COFH - HALSA - GREMLIN Contacts

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COFH - FO synthase subunit 2

UniProt:	Q9HNU8	Sequences: MTDASALDFDVVPSTDQSFENALANARDGRRLTVADGIELITTGTDTDGIDPRRKELVLEAADRRRADVVGDDVTFVANLNNNVTTACNTGCLFCNFKDTAHRFETEHEAAHGGFTKTPAESKATVADAIQRGVSEVTSVSGLHPAFGLNEAHRDALDPDDPDHNYKPPEAYDTDPTTYAAQIAAMSEAGAHVHSITPEEAHHAQRGVSWGYDEVYETLADAGLDTVPGTAAEILVDEVRDVICPGKMTTDEWVAAMEAAADAGLGTTATIMYGHVENAAHRIHHLDVIRALQDRTHNITEFVPLSFIHEQTPLYERGVVDGGASDAEDELMIAVSRLFLDNIDHIQSSWVKFGDAKGLALLNCGADDFMGTILSEEITKRAGGQHGEFRSVADYAEMISAIGRTPVERSTDYTTRHVINPDADTIGPHVGPNADGTPLVSERAGTPPHSAGD	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	453 (354)
Sequences:	2263 (1217)
Seq/√Len:	64.7

ECOLI - THIH BIOB
HALSA - COFH COFG

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
258_E	295_R	7.362	1.00
345_H	367_D	5.184	1.00
238_E	281_H	4.686	1.00
410_S	414_T	4.477	1.00
213_D	262_D	3.812	1.00
153_H	218_T	3.639	1.00
287_D	339_F	3.489	1.00
32_L	338_L	3.054	1.00
63_D	67_A	3.011	1.00
65_R	338_L	3.007	1.00
187_S	225_D	2.890	1.00
61_A	338_L	2.873	1.00
183_I	196_I	2.737	1.00
278_N	281_H	2.719	1.00
76_F	396_A	2.698	1.00
31_R	294_D	2.548	1.00
37_G	339_F	2.517	1.00
135_S	408_E	2.510	1.00
258_E	292_L	2.283	1.00
198_P	257_M	2.216	1.00
25_N	36_D	2.168	1.00
249_T	252_E	2.160	1.00
41_I	335_V	2.140	1.00
23_L	61_A	2.138	1.00
273_Y	329_D	2.132	1.00
129_A	134_V	2.117	1.00
236_V	281_H	2.113	1.00
20_E	57_L	2.098	1.00
254_V	292_L	2.097	1.00
282_R	332_M	2.027	1.00
254_V	288_V	2.019	1.00
333_I	361_L	1.977	1.00
31_R	341_D	1.976	1.00
99_D	113_G	1.967	1.00
34_V	284_H	1.912	1.00
269_A	289_I	1.907	1.00
118_T	121_E	1.902	1.00
42_T	280_A	1.845	1.00
287_D	291_A	1.842	1.00
213_D	217_E	1.822	1.00
213_D	259_A	1.818	1.00
121_E	124_A	1.804	1.00
34_V	287_D	1.793	1.00
124_A	127_A	1.789	1.00
202_H	252_E	1.788	1.00
251_D	255_A	1.782	1.00
369_F	395_Y	1.752	1.00
91_G	100_T	1.750	1.00
328_E	332_M	1.742	1.00
59_L	364_C	1.736	1.00
37_G	287_D	1.730	0.99
255_A	259_A	1.719	0.99
345_H	366_A	1.708	0.99
399_I	406_P	1.706	0.99
330_E	361_L	1.698	0.99
294_D	341_D	1.698	0.99
69_V	344_D	1.692	0.99
251_D	288_V	1.671	0.99
67_A	72_D	1.661	0.99
27_R	64_R	1.651	0.99
117_K	125_T	1.644	0.99
101_A	146_A	1.643	0.99
64_R	68_D	1.628	0.99
