YCHF - ECOLI - GREMLIN Contacts

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YCHF - Ribosome-binding ATPase YchF

UniProt:	P0ABU2	Sequences: MGFKCGIVGLPNVGKSTLFNALTKAGIEAANFPFCTIEPNTGVVPMPDPRLDQLAEIVKPQRTLPTTMEFVDIAGLVKGASKGEGLGNQFLTNIRETEAIGHVVRCFENDNIIHVSGKVNPADDIEVINTELALADLDTCERAIHRVQKKAKGGDKDAKAELAVLEKCLPQLENAGMLRALDLSAEEKAAIRYLSFLTLKPTMYIANVNEDGFENNPYLDQVREIAAKEGSVVVPVCAAVEADIAELDDEERDEFMQELGLEEPGLNRVIRAGYKLLNLQTYFTAGVKEVRAWTIPVGATAPQAAGKIHTDFEKGFIRAQTISFEDFITYKGEQGAKEAGKMRAEGKDYIVKDGDVMNFLFNV	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11404
Length:	363 (358)
Sequences:	3388 (1589)
Seq/√Len:	84.0

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	4.941	1.00
351_V	357_M	4.496	1.00
303_Q	313_E	3.630	1.00
53_Q	56_E	3.586	1.00
60_P	290_V	3.286	1.00
171_Q	181_L	3.059	1.00
55_A	63_T	3.028	1.00
122_A	225_I	3.013	1.00
332_G	335_G	2.916	1.00
148_Q	166_E	2.874	1.00
344_A	360_L	2.724	1.00
125_I	222_V	2.679	1.00
116_S	127_V	2.640	1.00
144_I	162_L	2.597	1.00
254_E	258_E	2.578	1.00
167_K	187_E	2.558	1.00
53_Q	328_I	2.554	1.00
209_N	212_G	2.494	1.00
137_L	169_L	2.478	1.00
108_E	218_Y	2.402	1.00
169_L	173_E	2.369	1.00
295_I	299_A	2.347	1.00
61_Q	288_K	2.343	1.00
61_Q	287_V	2.287	1.00
264_P	267_N	2.266	1.00
168_C	178_L	2.227	1.00
28_E	35_C	2.199	1.00
321_T	357_M	2.197	1.00
280_Q	297_V	2.196	1.00
324_F	328_I	2.159	1.00
330_Y	339_A	2.140	1.00
224_E	228_K	2.108	1.00
321_T	351_V	2.077	1.00
322_I	336_A	2.073	1.00
263_E	271_R	2.062	1.00
18_L	238_A	2.041	1.00
170_P	174_N	2.021	1.00
232_V	275_K	2.015	1.00
5_C	273_G	2.013	1.00
178_L	199_L	1.989	1.00
335_G	339_A	1.988	1.00
296_P	299_A	1.967	1.00
320_Q	360_L	1.960	1.00
337_K	342_M	1.956	1.00
295_I	304_A	1.934	1.00
285_A	290_V	1.924	1.00
116_S	123_D	1.881	1.00
315_G	361_F	1.878	1.00
275_K	297_V	1.876	1.00
101_G	205_I	1.874	1.00
53_Q	324_F	1.838	1.00
299_A	303_Q	1.831	1.00
102_H	202_T	1.805	1.00
335_G	338_E	1.800	1.00
171_Q	180_A	1.800	1.00
318_R	360_L	1.790	1.00
78_K	116_S	1.784	1.00
163_A	166_E	1.762	1.00
219_L	235_P	1.756	1.00
322_I	333_E	1.739	1.00
325_E	329_T	1.734	1.00
58_V	290_V	1.734	1.00
120_N	123_D	1.732	1.00
184_S	187_E	1.726	1.00
24_K	252_R	1.710	1.00
58_V	285_A	1.706	1.00
318_R	344_A	1.690	1.00
