CBRA - ECOLI - GREMLIN Contacts

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CBRA - Protein CbrA

UniProt:	P31456	Sequences: MEHFDVAIIGLGPAGSALARKLAGKMQVIALDKKHQCGTEGFSKPCGGLLAPDAQRSFIRDGLTLPVDVIANPQIFSVKTVDVAASLTRNYQRSYININRHAFDLWMKSLIPASVEVYHDSLCRKIWREDDKWHVIFRADGWEQHITARYLVGADGANSMVRRHLYPDHQIRKYVAIQQWFAEKHPVPFYSCIFDNSITNCYSWSISKDGYFIFGGAYPMKDGQTRFTTLKEKMSAFQFQFGKTVKSEKCTVLFPSRWQDFVCGKDNAFLIGEAAGFISASSLEGISYALDSTDILRSVLLKQPEKLNTAYWRATRKLRLKLFGKIVKSRCLTAPALRKWIMRSGVAHIPQLKD	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11714
Length:	354 (314)
Sequences:	28790 (22201)
Seq/√Len:	1252.9

ECOLI - CBRA UBII UBIF MHPA FIXC UBIH YDIS YGCN
BACSU - YHJG YETM
HALSA - Q9HMA0 Q9HS01 Q9HQE5 Q9HS24
SULSO - Q97V59 Q97V18 Q97W89 Q97ZK8 Q97W83

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
29_I	118_Y	3.893	1.00
33_K	122_L	3.325	1.00
14_A	289_A	3.304	1.00
7_A	148_A	3.168	1.00
5_D	27_Q	3.122	1.00
5_D	149_R	2.985	1.00
312_W	316_R	2.788	1.00
125_K	164_H	2.517	1.00
110_L	113_A	2.467	1.00
18_L	152_V	2.453	1.00
31_L	146_I	2.443	1.00
25_K	301_L	2.329	1.00
134_H	147_T	2.284	1.00
125_K	136_I	2.275	1.00
122_L	138_R	2.274	1.00
21_K	297_R	2.262	1.00
134_H	145_H	2.242	1.00
127_W	134_H	2.242	1.00
136_I	145_H	2.241	1.00
7_A	31_L	2.239	1.00
105_L	109_S	2.187	1.00
121_S	142_W	2.180	1.00
68_D	109_S	2.143	1.00
7_A	135_V	2.143	1.00
132_K	147_T	2.038	1.00
14_A	271_I	1.979	1.00
227_F	231_K	1.972	1.00
17_A	290_L	1.952	1.00
153_G	161_V	1.921	1.00
59_I	66_P	1.917	1.00
118_Y	121_S	1.882	1.00
68_D	110_L	1.869	1.00
20_R	110_L	1.860	1.00
127_W	136_I	1.838	1.00
121_S	137_F	1.816	1.00
299_V	314_A	1.815	1.00
137_F	146_I	1.794	1.00
27_Q	116_E	1.791	1.00
121_S	144_Q	1.783	1.00
6_V	22_L	1.739	1.00
153_G	270_L	1.724	1.00
129_E	134_H	1.723	1.00
6_V	26_M	1.720	1.00
35_H	120_D	1.692	1.00
293_T	297_R	1.686	1.00
5_D	29_I	1.683	1.00
57_S	294_D	1.682	1.00
123_C	135_V	1.682	1.00
31_L	137_F	1.679	1.00
54_A	287_S	1.657	1.00
154_A	271_I	1.656	1.00
316_R	320_L	1.632	1.00
299_V	310_A	1.619	1.00
228_T	232_E	1.580	1.00
155_D	159_S	1.578	1.00
124_R	138_R	1.575	1.00
262_V	265_K	1.560	1.00
60_R	294_D	1.552	1.00
26_M	301_L	1.550	1.00
67_V	71_A	1.541	1.00
118_Y	144_Q	1.539	1.00
128_R	265_K	1.530	1.00
232_E	235_S	1.510	1.00
111_I	115_V	1.498	1.00
23_A	115_V	1.490	1.00
29_I	146_I	1.486	1.00
295_I	299_V	1.485	1.00
264_G	309_T	1.484	1.00
129_E	147_T	1.482	1.00
7_A	146_I	1.481	1.00
