YCHF - BACSU - GREMLIN Contacts

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YCHF - Ribosome-binding ATPase YchF

UniProt:	P37518	Sequences: MALTAGIVGLPNVGKSTLFNAITQAGAESANYPFCTIDPNVGIVEVPDDRLQKLTELVNPKKTVPTAFEFTDIAGIVKGASKGEGLGNKFLSHIRQVDAICHVVRAFSDDNITHVSGKVDPIDDIETINLELILADMETVEKRITRVSKLAKQKDKDAVFEFEILSKLKEAFESEKPARSVEFTEEQQKLVKQLHLLTSKPILYVANVSEDEVADPSGNENVAKIREYAAGENAEVIVVCAKIESEIAELEGEEKQMFLEELGIQESGLDQLIKASYSLLGLATYFTAGEQEVRAWTFKKGMKAPECAGIIHSDFERGFIRAETVAYEDLLAGGGMAGAKEAGKVRLEGKEYVVQDGDVIHFRFNV	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	366 (360)
Sequences:	3401 (1597)
Seq/√Len:	84.2

ECOLI - YCHF
BACSU - YCHF
HALSA - Q9HP92 Q9HRX2 Y1111
SULSO - Q7LXL0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
118_K	123_D	5.079	1.00
354_V	360_I	4.650	1.00
306_E	316_E	3.646	1.00
53_K	56_E	3.596	1.00
60_P	293_V	3.351	1.00
55_T	63_T	3.083	1.00
148_S	166_S	3.023	1.00
335_G	338_G	2.951	1.00
122_I	228_Y	2.878	1.00
171_A	181_V	2.823	1.00
347_L	363_R	2.809	1.00
257_M	261_E	2.752	1.00
209_S	212_E	2.719	1.00
116_S	127_T	2.678	1.00
125_I	225_I	2.673	1.00
169_K	173_E	2.618	1.00
167_K	187_Q	2.567	1.00
144_I	162_F	2.546	1.00
53_K	331_L	2.540	1.00
137_M	169_K	2.436	1.00
108_S	221_N	2.425	1.00
298_F	302_M	2.390	1.00
61_K	290_E	2.363	1.00
267_S	270_D	2.344	1.00
61_K	291_Q	2.337	1.00
28_E	35_C	2.231	1.00
283_A	300_K	2.229	1.00
324_T	360_I	2.174	1.00
18_L	241_A	2.151	1.00
324_T	354_V	2.135	1.00
333_G	342_A	2.097	1.00
327_Y	331_L	2.086	1.00
227_E	231_G	2.085	1.00
325_V	339_A	2.061	1.00
338_G	342_A	2.029	1.00
299_K	302_M	2.024	1.00
318_G	364_F	2.021	1.00
5_A	276_S	2.018	1.00
235_E	278_S	1.997	1.00
168_L	178_A	1.992	1.00
266_E	274_K	1.987	1.00
288_A	293_V	1.979	1.00
323_E	363_R	1.978	1.00
340_K	345_V	1.967	1.00
298_F	307_C	1.967	1.00
170_E	174_S	1.958	1.00
116_S	123_D	1.894	1.00
178_A	199_S	1.893	1.00
278_S	300_K	1.887	1.00
53_K	327_Y	1.868	1.00
101_C	205_V	1.854	1.00
58_V	288_A	1.853	1.00
78_K	116_S	1.814	1.00
163_E	166_S	1.813	1.00
120_D	123_D	1.801	1.00
302_M	306_E	1.799	1.00
338_G	341_E	1.781	1.00
58_V	293_V	1.765	1.00
102_H	202_I	1.757	1.00
325_V	336_M	1.746	1.00
120_D	224_K	1.741	1.00
321_R	363_R	1.733	1.00
235_E	275_A	1.731	1.00
303_K	353_V	1.731	1.00
3_L	276_S	1.707	1.00
184_T	187_Q	1.671	1.00