300_T	350_I	1.669	1.00
232_V	272_A	1.657	1.00
330_Y	336_A	1.650	1.00
56_E	59_K	1.644	1.00
140_C	165_L	1.622	1.00
221_Q	224_E	1.618	1.00
224_E	227_A	1.615	1.00
145_H	148_Q	1.601	1.00
135_A	139_T	1.587	1.00
203_M	276_L	1.587	1.00
104_V	125_I	1.587	1.00
278_N	297_V	1.560	1.00
334_Q	337_K	1.554	1.00
220_D	223_R	1.554	1.00
166_E	170_P	1.549	1.00
120_N	221_Q	1.546	1.00
217_P	220_D	1.540	1.00
122_A	221_Q	1.519	1.00
220_D	224_E	1.511	0.99
218_Y	221_Q	1.499	0.99
178_L	196_F	1.495	0.99
143_A	161_E	1.490	0.99
24_K	249_D	1.481	0.99
326_D	329_T	1.476	0.99
159_K	163_A	1.475	0.99
333_E	342_M	1.470	0.99
223_R	227_A	1.470	0.99
106_C	222_V	1.467	0.99
140_C	169_L	1.449	0.99
331_K	335_G	1.429	0.99
330_Y	341_K	1.421	0.99
297_V	352_K	1.411	0.99
205_I	269_V	1.408	0.99
253_D	257_Q	1.406	0.99
47_P	270_I	1.406	0.99
54_L	356_V	1.400	0.99
322_I	342_M	1.391	0.99
306_G	313_E	1.386	0.99
329_T	341_K	1.379	0.99
176_G	228_K	1.375	0.99
78_K	127_V	1.369	0.99
215_N	219_L	1.351	0.99
271_R	275_K	1.347	0.99
336_A	342_M	1.339	0.99
109_N	239_A	1.337	0.99
52_D	56_E	1.328	0.99
147_V	162_L	1.324	0.99
280_Q	299_A	1.316	0.99
178_L	181_L	1.315	0.99
323_S	352_K	1.304	0.98
244_I	255_F	1.300	0.98
130_T	134_L	1.299	0.98
280_Q	295_I	1.288	0.98
320_Q	358_N	1.259	0.98
170_P	173_E	1.252	0.98
125_I	225_I	1.239	0.98
215_N	220_D	1.237	0.98
342_M	358_N	1.225	0.98
326_D	341_K	1.206	0.97
58_V	327_F	1.190	0.97
164_V	190_A	1.182	0.97
51_L	65_P	1.181	0.97
215_N	235_P	1.177	0.97
255_F	258_E	1.169	0.97
295_I	307_K	1.161	0.97
242_A	246_E	1.159	0.97
213_F	219_L	1.151	0.97
59_K	287_V	1.142	0.96
321_T	344_A	1.139	0.96
92_T	96_E	1.137	0.96
208_V	235_P	1.135	0.96
219_L	223_R	1.132	0.96
206_A	222_V	1.127	0.96
272_A	275_K	1.118	0.96
281_T	292_A	1.115	0.96
282_Y	307_K	1.111	0.96
162_L	166_E	1.110	0.96
8_V	100_I	1.107	0.96
325_E	352_K	1.107	0.96
144_I	165_L	1.102	0.96
155_D	159_K	1.097	0.96
327_F	332_G	1.097	0.96
312_F	359_F	1.092	0.95
53_Q	57_I	1.088	0.95
325_E	328_I	1.085	0.95
239_A	242_A	1.082	0.95
52_D	63_T	1.081	0.95
302_P	313_E	1.081	0.95
164_V	167_K	1.075	0.95
323_S	326_D	1.074	0.95
51_L	55_A	1.069	0.95
168_C	191_I	1.064	0.95
141_E	169_L	1.063	0.95
327_F	356_V	1.061	0.95
27_I	30_A	1.048	0.94
4_K	69_E	1.047	0.94
240_V	259_L	1.045	0.94
212_G	216_N	1.044	0.94
