YBIC - ECOLI - GREMLIN Contacts

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YBIC - Uncharacterized oxidoreductase YbiC

UniProt:	P30178	Sequences: MESGHRFDAQTLHSFIQAVFRQMGSEEQEAKLVADHLIAANLAGHDSHGIGMIPSYVRSWSQGHLQINHHAKTVKEAGAAVTLDGDRAFGQVAAHEAMALGIEKAHQHGIAAVALHNSHHIGRIGYWAEQCAAAGFVSIHFVSVVGIPMVAPFHGRDSRFGTNPFCVVFPRKDNFPLLLDYATSAIAFGKTRVAWHKGVPVPPGCLIDVNGVPTTNPAVMQESPLGSLLTFAEHKGYALAAMCEILGGALSGGKTTHQETLQTSPDAILNCMTTIIINPELFGAPDCNAQTEAFAEWVKASPHDDDKPILLPGEWEVNTRRERQKQGIPLDAGSWQAICDAARQIGMPEETLQAFCQQLAS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11581
Length:	361 (332)
Sequences:	2105 (1560)
Seq/√Len:	85.6

ECOLI - YBIC ALLD DLGD
BACSU - YJMC

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
322_E	326_Q	3.999	1.00
128_A	166_C	3.762	1.00
72_K	86_D	3.588	1.00
85_G	93_A	3.475	1.00
299_K	314_E	3.392	1.00
206_L	220_M	3.163	1.00
66_Q	86_D	2.965	1.00
208_D	212_V	2.843	1.00
155_G	301_S	2.677	1.00
106_H	134_A	2.668	1.00
200_P	215_T	2.641	1.00
99_A	130_Q	2.552	1.00
13_H	35_D	2.502	1.00
98_M	131_C	2.471	1.00
332_A	336_Q	2.442	1.00
114_A	251_S	2.422	1.00
216_N	219_V	2.396	1.00
20_F	53_I	2.393	1.00
200_P	217_P	2.389	1.00
132_A	168_V	2.245	1.00
46_D	323_R	2.209	1.00
78_G	108_H	2.208	1.00
79_A	108_H	2.199	1.00
76_E	104_K	2.186	1.00
69_H	86_D	2.149	1.00
278_N	281_L	2.090	1.00
308_P	318_N	2.088	1.00
321_R	325_K	2.087	1.00
302_P	309_I	2.065	1.00
167_V	242_M	2.056	1.00
12_L	50_I	2.033	1.00
21_R	27_E	2.028	1.00
103_E	107_Q	2.023	1.00
121_I	124_I	2.015	1.00
41_N	46_D	1.983	1.00
171_R	292_E	1.971	1.00
100_L	103_E	1.945	1.00
323_R	329_P	1.933	1.00
320_R	324_Q	1.921	1.00
42_L	323_R	1.910	1.00
203_P	215_T	1.881	1.00
17_Q	31_K	1.846	1.00
151_A	227_S	1.810	1.00
179_L	238_A	1.797	1.00
209_V	222_E	1.775	1.00
175_F	321_R	1.773	1.00
17_Q	21_R	1.757	1.00
102_I	134_A	1.747	1.00
129_E	133_A	1.725	1.00
34_A	38_I	1.721	1.00
14_S	18_A	1.710	1.00
94_A	274_T	1.701	1.00
74_V	84_D	1.680	1.00
186_I	205_C	1.678	1.00
135_G	288_N	1.668	1.00
195_W	218_A	1.668	1.00
101_G	111_A	1.667	1.00
208_D	219_V	1.655	1.00
52_M	189_G	1.631	1.00
305_D	308_P	1.602	1.00
78_G	104_K	1.596	1.00
121_I	140_H	1.589	1.00
101_G	276_I	1.576	1.00
162_T	183_T	1.571	1.00
131_C	276_I	1.559	1.00
168_V	178_L	1.556	1.00
9_A	42_L	1.550	1.00
151_A	207_I	1.542	1.00
106_H	136_F	1.529	1.00
81_V	111_A	1.527	1.00
136_F	279_P	1.524	1.00
81_V	113_V	1.520	1.00
201_V	205_C	1.492	0.99
84_D	117_N	1.491	0.99
304_D	308_P	1.473	0.99
150_V	184_S	1.472	0.99
207_I	227_S	1.471	0.99
335_W	339_C	1.470	0.99