321_R	347_L	1.659	1.00
24_Q	255_K	1.649	1.00
328_E	332_A	1.646	1.00
203_L	279_L	1.640	1.00
333_G	339_A	1.639	1.00
220_E	223_A	1.636	1.00
135_A	139_T	1.626	1.00
145_T	148_S	1.613	1.00
166_S	170_E	1.606	1.00
222_V	238_V	1.597	1.00
56_E	59_N	1.593	1.00
337_A	340_K	1.581	1.00
221_N	224_K	1.573	1.00
104_V	125_I	1.567	1.00
227_E	230_A	1.553	1.00
300_K	355_Q	1.533	1.00
106_A	225_I	1.526	1.00
329_D	332_A	1.517	1.00
336_M	345_V	1.512	0.99
140_V	165_L	1.511	0.99
223_A	226_R	1.507	0.99
159_V	163_E	1.499	0.99
171_A	180_S	1.498	0.99
224_K	227_E	1.474	0.99
326_A	355_Q	1.464	0.99
147_V	162_F	1.462	0.99
281_G	300_K	1.444	0.99
24_Q	252_G	1.440	0.99
122_I	224_K	1.439	0.99
223_A	227_E	1.431	0.99
47_P	273_I	1.419	0.99
205_V	272_L	1.418	0.99
256_Q	260_E	1.409	0.99
52_Q	56_E	1.404	0.99
54_L	359_V	1.396	0.99
332_A	344_K	1.383	0.99
325_V	345_V	1.379	0.99
109_D	242_K	1.376	0.99
140_V	169_K	1.375	0.99
339_A	345_V	1.370	0.99
218_G	222_V	1.365	0.99
333_G	344_K	1.356	0.99
309_G	316_E	1.348	0.99
334_G	338_G	1.347	0.99
247_I	258_F	1.328	0.99
143_R	161_E	1.325	0.99
51_L	65_P	1.324	0.99
130_L	134_L	1.320	0.99
78_K	127_T	1.319	0.99
274_K	278_S	1.302	0.98
323_E	361_H	1.299	0.98
178_A	181_V	1.291	0.98
283_A	302_M	1.288	0.98
170_E	173_E	1.281	0.98
164_I	190_L	1.274	0.98
283_A	298_F	1.266	0.98
345_V	361_H	1.263	0.98
176_K	231_G	1.249	0.98
178_A	196_L	1.249	0.98
226_R	230_A	1.244	0.98
245_S	249_E	1.226	0.98
258_F	261_E	1.225	0.98
218_G	223_A	1.218	0.98
58_V	330_L	1.216	0.98
206_A	225_I	1.207	0.97
218_G	238_V	1.203	0.97
329_D	344_K	1.192	0.97
92_S	96_Q	1.190	0.97
222_V	226_R	1.184	0.97
275_A	278_S	1.163	0.97
164_I	167_K	1.159	0.97
229_A	236_V	1.158	0.97
298_F	310_I	1.146	0.97
324_T	347_L	1.144	0.96
146_R	150_L	1.144	0.96
328_E	355_Q	1.144	0.96
162_F	166_S	1.142	0.96
305_P	316_E	1.134	0.96
59_N	290_E	1.134	0.96
315_F	362_F	1.128	0.96
168_L	191_V	1.127	0.96
213_V	222_V	1.125	0.96
326_A	329_D	1.117	0.96
52_Q	63_T	1.112	0.96
144_I	165_L	1.104	0.96
208_V	238_V	1.104	0.96
285_Y	310_I	1.095	0.95
125_I	228_Y	1.095	0.95
285_Y	291_Q	1.088	0.95
328_E	331_L	1.085	0.95
330_L	335_G	1.081	0.95
313_S	317_R	1.078	0.95
277_Y	297_T	1.074	0.95
242_K	245_S	1.073	0.95
141_E	169_K	1.060	0.95
330_L	359_V	1.053	0.94
284_T	295_A	1.048	0.94