123_K	185_A	1.621	0.99
150_N	154_R	1.599	0.99
75_T	407_V	1.592	0.99
220_A	265_L	1.580	0.99
237_D	251_D	1.547	0.99
37_G	283_I	1.545	0.99
23_L	26_A	1.533	0.99
34_V	38_I	1.532	0.99
38_I	283_I	1.531	0.99
396_A	400_S	1.530	0.99
212_Y	256_A	1.518	0.99
218_T	221_D	1.503	0.99
400_S	406_P	1.501	0.99
407_V	415_T	1.486	0.98
150_N	153_H	1.481	0.98
34_V	283_I	1.481	0.98
24_A	28_D	1.476	0.98
19_F	39_E	1.475	0.98
194_H	349_S	1.468	0.98
127_A	131_Q	1.461	0.98
41_I	332_M	1.445	0.98
116_T	147_F	1.441	0.98
210_W	218_T	1.408	0.98
87_A	116_T	1.400	0.98
122_S	182_Q	1.398	0.98
289_I	343_I	1.397	0.98
123_K	127_A	1.385	0.98
252_E	255_A	1.376	0.97
226_T	266_G	1.374	0.97
236_V	284_H	1.372	0.97
25_N	30_R	1.369	0.97
33_T	36_D	1.366	0.97
238_E	278_N	1.360	0.97
325_S	328_E	1.342	0.97
144_H	203_H	1.342	0.97
43_T	58_V	1.337	0.97
69_V	341_D	1.334	0.97
312_T	315_Y	1.333	0.97
212_Y	259_A	1.326	0.97
66_R	404_R	1.325	0.97
397_E	401_A	1.315	0.97
211_G	214_E	1.304	0.96
330_E	360_A	1.293	0.96
137_V	186_M	1.290	0.96
84_V	141_S	1.285	0.96
148_G	151_E	1.284	0.96
73_D	407_V	1.281	0.96
282_R	328_E	1.279	0.96
361_L	366_A	1.269	0.96
356_A	359_L	1.254	0.95
65_R	68_D	1.253	0.95
149_L	153_H	1.246	0.95
63_D	404_R	1.245	0.95
202_H	206_R	1.241	0.95
261_A	298_N	1.232	0.95
34_V	339_F	1.220	0.95
196_I	204_A	1.216	0.95
90_T	143_L	1.214	0.95
375_S	378_I	1.204	0.94
394_D	397_E	1.202	0.94
236_V	239_V	1.199	0.94
217_E	220_A	1.196	0.94
38_I	280_A	1.194	0.94
135_S	411_T	1.191	0.94
73_D	415_T	1.181	0.94
234_I	271_I	1.174	0.94
258_E	262_D	1.171	0.94
126_V	186_M	1.158	0.93
21_N	39_E	1.150	0.93
74_V	362_L	1.148	0.93
363_N	402_I	1.142	0.93
312_T	316_E	1.141	0.93
254_V	258_E	1.136	0.92
187_S	193_V	1.123	0.92
204_A	215_V	1.111	0.92
151_E	154_R	1.106	0.91
124_A	128_D	1.102	0.91
201_A	224_L	1.101	0.91
63_D	66_R	1.101	0.91
392_V	396_A	1.095	0.91
348_S	358_G	1.091	0.91
64_R	67_A	1.089	0.91
44_G	331_L	1.086	0.91
128_D	131_Q	1.080	0.90
347_Q	370_M	1.079	0.90
373_I	378_I	1.079	0.90
373_I	377_E	1.072	0.90
237_D	250_T	1.068	0.90
185_A	188_E	1.065	0.90
374_L	378_I	1.065	0.90
212_Y	255_A	1.064	0.90
81_N	370_M	1.058	0.89
216_Y	227_V	1.054	0.89
140_V	197_T	1.049	0.89
217_E	263_A	1.046	0.89
292_L	296_T	1.039	0.89
35_A	280_A	1.039	0.89
86_T	99_D	1.038	0.89