138_S	168_V	1.467	0.99
138_S	276_I	1.462	0.99
33_V	89_F	1.442	0.99
66_Q	69_H	1.436	0.99
165_F	243_C	1.428	0.99
201_V	220_M	1.420	0.99
17_Q	27_E	1.413	0.99
98_M	130_Q	1.413	0.99
299_K	308_P	1.408	0.99
15_F	342_A	1.400	0.99
43_A	320_R	1.393	0.99
336_Q	340_D	1.389	0.99
187_A	190_K	1.373	0.99
6_R	329_P	1.354	0.99
101_G	113_V	1.352	0.99
110_I	275_I	1.345	0.99
98_M	276_I	1.342	0.99
245_I	291_T	1.338	0.99
112_A	275_I	1.336	0.99
95_H	130_Q	1.329	0.99
81_V	100_L	1.317	0.99
100_L	104_K	1.307	0.99
253_G	271_C	1.305	0.99
69_H	88_A	1.299	0.99
139_I	275_I	1.293	0.98
48_H	120_H	1.291	0.98
194_A	201_V	1.272	0.98
32_L	95_H	1.266	0.98
29_E	92_V	1.264	0.98
73_T	83_L	1.264	0.98
118_S	272_M	1.250	0.98
111_A	276_I	1.249	0.98
19_V	57_V	1.249	0.98
102_I	136_F	1.244	0.98
87_R	117_N	1.237	0.98
214_T	220_M	1.234	0.98
25_S	89_F	1.231	0.98
157_D	301_S	1.224	0.98
16_I	53_I	1.221	0.98
42_L	324_Q	1.219	0.98
254_K	269_L	1.214	0.98
279_P	284_A	1.206	0.98
27_E	31_K	1.204	0.98
36_H	91_Q	1.202	0.98
247_G	271_C	1.201	0.98
105_A	111_A	1.201	0.98
77_A	281_L	1.196	0.97
112_A	273_T	1.185	0.97
206_L	214_T	1.185	0.97
73_T	81_V	1.176	0.97
218_A	222_E	1.166	0.97
319_T	323_R	1.163	0.97
296_E	300_A	1.151	0.97
84_D	116_H	1.141	0.97
57_V	341_A	1.137	0.97
201_V	206_L	1.132	0.96
177_L	241_A	1.127	0.96
47_S	190_K	1.126	0.96
81_V	101_G	1.123	0.96
65_L	119_H	1.122	0.96
331_D	334_S	1.118	0.96
285_P	288_N	1.115	0.96
169_F	242_M	1.106	0.96
60_W	67_I	1.105	0.96
18_A	21_R	1.098	0.96
172_K	289_A	1.095	0.96
81_V	104_K	1.089	0.96
295_A	299_K	1.088	0.96
105_A	136_F	1.085	0.95
310_L	316_E	1.080	0.95
16_I	20_F	1.080	0.95
80_A	282_F	1.076	0.95
82_T	116_H	1.076	0.95
23_M	57_V	1.074	0.95
310_L	318_N	1.071	0.95
336_Q	339_C	1.069	0.95
128_A	140_H	1.068	0.95
310_L	315_W	1.064	0.95
195_W	217_P	1.063	0.95
318_N	322_E	1.061	0.95
142_V	272_M	1.060	0.95
74_V	82_T	1.058	0.95
112_A	277_I	1.056	0.95
20_F	33_V	1.054	0.95
330_L	335_W	1.048	0.95
188_F	221_Q	1.043	0.94
117_N	269_L	1.039	0.94
112_A	282_F	1.035	0.94
102_I	105_A	1.034	0.94
173_D	292_E	1.031	0.94
106_H	278_N	1.030	0.94
102_I	106_H	1.028	0.94
102_I	131_C	1.018	0.94
144_V	149_M	1.015	0.94
125_G	128_A	1.011	0.93
71_A	86_D	1.005	0.93
12_L	328_I	1.003	0.93
58_R	62_Q	0.996	0.93
165_F	239_L	0.996	0.93
9_A	38_I	0.994	0.93
8_D	11_T	0.993	0.93
194_A	199_V	0.990	0.93
141_F	243_C	0.990	0.93
181_Y	238_A	0.986	0.93
304_D	307_K	0.985	0.93
98_M	138_S	0.984	0.92
13_H	31_K	0.983	0.92
160_F	240_A	0.975	0.92
29_E	70_H	0.967	0.92
140_H	274_T	0.965	0.92
191_T	282_F	0.963	0.92