282_Y	288_K	1.042	0.94
333_E	358_N	1.038	0.94
242_A	245_A	1.035	0.94
171_Q	176_G	1.027	0.94
299_A	307_K	1.027	0.94
146_R	150_K	1.022	0.93
30_A	35_C	1.020	0.93
320_Q	344_A	1.017	0.93
144_I	166_E	1.010	0.93
106_C	206_A	1.008	0.93
5_C	101_G	1.005	0.93
37_I	74_A	0.992	0.92
188_K	199_L	0.991	0.92
83_G	87_G	0.989	0.92
310_T	314_K	0.987	0.92
322_I	327_F	0.978	0.92
239_A	243_D	0.978	0.92
206_A	233_V	0.962	0.91
332_G	336_A	0.961	0.91
274_Y	294_T	0.951	0.91
20_N	29_A	0.948	0.91
27_I	40_N	0.947	0.91
68_M	273_G	0.944	0.90
330_Y	335_G	0.939	0.90
323_S	343_R	0.937	0.90
226_A	233_V	0.934	0.90
55_A	290_V	0.934	0.90
166_E	169_L	0.928	0.90
176_G	180_A	0.927	0.90
186_E	189_A	0.927	0.90
60_P	287_V	0.927	0.90
304_A	351_V	0.921	0.89
50_R	283_F	0.917	0.89
177_M	198_T	0.911	0.89
46_M	50_R	0.911	0.89
51_L	63_T	0.910	0.89
223_R	233_V	0.909	0.89
344_A	358_N	0.907	0.89
328_I	332_G	0.906	0.89
78_K	82_K	0.906	0.89
315_G	362_N	0.905	0.88
20_N	27_I	0.900	0.88
17_T	238_A	0.898	0.88
336_A	356_V	0.896	0.88
171_Q	174_N	0.892	0.88
244_I	261_L	0.883	0.87
227_A	230_G	0.880	0.87
348_D	360_L	0.879	0.87
54_L	285_A	0.878	0.87
43_V	69_E	0.877	0.87
179_R	229_E	0.872	0.87
165_L	169_L	0.870	0.86
225_I	228_K	0.870	0.86
327_F	336_A	0.860	0.86
129_N	229_E	0.856	0.86
147_V	165_L	0.854	0.85
93_N	97_T	0.853	0.85
164_V	183_L	0.851	0.85
160_A	164_V	0.849	0.85
71_V	154_G	0.848	0.85
236_V	269_V	0.847	0.85
314_K	361_F	0.845	0.85
68_M	97_T	0.843	0.85
183_L	191_I	0.840	0.84
147_V	161_E	0.839	0.84
191_I	199_L	0.838	0.84
217_P	221_Q	0.837	0.84
307_K	312_F	0.837	0.84
4_K	97_T	0.835	0.84
58_V	288_K	0.834	0.84
102_H	124_D	0.830	0.84
288_K	310_T	0.828	0.84
300_T	348_D	0.824	0.83
263_E	267_N	0.824	0.83
183_L	187_E	0.821	0.83
80_A	83_G	0.812	0.82
80_A	85_G	0.812	0.82
257_Q	262_E	0.811	0.82
32_F	35_C	0.806	0.82
300_T	303_Q	0.803	0.82
164_V	191_I	0.797	0.81
151_A	157_D	0.796	0.81
58_V	283_F	0.796	0.81
37_I	77_V	0.789	0.81
301_A	316_F	0.789	0.81
62_R	288_K	0.786	0.80
323_S	330_Y	0.785	0.80
154_G	157_D	0.785	0.80
333_E	337_K	0.785	0.80
219_L	233_V	0.781	0.80
139_T	142_R	0.779	0.80
208_V	213_F	0.779	0.80
108_E	217_P	0.774	0.79
159_K	162_L	0.773	0.79
155_D	158_A	0.770	0.79
144_I	169_L	0.770	0.79
322_I	358_N	0.769	0.79