227_V	267_T	1.036	0.88
149_L	208_V	1.021	0.88
392_V	408_E	1.016	0.87
214_E	217_E	1.013	0.87
76_F	416_R	1.010	0.87
216_Y	263_A	1.004	0.87
82_N	137_V	0.995	0.86
125_T	375_S	0.992	0.86
311_Q	314_L	0.991	0.86
83_N	376_E	0.989	0.86
283_I	339_F	0.988	0.86
79_N	136_E	0.985	0.86
326_D	356_A	0.980	0.86
291_A	295_R	0.972	0.85
242_V	276_V	0.964	0.85
60_E	64_R	0.963	0.85
138_T	370_M	0.962	0.84
72_D	404_R	0.959	0.84
63_D	363_N	0.957	0.84
149_L	218_T	0.955	0.84
238_E	242_V	0.948	0.84
139_S	182_Q	0.942	0.83
26_A	61_A	0.942	0.83
43_T	331_L	0.934	0.83
96_N	312_T	0.931	0.82
235_L	284_H	0.930	0.82
24_A	27_R	0.922	0.82
119_P	123_K	0.919	0.82
80_L	134_V	0.918	0.82
93_L	242_V	0.917	0.81
271_I	332_M	0.917	0.81
116_T	144_H	0.916	0.81
149_L	152_A	0.914	0.81
66_R	70_V	0.910	0.81
268_T	370_M	0.905	0.81
126_V	134_V	0.904	0.81
77_V	135_S	0.904	0.81
239_V	276_V	0.903	0.80
127_A	130_I	0.899	0.80
37_G	335_V	0.897	0.80
77_V	300_T	0.896	0.80
260_A	267_T	0.893	0.80
41_I	279_A	0.891	0.80
76_F	407_V	0.890	0.80
130_I	191_A	0.885	0.79
203_H	207_G	0.884	0.79
186_M	193_V	0.883	0.79
236_V	276_V	0.882	0.79
270_T	305_L	0.879	0.79
137_V	193_V	0.878	0.79
258_E	296_T	0.877	0.79
84_V	196_I	0.876	0.78
78_A	408_E	0.876	0.78
82_N	126_V	0.874	0.78
273_Y	282_R	0.868	0.78
359_L	398_M	0.868	0.78
279_A	332_M	0.868	0.78
150_N	218_T	0.867	0.78
260_A	263_A	0.862	0.77
119_P	185_A	0.861	0.77
194_H	347_Q	0.860	0.77
149_L	204_A	0.860	0.77
80_L	375_S	0.859	0.77
391_S	394_D	0.859	0.77
76_F	415_T	0.857	0.77
250_T	288_V	0.856	0.77
271_I	285_H	0.851	0.76
257_M	269_A	0.848	0.76
72_D	405_T	0.848	0.76
235_L	288_V	0.845	0.76
100_T	111_A	0.845	0.76
269_A	343_I	0.844	0.76
70_V	367_D	0.844	0.76
286_L	336_S	0.844	0.76
283_I	287_D	0.843	0.76
147_F	151_E	0.839	0.75
305_L	378_I	0.836	0.75
83_N	140_V	0.836	0.75
259_A	262_D	0.833	0.75
184_A	221_D	0.832	0.75
326_D	357_K	0.830	0.75
75_T	347_Q	0.828	0.74
74_V	399_I	0.828	0.74
149_L	215_V	0.826	0.74
82_N	122_S	0.825	0.74
217_E	221_D	0.823	0.74
119_P	154_R	0.819	0.74
42_T	279_A	0.818	0.74
90_T	199_E	0.818	0.74
58_V	331_L	0.818	0.74
32_L	37_G	0.814	0.73
310_E	385_Q	0.813	0.73
238_E	280_A	0.809	0.73
213_D	263_A	0.805	0.72
97_F	115_F	0.804	0.72
140_V	305_L	0.802	0.72
262_D	295_R	0.800	0.72
140_V	370_M	0.800	0.72