129_N	232_E	1.047	0.94
336_M	361_H	1.044	0.94
302_M	310_I	1.036	0.94
243_I	262_L	1.036	0.94
206_A	236_V	1.031	0.94
27_A	30_A	1.029	0.94
154_K	157_D	1.027	0.94
106_A	206_A	1.017	0.93
323_E	347_L	1.014	0.93
247_I	264_I	1.013	0.93
51_L	63_T	1.012	0.93
51_L	55_T	1.011	0.93
351_E	363_R	1.006	0.93
53_K	57_L	1.004	0.93
212_E	219_N	1.000	0.93
5_A	101_C	0.999	0.93
166_S	169_K	0.996	0.93
60_P	290_E	0.989	0.92
325_V	330_L	0.987	0.92
245_S	248_A	0.981	0.92
50_R	286_F	0.980	0.92
144_I	166_S	0.978	0.92
4_T	69_E	0.978	0.92
30_A	35_C	0.977	0.92
27_A	40_N	0.973	0.92
154_K	159_V	0.972	0.92
188_Q	199_S	0.969	0.92
83_G	87_G	0.961	0.91
318_G	365_N	0.960	0.91
8_V	100_I	0.953	0.91
186_E	189_K	0.953	0.91
20_N	29_S	0.951	0.91
176_K	180_S	0.944	0.90
191_V	194_L	0.941	0.90
347_L	361_H	0.932	0.90
155_D	158_A	0.932	0.90
20_N	27_A	0.929	0.90
331_L	335_G	0.929	0.90
78_K	82_K	0.916	0.89
333_G	338_G	0.915	0.89
242_K	246_E	0.905	0.89
239_V	272_L	0.904	0.88
326_A	346_R	0.903	0.88
126_E	175_E	0.903	0.88
175_E	178_A	0.903	0.88
228_Y	232_E	0.897	0.88
335_G	339_A	0.896	0.88
55_T	293_V	0.893	0.88
339_A	359_V	0.888	0.88
260_E	265_Q	0.881	0.87
171_A	174_S	0.880	0.87
37_I	74_A	0.878	0.87
183_F	187_Q	0.878	0.87
330_L	339_A	0.877	0.87
179_R	232_E	0.876	0.87
37_I	77_V	0.867	0.86
307_C	354_V	0.867	0.86
49_D	53_K	0.866	0.86
171_A	176_K	0.862	0.86
168_L	171_A	0.860	0.86
3_L	68_F	0.857	0.86
317_R	364_F	0.855	0.86
58_V	291_Q	0.853	0.85
191_V	199_S	0.851	0.85
164_I	191_V	0.845	0.85
54_L	288_A	0.845	0.85
93_H	97_V	0.837	0.84
310_I	315_F	0.831	0.84
43_I	69_E	0.830	0.84
155_D	159_V	0.828	0.84
68_F	276_S	0.826	0.84
185_E	188_Q	0.820	0.83
123_D	127_T	0.819	0.83
230_A	233_N	0.814	0.83
266_E	270_D	0.814	0.83
159_V	162_F	0.812	0.82
60_P	63_T	0.810	0.82
160_F	164_I	0.809	0.82
220_E	224_K	0.809	0.82
167_K	182_E	0.807	0.82
57_L	331_L	0.801	0.82
144_I	169_K	0.796	0.81
228_Y	231_G	0.794	0.81
89_K	142_K	0.794	0.81
303_K	316_E	0.793	0.81
317_R	365_N	0.793	0.81
17_T	241_A	0.790	0.81
165_L	169_K	0.789	0.81
167_K	170_E	0.785	0.80
167_K	183_F	0.785	0.80
208_V	222_V	0.785	0.80
168_L	172_F	0.785	0.80
18_L	239_V	0.782	0.80
259_L	264_I	0.778	0.80
226_R	236_V	0.777	0.80
305_P	315_F	0.776	0.80
32_Y	35_C	0.775	0.79
58_V	286_F	0.772	0.79
139_T	142_K	0.771	0.79
303_K	351_E	0.771	0.79