185_A	188_K	0.765	0.78
49_P	53_Q	0.765	0.78
89_Q	142_R	0.763	0.78
167_K	170_P	0.762	0.78
57_I	328_I	0.762	0.78
208_V	219_L	0.761	0.78
302_P	312_F	0.761	0.78
168_C	171_Q	0.761	0.78
191_I	194_L	0.760	0.78
324_F	356_V	0.760	0.78
18_L	236_V	0.760	0.78
237_C	240_V	0.759	0.78
314_K	362_N	0.759	0.78
151_A	162_L	0.754	0.77
4_K	71_V	0.753	0.77
288_K	358_N	0.753	0.77
70_F	101_G	0.750	0.77
161_E	193_Y	0.749	0.77
326_D	333_E	0.748	0.77
89_Q	138_D	0.748	0.77
154_G	159_K	0.745	0.77
139_T	195_S	0.742	0.76
299_A	304_A	0.741	0.76
154_G	158_A	0.741	0.76
123_D	127_V	0.740	0.76
333_E	341_K	0.739	0.76
282_Y	296_P	0.738	0.76
323_S	336_A	0.734	0.76
164_V	181_L	0.733	0.75
101_G	203_M	0.733	0.75
61_Q	64_L	0.731	0.75
300_T	313_E	0.730	0.75
183_L	193_Y	0.730	0.75
29_A	35_C	0.729	0.75
140_C	196_F	0.727	0.75
334_Q	338_E	0.727	0.75
28_E	32_F	0.724	0.75
104_V	128_I	0.723	0.74
130_T	173_E	0.723	0.74
306_G	310_T	0.722	0.74
137_L	140_C	0.721	0.74
94_I	100_I	0.721	0.74
167_K	183_L	0.720	0.74
280_Q	304_A	0.718	0.74
55_A	60_P	0.718	0.74
63_T	288_K	0.717	0.74
167_K	182_D	0.716	0.74
255_F	259_L	0.715	0.74
99_A	276_L	0.712	0.73
167_K	181_L	0.712	0.73
43_V	67_T	0.712	0.73
272_A	276_L	0.711	0.73
58_V	64_L	0.711	0.73
205_I	236_V	0.705	0.73
66_T	274_Y	0.704	0.72
126_E	175_A	0.702	0.72
254_E	257_Q	0.701	0.72
287_V	333_E	0.700	0.72
80_A	87_G	0.699	0.72
57_I	327_F	0.699	0.72
58_V	61_Q	0.697	0.72
70_F	266_L	0.697	0.72
193_Y	196_F	0.696	0.72
312_F	358_N	0.694	0.71
27_I	35_C	0.693	0.71
164_V	194_L	0.690	0.71
20_N	26_G	0.687	0.71
282_Y	312_F	0.687	0.71
9_G	14_G	0.685	0.70
232_V	235_P	0.684	0.70
140_C	144_I	0.684	0.70
49_P	262_E	0.682	0.70
168_C	181_L	0.676	0.69
216_N	219_L	0.675	0.69
213_F	235_P	0.675	0.69
113_I	213_F	0.674	0.69
163_A	170_P	0.673	0.69
72_D	75_G	0.671	0.69
295_I	303_Q	0.669	0.69
80_A	90_F	0.667	0.68
253_D	258_E	0.667	0.68
226_A	230_G	0.666	0.68
122_A	126_E	0.665	0.68
140_C	172_L	0.664	0.68
12_N	16_S	0.664	0.68
60_P	64_L	0.663	0.68
38_E	89_Q	0.660	0.68
122_A	125_I	0.660	0.68
93_N	197_L	0.659	0.67
54_L	58_V	0.658	0.67
114_H	117_G	0.655	0.67
285_A	356_V	0.654	0.67
327_F	335_G	0.652	0.67
25_A	43_V	0.651	0.67
4_K	96_E	0.648	0.66
49_P	271_R	0.646	0.66
114_H	119_V	0.646	0.66
160_A	190_A	0.642	0.65
282_Y	287_V	0.642	0.65