68_D	71_A	1.480	1.00
137_F	144_Q	1.476	1.00
108_K	119_H	1.469	1.00
239_F	245_V	1.441	1.00
264_G	269_F	1.437	1.00
129_E	132_K	1.436	1.00
18_L	293_T	1.436	1.00
229_T	232_E	1.432	1.00
20_R	24_G	1.421	1.00
68_D	113_A	1.419	1.00
19_A	30_A	1.403	1.00
160_M	164_H	1.398	1.00
126_I	151_L	1.377	1.00
66_P	70_I	1.374	1.00
192_C	195_D	1.364	1.00
150_Y	308_N	1.359	1.00
108_K	112_P	1.359	1.00
239_F	244_T	1.355	1.00
295_I	314_A	1.355	1.00
152_V	271_I	1.344	1.00
231_K	235_S	1.336	1.00
269_F	296_L	1.334	1.00
13_P	286_I	1.333	1.00
72_N	102_A	1.326	1.00
291_D	318_L	1.318	1.00
233_K	237_F	1.315	1.00
292_S	315_T	1.309	1.00
136_I	143_E	1.309	1.00
165_L	268_A	1.284	1.00
229_T	233_K	1.284	1.00
298_S	314_A	1.283	1.00
21_K	61_D	1.263	1.00
20_R	111_I	1.252	1.00
9_I	123_C	1.249	1.00
152_V	269_F	1.235	1.00
9_I	155_D	1.231	1.00
262_V	312_W	1.217	1.00
299_V	307_L	1.215	1.00
89_R	92_Q	1.208	1.00
232_E	236_A	1.207	1.00
118_Y	146_I	1.204	1.00
127_W	145_H	1.196	1.00
8_I	18_L	1.195	1.00
109_S	112_P	1.195	1.00
234_M	237_F	1.193	1.00
263_C	319_R	1.189	1.00
240_Q	245_V	1.180	1.00
54_A	290_L	1.176	1.00
239_F	242_G	1.170	1.00
160_M	163_R	1.164	1.00
133_W	267_N	1.162	1.00
176_A	179_Q	1.159	1.00
135_V	148_A	1.155	1.00
82_D	86_S	1.154	1.00
67_V	70_I	1.150	1.00
276_G	292_S	1.149	1.00
7_A	29_I	1.148	1.00
138_R	142_W	1.145	1.00
123_C	126_I	1.137	1.00
124_R	143_E	1.126	1.00
228_T	231_K	1.117	1.00
23_A	114_S	1.111	1.00
227_F	230_L	1.110	1.00
18_L	22_L	1.109	1.00
238_Q	242_G	1.106	1.00
242_G	245_V	1.103	1.00
102_A	105_L	1.103	1.00
123_C	161_V	1.096	1.00
29_I	116_E	1.084	1.00
299_V	302_K	1.073	1.00
17_A	61_D	1.071	1.00
241_F	245_V	1.070	1.00
85_A	88_T	1.069	1.00
5_D	26_M	1.065	1.00
249_K	252_V	1.060	1.00
263_C	312_W	1.054	1.00
28_V	115_V	1.053	1.00
148_A	151_L	1.051	1.00
238_Q	241_F	1.046	1.00
124_R	136_I	1.042	1.00
182_A	243_K	1.042	1.00
128_R	267_N	1.037	1.00
45_P	48_G	1.033	1.00
68_D	106_W	1.030	1.00
11_L	16_S	1.030	1.00
68_D	72_N	1.028	1.00
9_I	161_V	1.028	1.00
137_F	142_W	1.027	1.00
157_A	277_F	1.026	1.00
137_F	143_E	1.026	1.00
138_R	143_E	1.026	1.00
182_A	211_Y	1.025	1.00
48_G	286_I	1.023	1.00
82_D	85_A	1.022	1.00
265_K	268_A	1.014	1.00
278_I	288_Y	1.009	1.00
270_L	274_A	1.004	1.00
17_A	21_K	1.002	1.00
24_G	110_L	1.000	1.00
204_W	215_G	0.997	1.00
195_D	198_I	0.992	1.00
18_L	271_I	0.989	1.00
175_V	179_Q	0.988	1.00
126_I	164_H	0.988	1.00
241_F	244_T	0.986	1.00
30_A	117_V	0.985	1.00