80_A	85_G	0.770	0.79
4_T	97_V	0.770	0.79
130_L	173_E	0.769	0.79
58_V	64_V	0.765	0.79
303_K	306_E	0.761	0.78
291_Q	361_H	0.761	0.78
60_P	64_V	0.760	0.78
258_F	262_L	0.760	0.78
164_I	183_F	0.760	0.78
302_M	307_C	0.759	0.78
222_V	236_V	0.759	0.78
336_M	340_K	0.758	0.78
151_A	162_F	0.758	0.78
99_A	279_L	0.758	0.78
141_E	173_E	0.758	0.78
325_V	361_H	0.757	0.78
257_M	260_E	0.750	0.77
68_F	97_V	0.750	0.77
54_L	58_V	0.748	0.77
147_V	161_E	0.747	0.77
285_Y	299_K	0.747	0.77
147_V	165_L	0.746	0.77
94_I	100_I	0.746	0.77
43_I	67_A	0.745	0.77
283_A	307_C	0.743	0.77
291_Q	313_S	0.741	0.76
327_Y	359_V	0.739	0.76
137_M	140_V	0.737	0.76
63_T	291_Q	0.733	0.76
177_P	198_T	0.728	0.75
306_E	309_G	0.728	0.75
326_A	333_G	0.727	0.75
337_A	341_E	0.727	0.75
58_V	361_H	0.726	0.75
208_V	213_V	0.725	0.75
104_V	128_I	0.725	0.75
61_K	64_V	0.722	0.74
80_A	83_G	0.721	0.74
140_V	144_I	0.721	0.74
298_F	306_E	0.721	0.74
336_M	344_K	0.720	0.74
122_I	126_E	0.719	0.74
9_G	14_G	0.716	0.74
58_V	325_V	0.713	0.74
62_K	291_Q	0.713	0.74
139_T	195_H	0.709	0.73
275_A	279_L	0.707	0.73
205_V	239_V	0.706	0.73
290_E	336_M	0.705	0.73
102_H	124_D	0.705	0.73
193_Q	196_L	0.705	0.73
55_T	60_P	0.704	0.73
87_G	90_F	0.703	0.72
66_T	277_Y	0.702	0.72
108_S	220_E	0.700	0.72
27_A	35_C	0.699	0.72
26_G	249_E	0.698	0.72
304_A	319_F	0.698	0.72
315_F	361_H	0.695	0.72
285_Y	315_F	0.694	0.72
329_D	336_M	0.693	0.71
309_G	313_S	0.692	0.71
29_S	35_C	0.691	0.71
147_V	150_L	0.688	0.71
122_I	125_I	0.685	0.71
18_L	103_V	0.684	0.70
4_T	71_T	0.683	0.70
57_L	330_L	0.681	0.70
256_Q	261_E	0.680	0.70
60_P	286_F	0.679	0.70
89_K	138_E	0.678	0.70
150_L	155_D	0.675	0.69
183_F	191_V	0.673	0.69
72_D	75_G	0.672	0.69
12_N	16_S	0.672	0.69
164_I	181_V	0.672	0.69
70_F	101_C	0.671	0.69
288_A	359_V	0.669	0.69
326_A	339_A	0.667	0.69
252_G	256_Q	0.667	0.69
140_V	196_L	0.665	0.68
154_K	158_A	0.663	0.68
101_C	203_L	0.662	0.68
168_L	183_F	0.661	0.68
5_A	161_E	0.659	0.68
333_G	336_M	0.659	0.68
73_I	94_I	0.659	0.68
240_C	243_I	0.658	0.67
71_T	154_K	0.657	0.67
157_D	160_F	0.656	0.67
49_D	265_Q	0.654	0.67
106_A	219_N	0.654	0.67
57_L	335_G	0.653	0.67
122_I	225_I	0.652	0.67
285_Y	290_E	0.651	0.67
114_H	119_V	0.646	0.66
167_K	181_V	0.645	0.66
25_A	43_I	0.643	0.66
28_E	32_Y	0.643	0.66
145_T	150_L	0.642	0.66
