COIA - BACSU - GREMLIN Contacts

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COIA - Putative competence protein CoiA

UniProt:	O31604	Sequences: MFHLLGAQQNQKLKRRRFFCPVCGGELAVKLGLQKAPHFAHKQNKSCAIDIEPESAYHLEGKRQLYVWLKTQRASPILEPYIRTINQRPDVMARIKEHMLAVEYQCATIAPDVFQKRTEGFKQEGIIPQWIMGYSRLKRTASSFYQLSTFHWQFINASPYRELICYCPERRSFLRLSHIIPFYTNHSYSSVQTIPIHRAGAGDLFFTEPKPSIQYSGWTKAIHRFRHKPHRFNSKETNRLRLLFYEKRQTPFSFLPTEVFVPVRKGAVFKSPVFVWQGFLYLFMTDLGGKRAPIRFSAVLQQCKLHIHNKNIALRSECSEECLSEAVKQYIDFLCKKGFLRETQKEVYVLNQPAGGIHSMQDLIERDRSCFIE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	373 (321)
Sequences:	332 (282)
Seq/√Len:	15.7

BACSU - COIA

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
87_Q	120_G	5.350	1.00
64_Q	166_Y	4.534	1.00
61_G	104_Y	3.768	1.00
113_V	116_K	3.742	1.00
61_G	106_C	3.717	1.00
9_Q	12_K	3.553	0.99
52_E	59_L	3.543	0.99
30_K	38_H	3.421	0.99
76_P	91_V	3.228	0.99
82_I	92_M	2.919	0.98
106_C	133_G	2.909	0.98
80_P	92_M	2.841	0.97
26_E	42_K	2.747	0.97
20_C	23_C	2.703	0.96
260_F	277_Q	2.648	0.96
32_G	38_H	2.527	0.95
12_K	18_F	2.485	0.94
222_I	226_R	2.432	0.94
132_M	154_F	2.407	0.93
82_I	89_P	2.230	0.90
69_L	93_A	2.186	0.89
101_A	126_I	2.146	0.88
55_S	89_P	2.144	0.88
9_Q	13_L	2.069	0.86
256_P	334_L	2.030	0.85
85_I	124_E	1.988	0.84
23_C	41_H	1.907	0.81
92_M	121_F	1.880	0.80
69_L	179_I	1.873	0.80
277_Q	330_Y	1.824	0.78
265_K	329_Q	1.823	0.78
53_P	78_L	1.817	0.78
103_E	130_W	1.813	0.78
105_Q	130_W	1.813	0.78
90_D	105_Q	1.813	0.78
90_D	130_W	1.813	0.78
90_D	103_E	1.813	0.78
23_C	39_F	1.806	0.78
78_L	104_Y	1.796	0.77
27_L	37_P	1.781	0.76
89_P	92_M	1.771	0.76
20_C	41_H	1.750	0.75
80_P	89_P	1.734	0.74
62_K	79_E	1.728	0.74
107_A	335_C	1.715	0.74
269_F	326_A	1.696	0.73
76_P	93_A	1.695	0.73
54_E	62_K	1.669	0.72
52_E	106_C	1.666	0.71
20_C	39_F	1.643	0.70
194_I	204_L	1.627	0.70
101_A	120_G	1.592	0.68
57_Y	167_C	1.588	0.68
263_V	269_F	1.585	0.67
109_I	114_F	1.577	0.67
218_W	262_P	1.544	0.65
13_L	18_F	1.533	0.65
58_H	130_W	1.529	0.65
58_H	105_Q	1.529	0.65
58_H	103_E	1.529	0.65
58_H	90_D	1.529	0.65
68_W	72_Q	1.524	0.64
91_V	152_W	1.503	0.63
30_K	35_K	1.498	0.63
18_F	29_V	1.493	0.63
104_Y	166_Y	1.488	0.62
79_E	105_Q	1.480	0.62
79_E	130_W	1.480	0.62
79_E	90_D	1.480	0.62
79_E	103_E	1.480	0.62
38_H	47_C	1.474	0.62
131_I	173_F	1.473	0.62
109_I	129_Q	1.472	0.62
89_P	101_A	1.470	0.61
93_A	100_L	1.459	0.61
54_E	79_E	1.452	0.60
64_Q	171_R	1.450	0.60