31_L	118_Y	0.981	1.00
36_Q	41_G	0.979	1.00
255_P	258_W	0.976	1.00
174_Y	178_Q	0.975	1.00
126_I	165_L	0.974	1.00
8_I	19_A	0.970	1.00
55_Q	66_P	0.968	1.00
72_N	105_L	0.962	1.00
123_C	160_M	0.962	1.00
128_R	133_W	0.960	1.00
231_K	237_F	0.955	1.00
176_A	180_W	0.951	1.00
320_L	324_G	0.949	1.00
99_N	102_A	0.948	1.00
230_L	234_M	0.946	1.00
41_G	119_H	0.944	1.00
242_G	246_K	0.935	1.00
177_I	180_W	0.929	1.00
182_A	210_G	0.927	1.00
60_R	298_S	0.927	1.00
227_F	233_K	0.925	1.00
31_L	121_S	0.924	1.00
278_I	323_F	0.924	1.00
309_T	313_R	0.923	1.00
8_I	28_V	0.921	1.00
247_S	250_C	0.920	1.00
133_W	151_L	0.918	1.00
233_K	236_A	0.918	1.00
231_K	234_M	0.914	1.00
108_K	117_V	0.913	1.00
295_I	298_S	0.912	1.00
19_A	28_V	0.911	1.00
247_S	252_V	0.910	1.00
16_S	111_I	0.906	1.00
109_S	113_A	0.903	1.00
264_G	312_W	0.902	1.00
72_N	106_W	0.899	1.00
260_D	263_C	0.896	1.00
244_T	247_S	0.895	1.00
173_K	176_A	0.893	1.00
53_D	291_D	0.892	1.00
310_A	313_R	0.892	1.00
240_Q	244_T	0.887	1.00
106_W	110_L	0.885	1.00
20_R	61_D	0.884	1.00
271_I	311_Y	0.883	1.00
188_P	191_S	0.882	1.00
173_K	177_I	0.881	1.00
41_G	108_K	0.880	1.00
239_F	243_K	0.877	1.00
185_H	188_P	0.874	1.00
153_G	268_A	0.873	1.00
222_D	225_T	0.873	1.00
178_Q	182_A	0.873	1.00
48_G	100_R	0.867	1.00
21_K	25_K	0.864	1.00
65_L	110_L	0.864	1.00
230_L	237_F	0.864	1.00
49_L	95_Y	0.860	1.00
69_V	106_W	0.859	1.00
55_Q	96_I	0.858	1.00
56_R	59_I	0.858	1.00
36_Q	119_H	0.855	1.00
243_K	246_K	0.853	1.00
16_S	104_D	0.847	1.00
106_W	109_S	0.842	1.00
302_K	310_A	0.840	1.00
179_Q	182_A	0.835	1.00
16_S	108_K	0.835	1.00
168_D	261_F	0.832	1.00
187_V	190_Y	0.826	1.00
223_G	226_R	0.823	1.00
29_I	148_A	0.823	1.00
248_E	251_T	0.820	1.00
327_V	331_C	0.818	1.00
9_I	151_L	0.816	1.00
182_A	245_V	0.812	1.00
32_D	119_H	0.809	1.00
254_F	258_W	0.807	1.00
23_A	111_I	0.807	1.00
123_C	164_H	0.805	1.00
5_D	148_A	0.801	1.00
53_D	284_E	0.799	1.00
65_L	106_W	0.796	1.00
13_P	290_L	0.790	1.00
22_L	26_M	0.790	1.00
152_V	296_L	0.783	1.00
135_V	151_L	0.780	1.00
270_L	275_A	0.780	1.00
175_V	178_Q	0.779	1.00
250_C	254_F	0.778	1.00
111_I	114_S	0.777	1.00
21_K	24_G	0.777	1.00
269_F	311_Y	0.772	1.00
150_Y	269_F	0.772	1.00
159_S	162_R	0.771	1.00
310_A	314_A	0.771	1.00
23_A	28_V	0.769	1.00
100_R	104_D	0.767	1.00
53_D	56_R	0.767	1.00
19_A	115_V	0.766	1.00
133_W	137_F	0.766	1.00
46_C	100_R	0.763	1.00
49_L	97_N	0.755	1.00
69_V	103_F	0.755	1.00
169_H	173_K	0.752	1.00