235_E	238_V	0.641	0.65
64_V	294_R	0.639	0.65
38_D	89_K	0.639	0.65
164_I	194_L	0.639	0.65
183_F	193_Q	0.639	0.65
5_A	68_F	0.638	0.65
80_A	90_F	0.635	0.65
49_D	274_K	0.634	0.65
113_T	117_G	0.633	0.64
191_V	195_H	0.631	0.64
140_V	172_F	0.631	0.64
71_T	98_D	0.630	0.64
12_N	36_T	0.630	0.64
80_A	87_G	0.629	0.64
4_T	96_Q	0.629	0.64
150_L	157_D	0.629	0.64
104_V	129_N	0.629	0.64
113_T	213_V	0.627	0.64
283_A	356_D	0.627	0.64
148_S	162_F	0.624	0.63
204_Y	232_E	0.621	0.63
34_F	77_V	0.620	0.63
46_V	273_I	0.619	0.63
41_V	69_E	0.619	0.63
330_L	338_G	0.619	0.63
16_S	36_T	0.617	0.63
277_Y	284_T	0.616	0.62
58_V	61_K	0.611	0.62
20_N	25_A	0.610	0.62
112_I	115_V	0.610	0.62
133_I	172_F	0.609	0.61
213_V	238_V	0.609	0.61
134_L	173_E	0.606	0.61
102_H	129_N	0.605	0.61
30_A	33_P	0.604	0.61
213_V	271_Q	0.602	0.61
114_H	117_G	0.602	0.61
177_P	180_S	0.600	0.60
33_P	36_T	0.600	0.60
205_V	212_E	0.600	0.60
21_A	32_Y	0.599	0.60
86_L	89_K	0.598	0.60
20_N	26_G	0.598	0.60
324_T	361_H	0.597	0.60
51_L	291_Q	0.596	0.60
89_K	96_Q	0.594	0.60
61_K	293_V	0.592	0.59
93_H	197_L	0.592	0.59
213_V	240_C	0.589	0.59
44_V	70_F	0.589	0.59
60_P	288_A	0.588	0.59
64_V	290_E	0.587	0.59
13_V	16_S	0.586	0.59
56_E	334_G	0.585	0.58
79_G	82_K	0.583	0.58
70_F	269_L	0.582	0.58
219_N	222_V	0.582	0.58
12_N	31_N	0.581	0.58
137_M	141_E	0.580	0.58
33_P	37_I	0.580	0.58
334_G	339_A	0.580	0.58
13_V	31_N	0.580	0.58
9_G	15_K	0.580	0.58
213_V	218_G	0.579	0.58
31_N	37_I	0.578	0.58
183_F	188_Q	0.577	0.57
305_P	350_K	0.577	0.57
16_S	37_I	0.575	0.57
298_F	353_V	0.574	0.57
76_I	85_G	0.573	0.57
161_E	193_Q	0.571	0.57
247_I	255_K	0.571	0.57
151_A	158_A	0.571	0.57
330_L	334_G	0.569	0.56
125_I	204_Y	0.569	0.56
27_A	240_C	0.569	0.56
11_P	15_K	0.569	0.56
286_F	354_V	0.568	0.56
160_F	190_L	0.567	0.56
285_Y	298_F	0.567	0.56
126_E	130_L	0.566	0.56
93_H	100_I	0.564	0.56
5_A	99_A	0.564	0.56
165_L	194_L	0.564	0.56
322_A	360_I	0.563	0.56
348_E	351_E	0.562	0.55
224_K	228_Y	0.562	0.55
203_L	208_V	0.562	0.55
203_L	264_I	0.561	0.55
79_G	85_G	0.560	0.55
267_S	274_K	0.560	0.55
77_V	80_A	0.558	0.55
66_T	284_T	0.558	0.55
254_E	258_F	0.558	0.55
82_K	89_K	0.557	0.55
226_R	238_V	0.554	0.54
192_K	195_H	0.554	0.54
125_I	229_A	0.553	0.54
148_S	152_K	0.552	0.54
330_L	333_G	0.552	0.54