54_E	58_H	1.448	0.60
9_Q	31_L	1.445	0.60
41_H	58_H	1.439	0.60
47_C	121_F	1.420	0.59
145_Y	176_L	1.406	0.58
152_W	176_L	1.403	0.58
101_A	128_P	1.396	0.57
260_F	276_W	1.369	0.56
41_H	54_E	1.347	0.55
81_Y	85_I	1.345	0.54
39_F	58_H	1.344	0.54
242_L	246_E	1.326	0.53
70_K	248_R	1.309	0.52
9_Q	18_F	1.305	0.52
30_K	52_E	1.294	0.51
105_Q	117_R	1.288	0.51
117_R	130_W	1.288	0.51
90_D	117_R	1.288	0.51
103_E	117_R	1.288	0.51
23_C	58_H	1.280	0.51
55_S	107_A	1.280	0.51
61_G	166_Y	1.278	0.51
27_L	70_K	1.273	0.50
23_C	32_G	1.262	0.50
32_G	47_C	1.256	0.49
39_F	54_E	1.249	0.49
263_V	277_Q	1.248	0.49
165_C	269_F	1.247	0.49
88_R	256_P	1.241	0.48
61_G	165_C	1.222	0.47
87_Q	101_A	1.222	0.47
240_L	269_F	1.215	0.47
62_K	117_R	1.199	0.46
58_H	79_E	1.196	0.46
166_Y	173_F	1.190	0.46
23_C	54_E	1.187	0.45
25_G	45_K	1.186	0.45
27_L	125_G	1.185	0.45
55_S	326_A	1.167	0.44
150_F	330_Y	1.160	0.44
57_Y	168_P	1.160	0.44
32_G	41_H	1.155	0.44
20_C	58_H	1.150	0.43
55_S	283_F	1.149	0.43
109_I	126_I	1.148	0.43
226_R	244_F	1.140	0.43
120_G	276_W	1.110	0.41
87_Q	109_I	1.110	0.41
168_P	173_F	1.109	0.41
317_E	331_I	1.102	0.41
104_Y	168_P	1.099	0.40
276_W	330_Y	1.098	0.40
34_Q	37_P	1.093	0.40
152_W	255_L	1.089	0.40
20_C	32_G	1.080	0.39
168_P	277_Q	1.076	0.39
269_F	303_C	1.070	0.39
58_H	107_A	1.064	0.38
81_Y	89_P	1.064	0.38
88_R	262_P	1.054	0.38
20_C	54_E	1.053	0.38
259_V	281_Y	1.050	0.38
91_V	216_S	1.048	0.38
41_H	117_R	1.046	0.38
151_H	278_G	1.046	0.38
9_Q	262_P	1.045	0.37
118_T	128_P	1.040	0.37
78_L	128_P	1.037	0.37
136_R	165_C	1.036	0.37
261_V	277_Q	1.033	0.37
23_C	117_R	1.029	0.37
32_G	39_F	1.025	0.36
90_D	107_A	1.012	0.36
103_E	107_A	1.012	0.36
107_A	130_W	1.012	0.36
229_P	241_R	1.009	0.36
85_I	120_G	1.007	0.35
58_H	117_R	1.004	0.35
61_G	88_R	1.003	0.35
88_R	133_G	1.001	0.35
149_T	252_F	0.994	0.35
179_I	294_I	0.992	0.35
56_A	125_G	0.991	0.35
89_P	121_F	0.991	0.35
25_G	179_I	0.991	0.35
62_K	130_W	0.991	0.35
62_K	103_E	0.991	0.35
62_K	105_Q	0.991	0.35
62_K	90_D	0.991	0.35
126_I	129_Q	0.990	0.35
312_I	315_R	0.989	0.34
53_P	255_L	0.989	0.34
109_I	113_V	0.982	0.34
38_H	41_H	0.970	0.34
39_F	117_R	0.965	0.33
57_Y	135_S	0.965	0.33
79_E	117_R	0.960	0.33
91_V	135_S	0.956	0.33
161_R	226_R	0.956	0.33
18_F	66_Y	0.938	0.32
27_L	68_W	0.936	0.32
218_W	226_R	0.936	0.32
77_I	80_P	0.934	0.32
21_P	89_P	0.934	0.32
164_I	269_F	0.931	0.32
61_G	276_W	0.931	0.32
183_Y	252_F	0.930	0.31
172_S	193_T	0.928	0.31