22_L	297_R	0.751	1.00
177_I	182_A	0.748	1.00
247_S	251_T	0.746	1.00
161_V	268_A	0.744	1.00
294_D	298_S	0.743	1.00
11_L	32_D	0.741	1.00
112_P	116_E	0.738	1.00
104_D	108_K	0.736	1.00
187_V	191_S	0.736	1.00
31_L	148_A	0.736	1.00
23_A	112_P	0.735	1.00
256_S	327_V	0.734	1.00
227_F	235_S	0.734	1.00
126_I	268_A	0.733	1.00
297_R	301_L	0.732	1.00
22_L	300_L	0.730	1.00
186_P	189_F	0.728	1.00
264_G	308_N	0.725	1.00
246_K	250_C	0.725	1.00
314_A	317_K	0.723	1.00
277_F	292_S	0.723	1.00
278_I	282_S	0.722	1.00
23_A	116_E	0.722	1.00
282_S	326_I	0.721	1.00
19_A	111_I	0.719	1.00
26_M	304_P	0.719	1.00
128_R	266_D	0.719	1.00
303_Q	310_A	0.711	1.00
54_A	57_S	0.710	1.00
98_I	103_F	0.709	1.00
167_P	260_D	0.706	1.00
62_G	65_L	0.704	1.00
5_D	146_I	0.703	1.00
153_G	159_S	0.702	1.00
59_I	70_I	0.702	1.00
34_K	42_F	0.700	1.00
176_A	182_A	0.697	1.00
58_F	290_L	0.696	1.00
79_K	87_L	0.692	1.00
126_I	161_V	0.692	1.00
192_C	196_N	0.690	1.00
185_H	189_F	0.690	1.00
179_Q	214_F	0.688	1.00
170_Q	173_K	0.686	1.00
317_K	321_K	0.682	1.00
260_D	270_L	0.681	1.00
263_C	275_A	0.680	1.00
248_E	252_V	0.680	1.00
167_P	265_K	0.680	1.00
172_R	177_I	0.673	1.00
17_A	107_M	0.673	1.00
25_K	297_R	0.670	1.00
172_R	327_V	0.665	1.00
238_Q	244_T	0.663	1.00
286_I	289_A	0.659	1.00
186_P	190_Y	0.653	1.00
11_L	30_A	0.650	1.00
51_A	287_S	0.649	1.00
306_K	310_A	0.649	1.00
21_K	57_S	0.649	1.00
150_Y	300_L	0.648	1.00
153_G	165_L	0.644	1.00
21_K	294_D	0.642	1.00
230_L	233_K	0.641	1.00
284_E	288_Y	0.638	1.00
58_F	65_L	0.637	1.00
286_I	290_L	0.635	1.00
61_D	65_L	0.634	1.00
36_Q	42_F	0.633	1.00
288_Y	322_L	0.630	1.00
28_V	111_I	0.630	1.00
81_V	87_L	0.629	1.00
281_S	330_R	0.626	1.00
173_K	178_Q	0.625	1.00
238_Q	245_V	0.625	1.00
165_L	265_K	0.625	1.00
193_I	196_N	0.620	1.00
57_S	61_D	0.619	1.00
162_R	270_L	0.618	1.00
219_P	222_D	0.615	1.00
134_H	137_F	0.615	1.00
20_R	23_A	0.614	1.00
227_F	234_M	0.614	1.00
213_I	217_A	0.613	1.00
16_S	117_V	0.612	1.00
161_V	164_H	0.612	1.00
132_K	149_R	0.610	1.00
230_L	235_S	0.606	1.00
66_P	69_V	0.603	1.00
301_L	305_E	0.603	1.00
16_S	30_A	0.602	1.00
172_R	176_A	0.601	1.00
240_Q	243_K	0.600	1.00
53_D	318_L	0.599	1.00
6_V	18_L	0.599	1.00
55_Q	59_I	0.596	1.00
111_I	117_V	0.594	1.00
6_V	150_Y	0.593	1.00
178_Q	181_F	0.593	1.00
254_F	257_R	0.591	1.00
319_R	323_F	0.591	1.00
81_V	86_S	0.588	1.00
227_F	237_F	0.587	1.00
169_H	172_R	0.585	1.00
291_D	315_T	0.584	1.00
18_L	297_R	0.582	1.00