162_F	165_L	0.552	0.54
161_E	190_L	0.552	0.54
22_I	26_G	0.550	0.54
238_V	271_Q	0.548	0.54
5_A	284_T	0.548	0.54
336_M	342_A	0.547	0.53
331_L	334_G	0.545	0.53
221_N	225_I	0.545	0.53
253_E	257_M	0.544	0.53
330_L	345_V	0.544	0.53
23_T	32_Y	0.542	0.53
177_P	202_I	0.541	0.53
203_L	235_E	0.541	0.53
129_N	228_Y	0.540	0.53
298_F	354_V	0.539	0.52
34_F	37_I	0.538	0.52
53_K	60_P	0.538	0.52
130_L	133_I	0.537	0.52
59_N	293_V	0.537	0.52
46_V	277_Y	0.536	0.52
83_G	88_N	0.534	0.52
68_F	341_E	0.534	0.52
163_E	167_K	0.534	0.52
5_A	71_T	0.533	0.52
80_A	88_N	0.532	0.51
95_R	135_A	0.532	0.51
53_K	334_G	0.532	0.51
58_V	336_M	0.531	0.51
26_G	67_A	0.530	0.51
58_V	63_T	0.530	0.51
119_V	124_D	0.528	0.51
217_S	226_R	0.528	0.51
49_D	52_Q	0.527	0.51
210_E	242_K	0.526	0.51
168_L	181_V	0.525	0.51
35_C	101_C	0.525	0.51
281_G	299_K	0.522	0.50
172_F	177_P	0.521	0.50
103_V	205_V	0.521	0.50
330_L	336_M	0.521	0.50
57_L	334_G	0.518	0.50
246_E	250_L	0.517	0.49
178_A	183_F	0.517	0.49
242_K	247_I	0.516	0.49
247_I	250_L	0.514	0.49
175_E	179_R	0.513	0.49
171_A	178_A	0.513	0.49
138_E	142_K	0.513	0.49
157_D	161_E	0.513	0.49
230_A	235_E	0.511	0.49
77_V	87_G	0.511	0.49
160_F	186_E	0.510	0.49
352_Y	358_D	0.510	0.49
290_E	293_V	0.510	0.49
18_L	22_I	0.510	0.49
217_S	238_V	0.508	0.48
21_A	44_V	0.508	0.48
23_T	135_A	0.507	0.48
195_H	199_S	0.505	0.48
183_F	190_L	0.505	0.48
50_R	357_G	0.504	0.48
75_G	85_G	0.504	0.48
68_F	283_A	0.504	0.48
66_T	295_A	0.504	0.48
229_A	233_N	0.503	0.48
25_A	28_E	0.503	0.48
261_E	341_E	0.503	0.48
165_L	196_L	0.503	0.48
43_I	286_F	0.502	0.47
129_N	202_I	0.502	0.47
269_L	276_S	0.502	0.47
160_F	163_E	0.502	0.47
243_I	261_E	0.502	0.47
101_C	276_S	0.501	0.47
39_P	74_A	0.501	0.47
12_N	34_F	0.500	0.47
288_A	361_H	0.500	0.47

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
1jalA	1	0.9508	100	0.199	Contact Map
2dbyA	1	0.959	100	0.224	Contact Map
1ni3A	1	0.9863	100	0.26	Contact Map
2ohfA	1	0.8716	100	0.362	Contact Map
1wxqA	1	0.8197	100	0.381	Contact Map
4a9aA	1	0.7787	100	0.59	Contact Map
1lnzA	1	0.5055	99.9	0.779	Contact Map
1udxA	1	0.6776	99.9	0.785	Contact Map
4csu9	1	0.4809	99.9	0.791	Contact Map
3ievA	1	0.7978	99.9	0.815	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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