88_R	106_C	0.927	0.31
164_I	266_G	0.926	0.31
181_P	315_R	0.924	0.31
69_L	164_I	0.924	0.31
158_S	205_F	0.921	0.31
101_A	129_Q	0.920	0.31
21_P	58_H	0.919	0.31
79_E	245_Y	0.918	0.31
53_P	266_G	0.918	0.31
54_E	117_R	0.915	0.31
155_I	179_I	0.913	0.31
20_C	117_R	0.911	0.31
109_I	287_L	0.910	0.31
203_D	212_S	0.907	0.30
260_F	273_V	0.906	0.30
23_C	27_L	0.905	0.30
177_S	201_A	0.903	0.30
104_Y	109_I	0.897	0.30
225_F	266_G	0.894	0.30
76_P	114_F	0.883	0.29
82_I	126_I	0.879	0.29
27_L	102_V	0.877	0.29
61_G	65_L	0.867	0.28
240_L	275_V	0.867	0.28
22_V	50_D	0.861	0.28
61_G	256_P	0.856	0.28
21_P	41_H	0.856	0.28
13_L	131_I	0.856	0.28
131_I	172_S	0.853	0.28
240_L	278_G	0.848	0.28
82_I	123_Q	0.846	0.27
41_H	105_Q	0.844	0.27
41_H	130_W	0.844	0.27
41_H	90_D	0.844	0.27
41_H	103_E	0.844	0.27
131_I	160_Y	0.840	0.27
109_I	252_F	0.836	0.27
40_A	277_Q	0.835	0.27
256_P	272_P	0.828	0.27
166_Y	276_W	0.826	0.27
57_Y	85_I	0.823	0.26
23_C	130_W	0.822	0.26
23_C	105_Q	0.822	0.26
23_C	90_D	0.822	0.26
23_C	103_E	0.822	0.26
164_I	175_R	0.819	0.26
22_V	123_Q	0.819	0.26
245_Y	255_L	0.816	0.26
102_V	242_L	0.814	0.26
258_E	271_S	0.813	0.26
100_L	308_H	0.813	0.26
99_M	126_I	0.812	0.26
255_L	281_Y	0.811	0.26
132_M	176_L	0.810	0.26
155_I	196_I	0.809	0.26
224_R	303_C	0.802	0.26
29_V	55_S	0.794	0.25
164_I	276_W	0.791	0.25
102_V	207_T	0.790	0.25
238_N	274_F	0.790	0.25
89_P	126_I	0.784	0.25
18_F	262_P	0.783	0.25
30_K	259_V	0.783	0.25
206_F	214_Q	0.783	0.25
66_Y	149_T	0.782	0.25
82_I	121_F	0.781	0.25
47_C	106_C	0.779	0.25
47_C	262_P	0.776	0.24
52_E	88_R	0.776	0.24
91_V	164_I	0.773	0.24
36_A	63_R	0.770	0.24
165_C	275_V	0.770	0.24
329_Q	338_G	0.768	0.24
18_F	31_L	0.767	0.24
55_S	175_R	0.767	0.24
183_Y	277_Q	0.767	0.24
150_F	154_F	0.760	0.24
37_P	154_F	0.759	0.24
22_V	49_I	0.758	0.24
121_F	256_P	0.758	0.24
183_Y	260_F	0.758	0.24
104_Y	126_I	0.758	0.24
39_F	103_E	0.757	0.24
39_F	90_D	0.757	0.24
39_F	105_Q	0.757	0.24
39_F	130_W	0.757	0.24
226_R	237_T	0.755	0.24
69_L	76_P	0.754	0.23
41_H	62_K	0.754	0.23
155_I	242_L	0.747	0.23
324_S	336_K	0.743	0.23
93_A	233_N	0.742	0.23
47_C	59_L	0.736	0.23
155_I	238_N	0.732	0.23
156_N	211_P	0.730	0.22
26_E	179_I	0.730	0.22
78_L	134_Y	0.730	0.22
23_C	62_K	0.730	0.22
179_I	187_S	0.727	0.22
240_L	244_F	0.727	0.22
39_F	107_A	0.725	0.22
181_P	266_G	0.724	0.22
65_L	194_I	0.723	0.22
46_S	86_N	0.719	0.22
26_E	36_A	0.717	0.22
25_G	132_M	0.715	0.22
19_F	155_I	0.712	0.22