64_L	291_R	0.641	0.65
73_I	94_I	0.640	0.65
190_A	194_L	0.638	0.65
225_I	229_E	0.637	0.65
256_M	261_L	0.635	0.65
106_C	216_N	0.635	0.65
192_R	195_S	0.635	0.65
213_F	268_R	0.631	0.64
64_L	287_V	0.631	0.64
133_A	172_L	0.630	0.64
148_Q	162_L	0.630	0.64
251_E	255_F	0.629	0.64
54_L	57_I	0.628	0.64
47_P	65_P	0.626	0.64
87_G	90_F	0.625	0.63
41_T	69_E	0.624	0.63
168_C	183_L	0.624	0.63
223_R	235_P	0.624	0.63
303_Q	306_G	0.623	0.63
34_F	77_V	0.623	0.63
126_E	130_T	0.622	0.63
33_P	37_I	0.622	0.63
5_C	161_E	0.621	0.63
5_C	68_M	0.620	0.63
205_I	212_G	0.620	0.63
58_V	322_I	0.620	0.63
119_V	124_D	0.619	0.63
57_I	332_G	0.619	0.63
61_Q	290_V	0.616	0.62
95_R	135_A	0.615	0.62
218_Y	222_V	0.615	0.62
86_L	89_Q	0.615	0.62
274_Y	281_T	0.614	0.62
319_A	357_M	0.614	0.62
129_N	225_I	0.613	0.62
147_V	150_K	0.613	0.62
51_L	288_K	0.613	0.62
71_V	98_E	0.610	0.62
327_F	330_Y	0.610	0.62
12_N	31_N	0.608	0.61
5_C	281_T	0.607	0.61
295_I	351_V	0.606	0.61
163_A	167_K	0.604	0.61
53_Q	60_P	0.604	0.61
18_L	22_L	0.604	0.61
60_P	283_F	0.603	0.61
250_E	254_E	0.603	0.61
56_E	331_K	0.603	0.61
89_Q	96_E	0.600	0.60
221_Q	225_I	0.599	0.60
104_V	129_N	0.599	0.60
58_V	358_N	0.598	0.60
83_G	88_N	0.598	0.60
244_I	252_R	0.598	0.60
66_T	281_T	0.598	0.60
33_P	36_T	0.597	0.60
280_Q	353_D	0.595	0.60
302_P	347_K	0.595	0.60
75_G	85_G	0.592	0.59
283_F	351_V	0.590	0.59
45_P	266_L	0.590	0.59
13_V	31_N	0.590	0.59
235_P	268_R	0.589	0.59
122_A	222_V	0.588	0.59
210_E	239_A	0.588	0.59
18_L	103_V	0.586	0.58
264_P	271_R	0.585	0.58
214_E	223_R	0.584	0.58
191_I	195_S	0.583	0.58
113_I	117_G	0.582	0.58
213_F	237_C	0.582	0.58
249_D	253_D	0.582	0.58
20_N	25_A	0.580	0.58
79_G	85_G	0.580	0.58
203_M	232_V	0.577	0.57
150_K	155_D	0.577	0.57
102_H	129_N	0.576	0.57
204_Y	229_E	0.576	0.57
12_N	36_T	0.575	0.57
6_G	97_T	0.574	0.57
321_T	358_N	0.570	0.56
13_V	16_S	0.569	0.56
248_D	251_E	0.568	0.56
349_Y	355_D	0.567	0.56
68_M	338_E	0.567	0.56
137_L	141_E	0.567	0.56
125_I	226_A	0.565	0.56
327_F	331_K	0.565	0.56
83_G	86_L	0.563	0.55
31_N	37_I	0.561	0.55
327_F	342_M	0.561	0.55
23_T	135_A	0.560	0.55
287_V	290_V	0.560	0.55
62_R	287_V	0.559	0.55
79_G	82_K	0.559	0.55
82_K	89_Q	0.558	0.55
76_L	83_G	0.558	0.55
66_T	292_A	0.556	0.55
333_E	339_A	0.556	0.55