324_G	328_K	0.580	1.00
89_R	93_R	0.578	1.00
208_K	211_Y	0.575	1.00
79_K	88_T	0.574	1.00
173_K	182_A	0.574	1.00
122_L	160_M	0.573	1.00
151_L	268_A	0.572	1.00
259_Q	263_C	0.571	1.00
284_E	287_S	0.571	1.00
202_Y	206_I	0.569	1.00
303_Q	306_K	0.569	1.00
206_I	215_G	0.568	1.00
239_F	246_K	0.564	1.00
57_S	60_R	0.563	1.00
169_H	175_V	0.562	1.00
271_I	293_T	0.558	1.00
229_T	236_A	0.557	1.00
175_V	180_W	0.557	1.00
218_Y	222_D	0.557	1.00
183_E	212_F	0.556	1.00
72_N	98_I	0.555	1.00
171_I	175_V	0.555	1.00
35_H	119_H	0.554	1.00
291_D	295_I	0.553	1.00
321_K	324_G	0.552	1.00
155_D	270_L	0.551	1.00
246_K	252_V	0.549	1.00
83_V	86_S	0.549	1.00
278_I	326_I	0.549	1.00
99_N	208_K	0.548	1.00
172_R	175_V	0.545	1.00
269_F	308_N	0.544	1.00
231_K	236_A	0.543	1.00
74_Q	94_S	0.542	1.00
152_V	300_L	0.542	1.00
84_A	87_L	0.542	1.00
69_V	96_I	0.541	1.00
75_I	78_V	0.541	1.00
44_K	48_G	0.539	1.00
28_V	114_S	0.539	1.00
282_S	329_S	0.538	1.00
14_A	152_V	0.538	1.00
198_I	201_C	0.538	1.00
252_V	255_P	0.538	1.00
21_K	293_T	0.536	1.00
41_G	104_D	0.534	1.00
121_S	138_R	0.534	1.00
279_S	282_S	0.532	1.00
132_K	135_V	0.532	1.00
149_R	304_P	0.532	1.00
243_K	247_S	0.531	1.00
59_I	93_R	0.530	1.00
229_T	237_F	0.530	1.00
276_G	315_T	0.530	1.00
149_R	267_N	0.529	1.00
295_I	311_Y	0.528	1.00
306_K	309_T	0.528	1.00
174_Y	177_I	0.526	1.00
153_G	160_M	0.525	1.00
59_I	67_V	0.524	1.00
79_K	82_D	0.523	1.00
123_C	137_F	0.522	1.00
151_L	267_N	0.521	1.00
65_L	69_V	0.519	1.00
31_L	135_V	0.518	1.00
172_R	178_Q	0.517	1.00
150_Y	304_P	0.515	1.00
263_C	316_R	0.515	1.00
202_Y	207_S	0.515	1.00
18_L	300_L	0.514	1.00
166_Y	260_D	0.514	1.00
20_R	115_V	0.513	1.00
288_Y	319_R	0.511	1.00
289_A	293_T	0.510	1.00
99_N	211_Y	0.508	1.00
298_S	302_K	0.508	1.00
201_C	233_K	0.506	1.00
238_Q	243_K	0.505	1.00
227_F	236_A	0.505	1.00
173_K	180_W	0.504	1.00
174_Y	181_F	0.502	1.00
256_S	259_Q	0.501	1.00
325_K	329_S	0.500	1.00

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
1pn0A	3	0.9689	100	0.339	Contact Map
2qa1A	2	0.9576	100	0.348	Contact Map
2qa2A	2	0.9605	100	0.35	Contact Map
2dkhA	2	0.9124	100	0.355	Contact Map
4k5sA	2	0.9633	100	0.366	Contact Map
4n9xA	5	0.9266	100	0.369	Contact Map
4k22A	4	0.9124	100	0.371	Contact Map
4k2xA	2	0.9492	100	0.377	Contact Map
2x3nA	1	0.9266	100	0.378	Contact Map
4bjzA	2	0.9746	100	0.385	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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