266_G	344_D	0.800	0.72
69_V	343_I	0.796	0.71
269_A	299_I	0.795	0.71
400_S	405_T	0.787	0.71
280_A	284_H	0.787	0.71
90_T	246_G	0.787	0.71
80_L	129_A	0.784	0.70
85_T	234_I	0.782	0.70
91_G	98_K	0.781	0.70
308_I	379_T	0.779	0.70
192_H	226_T	0.776	0.70
45_T	57_L	0.776	0.70
149_L	210_W	0.776	0.70
349_S	370_M	0.776	0.70
348_S	366_A	0.773	0.69
372_T	399_I	0.772	0.69
184_A	188_E	0.771	0.69
261_A	296_T	0.768	0.69
18_S	21_N	0.767	0.69
192_H	228_P	0.766	0.69
258_E	291_A	0.764	0.68
197_T	200_E	0.764	0.68
27_R	61_A	0.764	0.68
324_A	329_D	0.763	0.68
138_T	349_S	0.757	0.68
136_E	411_T	0.757	0.68
309_H	314_L	0.757	0.68
260_A	265_L	0.757	0.68
311_Q	316_E	0.757	0.68
259_A	263_A	0.755	0.67
32_L	287_D	0.754	0.67
148_G	152_A	0.753	0.67
21_N	24_A	0.753	0.67
220_A	263_A	0.750	0.67
308_I	323_G	0.746	0.66
41_I	283_I	0.746	0.66
141_S	152_A	0.745	0.66
206_R	252_E	0.742	0.66
144_H	147_F	0.739	0.66
371_G	376_E	0.737	0.66
303_V	340_L	0.737	0.66
279_A	282_R	0.735	0.65
20_E	28_D	0.732	0.65
309_H	323_G	0.732	0.65
143_L	199_E	0.729	0.65
81_N	140_V	0.729	0.65
140_V	194_H	0.729	0.65
45_T	58_V	0.727	0.64
286_L	289_I	0.726	0.64
17_Q	20_E	0.726	0.64
76_F	392_V	0.725	0.64
38_I	42_T	0.722	0.64
22_A	39_E	0.722	0.64
81_N	352_K	0.717	0.63
286_L	340_L	0.716	0.63
194_H	272_M	0.712	0.63
183_I	193_V	0.710	0.63
268_T	347_Q	0.709	0.63
141_S	147_F	0.709	0.63
327_A	364_C	0.708	0.62
352_K	379_T	0.705	0.62
313_P	316_E	0.704	0.62
257_M	289_I	0.701	0.62
44_G	58_V	0.700	0.62
55_K	327_A	0.699	0.61
59_L	330_E	0.699	0.61
73_D	405_T	0.698	0.61
273_Y	324_A	0.696	0.61
138_T	347_Q	0.696	0.61
30_R	36_D	0.695	0.61
314_L	317_R	0.695	0.61
239_V	281_H	0.690	0.60
84_V	122_S	0.690	0.60
306_S	324_A	0.690	0.60
81_N	349_S	0.690	0.60
184_A	187_S	0.686	0.60
77_V	194_H	0.685	0.60
81_N	373_I	0.682	0.60
272_M	275_H	0.681	0.59
268_T	411_T	0.680	0.59
148_G	154_R	0.676	0.59
310_E	315_Y	0.676	0.59
194_H	197_T	0.676	0.59
226_T	411_T	0.675	0.59
126_V	129_A	0.675	0.59
301_E	352_K	0.675	0.59
34_V	37_G	0.672	0.58
290_R	294_D	0.672	0.58
351_V	370_M	0.672	0.58
138_T	194_H	0.670	0.58
81_N	347_Q	0.667	0.58
126_V	191_A	0.667	0.58
57_L	401_A	0.667	0.58
76_F	417_H	0.666	0.58
253_W	269_A	0.666	0.58
194_H	370_M	0.665	0.58
201_A	227_V	0.665	0.58
201_A	205_Q	0.662	0.57
27_R	57_L	0.662	0.57
