.578	0.58
35_V	255_R	0.577	0.58
252_V	298_A	0.577	0.58
89_A	93_L	0.576	0.58
157_R	236_L	0.576	0.58
206_L	229_L	0.576	0.58
179_R	185_L	0.575	0.58
50_T	100_R	0.573	0.58
18_R	244_A	0.572	0.58
9_L	30_E	0.572	0.58
280_G	288_P	0.568	0.57
57_L	88_L	0.568	0.57
296_L	339_W	0.567	0.57
76_P	182_L	0.566	0.57
207_P	228_R	0.566	0.57
255_R	265_R	0.566	0.57
129_L	215_L	0.561	0.56
206_L	211_A	0.560	0.56
63_L	257_L	0.559	0.56
318_G	322_I	0.558	0.56
99_R	130_I	0.557	0.56
154_S	157_R	0.557	0.56
22_R	53_L	0.556	0.55
180_G	232_T	0.556	0.55
33_G	48_L	0.556	0.55
322_I	329_A	0.555	0.55
161_I	220_Y	0.554	0.55
51_L	233_L	0.548	0.54
256_R	261_R	0.547	0.54
197_Y	201_P	0.547	0.54
164_L	230_I	0.546	0.54
176_R	200_Y	0.545	0.54
273_R	277_E	0.544	0.54
189_N	193_W	0.542	0.54
51_L	169_V	0.542	0.54
47_L	97_F	0.541	0.53
29_A	50_T	0.540	0.53
258_A	266_R	0.540	0.53
23_R	61_L	0.539	0.53
37_T	221_T	0.538	0.53
243_Y	308_R	0.538	0.53
117_A	168_A	0.536	0.53
132_V	135_P	0.536	0.53
58_P	157_R	0.535	0.53
295_D	334_D	0.534	0.52
27_R	45_R	0.533	0.52
88_L	138_F	0.533	0.52
30_E	241_L	0.533	0.52
111_H	252_V	0.532	0.52
113_R	133_L	0.532	0.52
91_L	133_L	0.532	0.52
220_Y	224_Q	0.529	0.52
135_P	138_F	0.529	0.52
137_V	147_P	0.529	0.52
291_E	295_D	0.528	0.52
102_C	210_L	0.526	0.51
70_A	127_R	0.525	0.51
39_S	252_V	0.524	0.51
219_Y	226_L	0.524	0.51
52_L	246_V	0.524	0.51
160_F	224_Q	0.522	0.51
202_L	277_E	0.521	0.51
245_L	249_W	0.521	0.51
274_E	288_P	0.521	0.51
40_F	157_R	0.520	0.51
289_V	303_S	0.520	0.51
8_L	29_A	0.518	0.50
184_S	203_L	0.518	0.50
6_L	20_R	0.516	0.50
152_S	160_F	0.515	0.50
35_V	259_L	0.514	0.50
65_G	68_L	0.514	0.50
318_G	328_P	0.513	0.50
315_F	333_L	0.513	0.50
275_A	280_G	0.513	0.50
162_L	165_L	0.513	0.50
77_F	138_F	0.512	0.50
207_P	222_A	0.512	0.50
157_R	160_F	0.512	0.50
325_D	330_L	0.511	0.49
107_L	164_L	0.511	0.49
85_L	190_P	0.509	0.49
209_A	237_L	0.507	0.49
24_R	49_L	0.506	0.49
147_P	221_T	0.506	0.49
54_A	58_P	0.506	0.49
126_L	171_L	0.505	0.49
63_L	170_F	0.505	0.49
54_A	315_F	0.504	0.48
258_A	265_R	0.504	0.48
311_L	330_L	0.503	0.48
114_W	122_L	0.503	0.48
5_L	16_W	0.503	0.48
161_I	216_A	0.502	0.48
261_R	295_D	0.502	0.48
164_L	214_A	0.502	0.48
52_L	60_L	0.502	0.48
11_L	30_E	0.501	0.48
246_V	253_A	0.500	0.48
318_G	329_A	0.500	0.48

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
3wdoA	1	0.7906	58.2	0.95	Contact Map
4m64A	1	0.708	46.1	0.954	Contact Map
4djkA	2	0.7198	25.8	0.96	Contact Map
4pypA	1	0.649	25.3	0.96	Contact Map
3pjsK	4	0.3982	22.1	0.961	Contact Map
4ltoA	3	0.3894	21.4	0.961	Contact Map
3effK	4	0.4071	16.7	0.963	Contact Map
4c7rA	3	0.1062	15	0.964	Contact Map
3w4tA	1	0.7021	13.3	0.965	Contact Map
4o6yA	2	0.5723	7.9	0.968	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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