172_K	292_E	0.953	0.91
128_A	168_V	0.949	0.91
96_E	99_A	0.945	0.91
120_H	189_G	0.944	0.91
16_I	34_A	0.938	0.91
97_A	113_V	0.934	0.90
77_A	278_N	0.932	0.90
26_E	68_N	0.932	0.90
16_I	50_I	0.931	0.90
159_R	301_S	0.930	0.90
152_P	237_Y	0.926	0.90
315_W	319_T	0.926	0.90
292_E	295_A	0.923	0.90
129_E	178_L	0.916	0.90
319_T	322_E	0.915	0.89
172_K	288_N	0.914	0.89
200_P	216_N	0.914	0.89
30_A	34_A	0.914	0.89
153_F	237_Y	0.907	0.89
177_L	295_A	0.904	0.89
149_M	188_F	0.904	0.89
23_M	61_S	0.904	0.89
31_K	35_D	0.904	0.89
26_E	29_E	0.902	0.89
12_L	330_L	0.898	0.89
15_F	19_V	0.893	0.88
85_G	115_L	0.890	0.88
150_V	183_T	0.890	0.88
35_D	126_Y	0.887	0.88
191_T	220_M	0.884	0.88
121_I	272_M	0.882	0.88
212_V	304_D	0.879	0.88
214_T	219_V	0.875	0.87
70_H	96_E	0.874	0.87
50_I	334_S	0.873	0.87
99_A	103_E	0.869	0.87
39_A	320_R	0.868	0.87
9_A	324_Q	0.867	0.87
302_P	308_P	0.864	0.87
279_P	283_G	0.861	0.86
204_G	229_L	0.860	0.86
73_T	96_E	0.860	0.86
115_L	272_M	0.859	0.86
241_A	294_F	0.859	0.86
173_D	296_E	0.858	0.86
129_E	320_R	0.854	0.86
244_E	248_G	0.847	0.86
73_T	100_L	0.846	0.85
13_H	17_Q	0.838	0.85
186_I	190_K	0.834	0.85
321_R	324_Q	0.831	0.84
159_R	297_W	0.827	0.84
258_Q	297_W	0.822	0.84
292_E	296_E	0.819	0.84
10_Q	14_S	0.817	0.83
203_P	213_P	0.816	0.83
181_Y	239_L	0.812	0.83
72_K	84_D	0.803	0.82
160_F	241_A	0.802	0.82
183_T	231_F	0.801	0.82
71_A	83_L	0.801	0.82
83_L	113_V	0.800	0.82
105_A	276_I	0.798	0.82
295_A	311_L	0.798	0.82
104_K	111_A	0.794	0.82
43_A	129_E	0.792	0.81
237_Y	311_L	0.790	0.81
196_H	337_A	0.789	0.81
237_Y	241_A	0.788	0.81
174_N	296_E	0.788	0.81
9_A	328_I	0.787	0.81
85_G	118_S	0.786	0.81
291_T	295_A	0.785	0.81
114_A	273_T	0.783	0.81
169_F	287_C	0.780	0.80
98_M	102_I	0.779	0.80
48_H	189_G	0.779	0.80
167_V	243_C	0.778	0.80
93_A	115_L	0.774	0.80
131_C	138_S	0.770	0.80
309_I	314_E	0.768	0.79
80_A	281_L	0.767	0.79
94_A	121_I	0.763	0.79
100_L	113_V	0.763	0.79
83_L	97_A	0.763	0.79
329_P	332_A	0.760	0.79
144_V	161_G	0.760	0.79
171_R	295_A	0.758	0.79
7_F	335_W	0.747	0.78
99_A	134_A	0.747	0.78
207_I	229_L	0.746	0.77
183_T	240_A	0.746	0.77
25_S	33_V	0.746	0.77
82_T	114_A	0.743	0.77
311_L	314_E	0.742	0.77
71_A	93_A	0.742	0.77
11_T	14_S	0.741	0.77
141_F	273_T	0.736	0.76
9_A	13_H	0.734	0.76
87_R	269_L	0.733	0.76
174_N	299_K	0.733	0.76
43_A	123_R	0.733	0.76
155_G	237_Y	0.732	0.76
51_G	192_R	0.731	0.76
170_P	176_P	0.731	0.76
101_G	131_C	0.728	0.76
204_G	215_T	0.726	0.75
52_M	120_H	0.722	0.75
150_V	227_S	0.721	0.75
286_D	289_A	0.716	0.74