296_P	307_K	0.556	0.55
101_G	273_G	0.555	0.54
16_S	37_I	0.555	0.54
4_K	43_V	0.554	0.54
164_V	171_Q	0.553	0.54
125_I	204_Y	0.553	0.54
144_I	148_Q	0.552	0.54
214_E	220_D	0.551	0.54
182_D	188_K	0.550	0.54
35_C	101_G	0.550	0.54
9_G	15_K	0.549	0.54
47_P	50_R	0.548	0.53
76_L	85_G	0.548	0.53
330_Y	333_E	0.547	0.53
23_T	32_F	0.547	0.53
203_M	273_G	0.546	0.53
16_S	34_F	0.546	0.53
11_P	15_K	0.545	0.53
55_A	62_R	0.545	0.53
30_A	33_P	0.544	0.53
282_Y	295_I	0.544	0.53
141_E	173_E	0.543	0.53
327_F	333_E	0.540	0.52
148_Q	152_K	0.540	0.52
60_P	285_A	0.538	0.52
206_A	235_P	0.537	0.52
331_K	336_A	0.537	0.52
54_L	66_T	0.536	0.52
160_A	174_N	0.534	0.52
21_A	32_F	0.534	0.52
80_A	88_N	0.534	0.52
27_I	237_C	0.533	0.52
59_K	290_V	0.531	0.51
85_G	88_N	0.531	0.51
244_I	247_L	0.530	0.51
133_A	177_M	0.530	0.51
145_H	150_K	0.529	0.51
77_V	80_A	0.527	0.51
203_M	261_L	0.527	0.51
103_V	205_I	0.526	0.51
206_A	219_L	0.525	0.50
203_M	208_V	0.524	0.50
329_T	339_A	0.524	0.50
5_C	71_V	0.524	0.50
212_G	215_N	0.523	0.50
239_A	244_I	0.523	0.50
59_K	62_R	0.522	0.50
295_I	350_I	0.522	0.50
60_P	63_T	0.521	0.50
79_G	83_G	0.520	0.50
158_A	161_E	0.517	0.49
129_N	133_A	0.517	0.49
5_C	299_A	0.516	0.49
328_I	331_K	0.516	0.49
168_C	172_L	0.516	0.49
42_G	274_Y	0.515	0.49
85_G	90_F	0.515	0.49
130_T	133_A	0.513	0.49
285_A	358_N	0.512	0.49
240_V	265_G	0.512	0.49
278_N	296_P	0.511	0.49
147_V	158_A	0.510	0.48
148_Q	329_T	0.510	0.48
21_A	44_V	0.510	0.48
16_S	36_T	0.508	0.48
44_V	70_F	0.508	0.48
53_Q	331_K	0.507	0.48
25_A	28_E	0.507	0.48
304_A	307_K	0.506	0.48
345_E	348_D	0.505	0.48
195_S	199_L	0.505	0.48
171_Q	178_L	0.504	0.48
157_D	161_E	0.504	0.48
4_K	35_C	0.503	0.48
318_R	345_E	0.503	0.48
177_M	180_A	0.502	0.47
177_M	229_E	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	0.9587	100	0.204	Contact Map
2dbyA	1	0.9587	100	0.231	Contact Map
1ni3A	1	0.989	100	0.264	Contact Map
2ohfA	1	0.8733	100	0.366	Contact Map
1wxqA	1	0.8347	100	0.386	Contact Map
4a9aA	1	0.7851	100	0.583	Contact Map
1lnzA	1	0.5096	100	0.771	Contact Map
1udxA	1	0.6832	99.9	0.783	Contact Map
4csu9	1	0.4848	99.9	0.798	Contact Map
2ekiA	1	0.2287	99.8	0.832	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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