187_S	190_G	0.661	0.57
122_S	186_M	0.660	0.57
214_E	218_T	0.659	0.57
81_N	268_T	0.658	0.57
101_A	114_G	0.658	0.57
183_I	204_A	0.657	0.57
98_K	114_G	0.657	0.57
305_L	379_T	0.656	0.57
250_T	254_V	0.655	0.56
22_A	26_A	0.654	0.56
192_H	225_D	0.651	0.56
371_G	377_E	0.650	0.56
399_I	405_T	0.648	0.56
371_G	375_S	0.647	0.56
83_N	143_L	0.643	0.55
34_V	290_R	0.642	0.55
227_V	260_A	0.642	0.55
227_V	265_L	0.642	0.55
100_T	110_A	0.641	0.55
226_T	412_D	0.641	0.55
243_I	276_V	0.638	0.55
268_T	349_S	0.638	0.55
371_G	378_I	0.634	0.54
55_K	331_L	0.634	0.54
84_V	152_A	0.633	0.54
210_W	214_E	0.633	0.54
36_D	338_L	0.633	0.54
294_D	342_N	0.633	0.54
261_A	267_T	0.629	0.53
352_K	370_M	0.628	0.53
26_A	65_R	0.626	0.53
58_V	335_V	0.626	0.53
154_R	185_A	0.625	0.53
140_V	228_P	0.622	0.53
75_T	370_M	0.622	0.53
138_T	230_T	0.622	0.53
126_V	182_Q	0.620	0.52
355_D	394_D	0.620	0.52
277_E	282_R	0.620	0.52
188_E	201_A	0.619	0.52
19_F	23_L	0.619	0.52
239_V	242_V	0.616	0.52
75_T	349_S	0.615	0.52
99_D	114_G	0.615	0.52
330_E	364_C	0.615	0.52
359_L	402_I	0.610	0.51
86_T	189_A	0.608	0.51
302_F	340_L	0.608	0.51
148_G	196_I	0.607	0.51
374_L	377_E	0.606	0.51
81_N	194_H	0.606	0.51
80_L	374_L	0.603	0.50
23_L	57_L	0.602	0.50
74_V	367_D	0.600	0.50
79_N	244_C	0.599	0.50
370_M	379_T	0.597	0.50
136_E	305_L	0.597	0.50
98_K	246_G	0.595	0.50
65_R	341_D	0.595	0.50
75_T	81_N	0.593	0.49
84_V	98_K	0.593	0.49
70_V	345_H	0.593	0.49
110_A	114_G	0.592	0.49
244_C	268_T	0.592	0.49
77_V	81_N	0.592	0.49
357_K	360_A	0.591	0.49
326_D	360_A	0.590	0.49
55_K	58_V	0.589	0.49
272_M	349_S	0.588	0.49
61_A	65_R	0.587	0.49
238_E	279_A	0.587	0.49
194_H	226_T	0.587	0.49
24_A	401_A	0.586	0.48
28_D	213_D	0.586	0.48
289_I	340_L	0.586	0.48
329_D	353_F	0.585	0.48
235_L	250_T	0.585	0.48
354_G	362_L	0.580	0.48
91_G	246_G	0.577	0.47
327_A	331_L	0.574	0.47
341_D	344_D	0.573	0.47
283_I	332_M	0.571	0.47
110_A	113_G	0.570	0.47
28_D	154_R	0.569	0.46
70_V	404_R	0.568	0.46
132_R	374_L	0.568	0.46
39_E	43_T	0.567	0.46
20_E	24_A	0.567	0.46
368_D	409_R	0.567	0.46
237_D	241_D	0.566	0.46
217_E	325_S	0.566	0.46
129_A	137_V	0.565	0.46
398_M	401_A	0.565	0.46
293_Q	296_T	0.565	0.46
44_G	335_V	0.565	0.46
311_Q	315_Y	0.565	0.46
183_I	224_L	0.563	0.46
255_A	258_E	0.560	0.45