156_R	210_N	0.716	0.74
140_H	272_M	0.712	0.74
150_V	230_T	0.711	0.74
39_A	126_Y	0.710	0.74
302_P	306_D	0.710	0.74
75_K	107_Q	0.708	0.74
135_G	285_P	0.708	0.74
314_E	317_V	0.707	0.74
314_E	318_N	0.706	0.73
280_E	284_A	0.704	0.73
139_I	167_V	0.703	0.73
71_A	96_E	0.703	0.73
56_Y	122_G	0.700	0.73
50_I	330_L	0.700	0.73
202_P	205_C	0.699	0.73
83_L	96_E	0.697	0.73
8_D	328_I	0.693	0.72
23_M	60_W	0.692	0.72
83_L	100_L	0.692	0.72
32_L	92_V	0.692	0.72
52_M	192_R	0.691	0.72
185_A	233_E	0.690	0.72
15_F	338_I	0.690	0.72
150_V	240_A	0.688	0.72
77_A	108_H	0.683	0.71
44_G	313_G	0.680	0.71
41_N	323_R	0.680	0.71
162_T	204_G	0.678	0.70
283_G	290_Q	0.672	0.70
121_I	316_E	0.672	0.70
334_S	337_A	0.670	0.70
206_L	221_Q	0.668	0.69
160_F	294_F	0.668	0.69
35_D	95_H	0.667	0.69
318_N	321_R	0.665	0.69
187_A	194_A	0.665	0.69
209_V	219_V	0.663	0.69
137_V	246_L	0.663	0.69
171_R	176_P	0.661	0.68
95_H	99_A	0.653	0.68
17_Q	34_A	0.652	0.67
167_V	246_L	0.652	0.67
193_V	197_K	0.651	0.67
115_L	274_T	0.650	0.67
47_S	120_H	0.649	0.67
169_F	245_I	0.647	0.67
191_T	201_V	0.646	0.67
28_Q	70_H	0.645	0.67
185_A	205_C	0.644	0.66
56_Y	120_H	0.644	0.66
128_A	132_A	0.643	0.66
195_W	221_Q	0.643	0.66
257_H	297_W	0.642	0.66
76_E	108_H	0.642	0.66
54_P	337_A	0.639	0.66
98_M	101_G	0.639	0.66
303_H	306_D	0.634	0.65
70_H	86_D	0.634	0.65
198_G	218_A	0.634	0.65
28_Q	31_K	0.633	0.65
36_H	123_R	0.633	0.65
191_T	228_L	0.631	0.65
136_F	276_I	0.629	0.65
104_K	108_H	0.627	0.64
18_A	22_Q	0.626	0.64
250_L	277_I	0.626	0.64
33_V	92_V	0.626	0.64
144_V	162_T	0.624	0.64
19_V	53_I	0.624	0.64
12_L	38_I	0.623	0.64
183_T	237_Y	0.619	0.63
37_L	53_I	0.615	0.63
52_M	188_F	0.612	0.63
209_V	325_K	0.612	0.63
40_A	122_G	0.610	0.62
177_L	312_P	0.609	0.62
319_T	329_P	0.608	0.62
133_A	175_F	0.608	0.62
152_P	301_S	0.606	0.62
201_V	215_T	0.604	0.62
188_F	206_L	0.604	0.62
299_K	311_L	0.603	0.61
255_T	293_A	0.602	0.61
118_S	121_I	0.601	0.61
243_C	270_N	0.600	0.61
137_V	277_I	0.600	0.61
13_H	324_Q	0.599	0.61
63_G	217_P	0.599	0.61
246_L	273_T	0.597	0.61
29_E	68_N	0.595	0.60
33_V	91_Q	0.595	0.60
231_F	239_L	0.593	0.60
10_Q	13_H	0.592	0.60
36_H	126_Y	0.591	0.60
298_V	309_I	0.590	0.60
143_S	253_G	0.589	0.60
333_G	337_A	0.586	0.59
41_N	50_I	0.585	0.59
75_K	104_K	0.585	0.59
74_V	116_H	0.583	0.59
46_D	329_P	0.579	0.58
192_R	195_W	0.578	0.58
337_A	340_D	0.578	0.58
86_D	286_D	0.577	0.58
245_I	287_C	0.576	0.58
171_R	174_N	0.576	0.58
78_G	107_Q	0.575	0.58
124_I	272_M	0.574	0.58
76_E	100_L	0.573	0.58
82_T	281_L	0.573	0.58
192_R	196_H	0.572	0.57