156_N	166_Y	0.711	0.22
126_I	204_L	0.711	0.22
218_W	315_R	0.709	0.22
51_I	104_Y	0.709	0.22
83_R	209_P	0.706	0.22
134_Y	243_L	0.706	0.22
9_Q	29_V	0.706	0.22
165_C	222_I	0.705	0.22
182_F	188_Y	0.705	0.22
258_E	281_Y	0.705	0.22
54_E	103_E	0.705	0.22
54_E	90_D	0.705	0.22
54_E	130_W	0.705	0.22
54_E	105_Q	0.705	0.22
58_H	62_K	0.705	0.22
155_I	295_R	0.704	0.21
240_L	273_V	0.704	0.21
256_P	262_P	0.703	0.21
20_C	103_E	0.700	0.21
20_C	105_Q	0.700	0.21
20_C	90_D	0.700	0.21
20_C	130_W	0.700	0.21
30_K	40_A	0.700	0.21
163_L	254_F	0.697	0.21
252_F	272_P	0.696	0.21
199_A	204_L	0.694	0.21
275_V	278_G	0.693	0.21
38_H	58_H	0.689	0.21
23_C	38_H	0.687	0.21
38_H	277_Q	0.686	0.21
119_E	220_K	0.686	0.21
108_T	189_S	0.684	0.21
37_P	101_A	0.684	0.21
117_R	121_F	0.684	0.21
15_R	123_Q	0.679	0.21
268_V	295_R	0.677	0.20
20_C	27_L	0.676	0.20
10_N	16_R	0.671	0.20
15_R	239_R	0.668	0.20
183_Y	273_V	0.667	0.20
47_C	88_R	0.666	0.20
116_K	225_F	0.665	0.20
36_A	92_M	0.664	0.20
39_F	62_K	0.663	0.20
50_D	244_F	0.663	0.20
104_Y	173_F	0.662	0.20
30_K	224_R	0.662	0.20
30_K	84_T	0.660	0.20
238_N	255_L	0.660	0.20
241_R	272_P	0.659	0.20
152_W	260_F	0.658	0.20
62_K	245_Y	0.656	0.20
317_E	323_L	0.655	0.20
266_G	277_Q	0.653	0.20
85_I	118_T	0.652	0.20
21_P	90_D	0.651	0.19
21_P	130_W	0.651	0.19
21_P	105_Q	0.651	0.19
21_P	103_E	0.651	0.19
29_V	59_L	0.651	0.19
152_W	187_S	0.650	0.19
21_P	39_F	0.650	0.19
237_T	260_F	0.648	0.19
237_T	241_R	0.648	0.19
131_I	294_I	0.643	0.19
107_A	110_A	0.641	0.19
189_S	277_Q	0.640	0.19
76_P	227_H	0.639	0.19
156_N	164_I	0.636	0.19
89_P	338_G	0.634	0.19
202_G	208_E	0.632	0.19
104_Y	194_I	0.628	0.19
280_L	299_V	0.626	0.19
148_S	228_K	0.626	0.19
151_H	275_V	0.626	0.19
244_F	278_G	0.623	0.18
26_E	306_H	0.622	0.18
106_C	118_T	0.622	0.18
183_Y	258_E	0.621	0.18
276_W	334_L	0.621	0.18
82_I	173_F	0.620	0.18
181_P	260_F	0.620	0.18
12_K	196_I	0.618	0.18
261_V	333_F	0.618	0.18
128_P	262_P	0.617	0.18
222_I	225_F	0.616	0.18
66_Y	150_F	0.614	0.18
240_L	266_G	0.614	0.18
88_R	121_F	0.613	0.18
59_L	107_A	0.611	0.18
35_K	315_R	0.607	0.18
104_Y	164_I	0.605	0.18
40_A	154_F	0.604	0.18
20_C	62_K	0.603	0.18
258_E	299_V	0.601	0.18
99_M	234_S	0.601	0.18
92_M	126_I	0.600	0.18
157_A	230_H	0.598	0.18
230_H	333_F	0.597	0.18
128_P	266_G	0.597	0.18
82_I	86_N	0.596	0.18
29_V	244_F	0.595	0.18
333_F	336_K	0.589	0.17
107_A	117_R	0.588	0.17
22_V	83_R	0.583	0.17
71_T	115_Q	0.583	0.17
163_L	176_L	0.582	0.17