33_T	287_D	0.560	0.45
187_S	194_H	0.559	0.45
358_G	369_F	0.557	0.45
331_L	335_V	0.557	0.45
137_V	191_A	0.554	0.45
154_R	218_T	0.553	0.45
268_T	300_T	0.552	0.45
75_T	268_T	0.552	0.45
202_H	256_A	0.552	0.45
27_R	68_D	0.552	0.45
79_N	329_D	0.551	0.44
361_L	364_C	0.550	0.44
138_T	197_T	0.549	0.44
27_R	217_E	0.547	0.44
123_K	188_E	0.546	0.44
56_E	364_C	0.545	0.44
404_R	411_T	0.544	0.44
215_V	218_T	0.543	0.43
32_L	36_D	0.543	0.43
138_T	305_L	0.543	0.43
62_A	243_I	0.542	0.43
306_S	353_F	0.539	0.43
345_H	351_V	0.538	0.43
122_S	151_E	0.537	0.43
188_E	216_Y	0.536	0.43
42_T	283_I	0.536	0.43
21_N	36_D	0.535	0.43
138_T	352_K	0.532	0.42
123_K	126_V	0.530	0.42
301_E	347_Q	0.530	0.42
192_H	412_D	0.530	0.42
184_A	262_D	0.530	0.42
144_H	328_E	0.530	0.42
85_T	116_T	0.529	0.42
323_G	326_D	0.528	0.42
27_R	30_R	0.528	0.42
292_L	295_R	0.526	0.42
140_V	272_M	0.526	0.42
286_L	355_D	0.526	0.42
279_A	328_E	0.525	0.41
70_V	74_V	0.524	0.41
212_Y	252_E	0.523	0.41
355_D	398_M	0.523	0.41
153_H	221_D	0.522	0.41
117_K	122_S	0.522	0.41
114_G	307_F	0.522	0.41
345_H	413_Y	0.521	0.41
98_K	313_P	0.520	0.41
326_D	359_L	0.519	0.41
219_L	260_A	0.519	0.41
206_R	209_S	0.518	0.41
399_I	402_I	0.515	0.40
31_R	338_L	0.514	0.40
86_T	114_G	0.514	0.40
128_D	132_R	0.512	0.40
272_M	305_L	0.512	0.40
140_V	253_W	0.512	0.40
93_L	314_L	0.512	0.40
33_T	37_G	0.512	0.40
28_D	221_D	0.512	0.40
410_S	416_R	0.512	0.40
94_F	243_I	0.511	0.40
83_N	388_E	0.511	0.40
66_R	301_E	0.511	0.40
315_Y	322_G	0.510	0.40
197_T	370_M	0.510	0.40
98_K	387_G	0.509	0.40
359_L	401_A	0.508	0.40
82_N	125_T	0.508	0.40
284_H	288_V	0.507	0.39
348_S	402_I	0.506	0.39
80_L	128_D	0.506	0.39
209_S	288_V	0.505	0.39
283_I	289_I	0.504	0.39
58_V	131_Q	0.500	0.39

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
3t7vA	1	0.7241	100	0.608	Contact Map
4r33A	2	0.7682	100	0.613	Contact Map
4wcxA	1	0.8742	100	0.636	Contact Map
3iixA	1	0.7417	100	0.638	Contact Map
4rtbA	2	0.83	100	0.653	Contact Map
1r30A	2	0.6755	100	0.658	Contact Map
4u0oB	1	0.5784	100	0.803	Contact Map
2qgqA	1	0.5475	99.6	0.878	Contact Map
4jc0A	1	0.7241	99.6	0.884	Contact Map
1tv8A	2	0.6711	99.5	0.888	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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