219_V	222_E	0.572	0.57
66_Q	88_A	0.571	0.57
29_E	89_F	0.570	0.57
57_V	61_S	0.567	0.57
43_A	316_E	0.567	0.57
87_R	268_I	0.566	0.57
102_I	130_Q	0.565	0.56
15_F	18_A	0.562	0.56
97_A	115_L	0.561	0.56
163_N	243_C	0.559	0.56
141_F	150_V	0.553	0.55
103_E	134_A	0.553	0.55
31_K	68_N	0.552	0.55
310_L	314_E	0.552	0.55
179_L	242_M	0.552	0.55
103_E	200_P	0.550	0.55
299_K	309_I	0.550	0.55
289_A	293_A	0.549	0.54
51_G	196_H	0.549	0.54
46_D	50_I	0.548	0.54
169_F	177_L	0.548	0.54
185_A	229_L	0.547	0.54
31_K	212_V	0.547	0.54
157_D	300_A	0.547	0.54
74_V	104_K	0.546	0.54
88_A	91_Q	0.546	0.54
36_H	127_W	0.545	0.54
210_N	325_K	0.544	0.54
242_M	273_T	0.543	0.54
231_F	272_M	0.541	0.53
7_F	12_L	0.537	0.53
12_L	338_I	0.536	0.53
128_A	178_L	0.534	0.52
47_S	142_V	0.534	0.52
36_H	40_A	0.532	0.52
88_A	93_A	0.531	0.52
118_S	143_S	0.530	0.52
39_A	43_A	0.530	0.52
47_S	193_V	0.529	0.52
48_H	232_A	0.529	0.52
79_A	110_I	0.529	0.52
19_V	23_M	0.528	0.52
48_H	52_M	0.528	0.52
96_E	100_L	0.528	0.52
241_A	298_V	0.527	0.51
300_A	318_N	0.526	0.51
298_V	311_L	0.526	0.51
13_H	38_I	0.526	0.51
76_E	81_V	0.526	0.51
162_T	271_C	0.525	0.51
123_R	143_S	0.523	0.51
135_G	172_K	0.522	0.51
53_I	165_F	0.521	0.51
149_M	185_A	0.520	0.50
147_I	184_S	0.519	0.50
46_D	328_I	0.518	0.50
7_F	11_T	0.517	0.50
90_G	127_W	0.517	0.50
85_G	237_Y	0.516	0.50
18_A	325_K	0.514	0.50
149_M	184_S	0.513	0.50
174_N	292_E	0.513	0.50
156_R	304_D	0.512	0.49
132_A	135_G	0.511	0.49
150_V	160_F	0.510	0.49
94_A	115_L	0.510	0.49
196_H	334_S	0.509	0.49
128_A	138_S	0.508	0.49
190_K	194_A	0.508	0.49
120_H	190_K	0.507	0.49
59_S	119_H	0.507	0.49
260_T	266_D	0.507	0.49
209_V	214_T	0.507	0.49
147_I	188_F	0.506	0.49
24_G	105_A	0.506	0.49
28_Q	96_E	0.506	0.49
197_K	331_D	0.505	0.48
150_V	162_T	0.505	0.48
76_E	80_A	0.505	0.48
27_E	70_H	0.505	0.48
40_A	123_R	0.505	0.48
52_M	196_H	0.504	0.48
105_A	109_G	0.504	0.48
47_S	52_M	0.504	0.48
132_A	292_E	0.503	0.48
48_H	190_K	0.502	0.48
258_Q	293_A	0.501	0.48
153_F	234_H	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
2g8yA	2	0.9945	100	0.079	Contact Map
1v9nA	2	0.9197	100	0.096	Contact Map
3i0pA	2	0.9557	100	0.096	Contact Map
1vbiA	2	0.9307	100	0.103	Contact Map
1z2iA	2	0.9474	100	0.104	Contact Map
2x06A	2	0.9446	100	0.105	Contact Map
3uoeA	2	0.9252	100	0.106	Contact Map
1wtjA	2	0.9252	100	0.109	Contact Map
4h8aA	2	0.9224	100	0.118	Contact Map
1nxuA	2	0.9169	100	0.12	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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