16_R	55_S	0.582	0.17
86_N	198_R	0.580	0.17
25_G	221_A	0.579	0.17
254_F	278_G	0.578	0.17
69_L	194_I	0.577	0.17
55_S	240_L	0.577	0.17
100_L	205_F	0.574	0.17
17_R	186_H	0.572	0.17
241_R	252_F	0.568	0.17
113_V	150_F	0.568	0.17
183_Y	222_I	0.565	0.17
226_R	238_N	0.564	0.17
79_E	107_A	0.564	0.17
60_E	304_K	0.562	0.16
18_F	118_T	0.559	0.16
89_P	284_M	0.556	0.16
222_I	252_F	0.556	0.16
241_R	260_F	0.555	0.16
255_L	259_V	0.554	0.16
34_Q	331_I	0.553	0.16
79_E	87_Q	0.550	0.16
108_T	150_F	0.550	0.16
18_F	315_R	0.546	0.16
133_G	165_C	0.545	0.16
24_G	48_A	0.544	0.16
107_A	225_F	0.544	0.16
76_P	222_I	0.544	0.16
184_T	260_F	0.543	0.16
24_G	223_H	0.542	0.16
225_F	236_E	0.542	0.16
65_L	76_P	0.541	0.16
94_R	99_M	0.541	0.16
229_P	238_N	0.538	0.16
271_S	310_K	0.537	0.16
213_I	303_C	0.537	0.16
150_F	271_S	0.536	0.16
27_L	325_E	0.534	0.16
82_I	188_Y	0.534	0.16
94_R	196_I	0.530	0.15
57_Y	139_R	0.530	0.15
55_S	200_G	0.529	0.15
121_F	252_F	0.528	0.15
155_I	241_R	0.528	0.15
76_P	94_R	0.527	0.15
223_H	271_S	0.527	0.15
175_R	179_I	0.526	0.15
123_Q	153_Q	0.526	0.15
248_R	288_G	0.524	0.15
27_L	267_A	0.524	0.15
39_F	55_S	0.522	0.15
146_Q	205_F	0.522	0.15
91_V	126_I	0.521	0.15
155_I	336_K	0.521	0.15
104_Y	199_A	0.520	0.15
53_P	170_R	0.519	0.15
24_G	46_S	0.519	0.15
91_V	226_R	0.518	0.15
165_C	176_L	0.516	0.15
137_L	183_Y	0.516	0.15
266_G	326_A	0.515	0.15
326_A	330_Y	0.515	0.15
81_Y	277_Q	0.514	0.15
24_G	70_K	0.514	0.15
89_P	155_I	0.514	0.15
41_H	79_E	0.514	0.15
27_L	110_A	0.514	0.15
145_Y	186_H	0.513	0.15
32_G	58_H	0.512	0.15
329_Q	335_C	0.511	0.15
152_W	248_R	0.509	0.15
87_Q	106_C	0.508	0.15
20_C	38_H	0.508	0.15
34_Q	163_L	0.507	0.15
30_K	154_F	0.506	0.15
216_S	233_N	0.506	0.15
52_E	87_Q	0.505	0.15
89_P	106_C	0.504	0.15
30_K	59_L	0.503	0.15
262_P	277_Q	0.502	0.15
189_S	260_F	0.501	0.15
70_K	125_G	0.501	0.15
56_A	86_N	0.500	0.15
55_S	241_R	0.500	0.15

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
3dnxA	2	0.3887	60	0.959	Contact Map
1vq8Z	1	0.1475	34.5	0.964	Contact Map
2fiyA	1	0.3217	33.2	0.965	Contact Map
3j20Y	1	0.118	27.8	0.966	Contact Map
1weuA	1	0.0831	20.9	0.968	Contact Map
3cc2Z	1	0.1689	20.3	0.968	Contact Map
1wenA	1	0.0831	18.3	0.969	Contact Map
2k4xA	1	0.1287	17.4	0.969	Contact Map
1dxgA	2	0.0965	16.7	0.969	Contact Map
3r3pA	3	0.2493	16.1	0.97	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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