YDIS - ECOLI - GREMLIN Contacts

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YDIS - Probable electron transfer flavoprotein-quinone oxidoreductase YdiS

UniProt:	P77337	Sequences: MSDDKFDAIVVGAGVAGSVAALVMARAGLDVLVIERGDSAGCKNMTGGRLYAHTLEAIIPGFAVSAPVERKVTREKISFLTEESAVTLDFHREQPDVPQHASYTVLRNRLDPWLMEQAEQAGAQFIPGVRVDALVREGNKVTGVQAGDDILEANVVILADGVNSMLGRSLGMVPASDPHHYAVGVKEVIGLTPEQINDRFNITGEEGAAWLFAGSPSDGLMGGGFLYTNKDSISLGLVCGLGDIAHAQKSVPQMLEDFKQHPAIRPLISGGKLLEYSAHMVPEGGLAMVPQLVNEGVMIVGDAAGFCLNLGFTVRGMDLAIASAQAAATTVIAAKERADFSASSLAQYKRELEQSCVMRDMQHFRKIPALMENPRLFSQYPRMVADIMNEMFTIDGKPNQPVRKMIMGHAKKIGLINLLKDGIKGATAL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13978
Length:	429 (353)
Sequences:	26708 (20392)
Seq/√Len:	1085.4

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

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
32_L	126_I	4.169	1.00
36_R	130_R	3.587	1.00
16_A	320_A	3.489	1.00
9_I	153_A	3.440	1.00
349_K	353_E	3.289	1.00
7_D	30_D	3.251	1.00
7_D	154_N	3.206	1.00
130_R	147_G	2.810	1.00
6_F	32_L	2.784	1.00
133_A	169_S	2.686	1.00
129_V	148_D	2.677	1.00
117_Q	120_Q	2.633	1.00
133_A	145_Q	2.627	1.00
20_A	157_I	2.593	1.00
145_Q	150_I	2.575	1.00
9_I	144_V	2.541	1.00
34_I	151_L	2.538	1.00
142_T	152_E	2.518	1.00
23_V	328_A	2.493	1.00
66_A	116_E	2.378	1.00
9_I	34_I	2.367	1.00
27_A	332_I	2.347	1.00
132_D	147_G	2.321	1.00
112_P	116_E	2.284	1.00
16_A	300_V	2.167	1.00
135_V	145_Q	2.093	1.00
19_V	321_I	2.068	1.00
126_I	129_V	2.063	1.00
135_V	142_T	2.059	1.00
142_T	150_I	2.050	1.00
129_V	146_A	2.041	1.00
146_A	151_L	2.020	1.00
158_L	166_L	2.008	1.00
34_I	146_A	1.966	1.00
330_T	351_E	1.963	1.00
140_K	152_E	1.952	1.00
250_S	253_Q	1.948	1.00
129_V	149_D	1.938	1.00
137_E	142_T	1.936	1.00
8_A	29_L	1.887	1.00
131_V	144_V	1.873	1.00
293_V	346_A	1.870	1.00
59_I	64_V	1.865	1.00
22_L	117_Q	1.863	1.00
117_Q	121_A	1.852	1.00
330_T	347_Q	1.851	1.00
66_A	117_Q	1.825	1.00
146_A	149_D	1.816	1.00
159_A	300_V	1.803	1.00
38_D	128_G	1.797	1.00
30_D	124_Q	1.793	1.00
8_A	24_M	1.775	1.00
190_G	272_K	1.750	1.00
7_D	32_L	1.742	1.00
57_A	325_Q	1.741	1.00
291_Q	294_N	1.730	1.00
158_L	299_I	1.719	1.00
293_V	298_M	1.718	1.00
353_E	358_M	1.718	1.00
54_T	318_D	1.704	1.00
324_A	328_A	1.703	1.00
126_I	149_D	1.699	1.00
137_E	152_E	1.686	1.00
134_L	156_V	1.592	1.00
137_E	140_K	1.586	1.00
65_S	69_E	1.584	1.00
66_A	120_Q	1.581	1.00
29_L	332_I	1.576	1.00
115_M	127_P	1.568	1.00
25_A	123_A	1.565	1.00
118_A	123_A	1.560	1.00
326_A	330_T	1.553	1.00
136_R	294_N	1.549	1.00
9_I	151_L	1.545	1.00
66_A	69_E	1.543	1.00
21_A	33_V	1.534	1.00
326_A	351_E	1.527	1.00
155_V	345_L	1.520	1.00
329_T	351_E	1.518	1.00
26_R	121_A	1.514	1.00
292_L	356_C	1.504	1.00
252_P	256_E	1.493	1.00
170_L	297_V	1.489	1.00
60_P	325_Q	1.483	1.00
165_M	169_S	1.482	1.00
160_D	164_S	1.481	1.00
32_L	151_L	1.478	1.00
298_M	327_A	1.472	1.00
323_S	352_L	1.470	1.00
20_A	324_A	1.460	1.00
22_L	26_R	1.458	1.00
115_M	119_E	1.455	1.00
157_I	300_V	1.446	1.00
291_Q	349_K	1.440	1.00
251_V	255_L	1.419	1.00
23_V	61_G	1.414	1.00
279_H	283_E	1.401	1.00
54_T	321_I	1.400	1.00
292_L	349_K	1.396	1.00
322_A	355_S	1.387	1.00
15_V	317_M	1.363	1.00
262_P	265_R	1.339	1.00
70_R	109_R	1.336	1.00
25_A	121_A	1.320	1.00
10_V	20_A	1.305	1.00
11_V	131_V	1.304	1.00
22_L	118_A	1.284	1.00
116_E	119_E	1.280	1.00
157_I	298_M	1.271	1.00
330_T	344_S	1.268	1.00
253_Q	256_E	1.266	1.00
6_F	9_I	1.258	1.00
131_V	166_L	1.251	1.00
165_M	168_R	1.247	1.00
126_I	151_L	1.241	1.00
256_E	259_K	1.240	1.00
64_V	68_V	1.234	1.00
211_L	214_G	1.231	1.00
278_A	282_P	1.230	1.00
173_V	290_P	1.230	1.00
305_G	323_S	1.228	1.00
330_T	333_A	1.226	1.00
109_R	112_P	1.225	1.00
375_R	382_R	1.215	1.00
20_A	24_M	1.209	1.00
22_L	121_A	1.203	1.00
40_A	127_P	1.202	1.00
131_V	134_L	1.199	1.00
175_A	290_P	1.191	1.00
19_V	61_G	1.190	1.00
13_A	18_S	1.188	1.00
375_R	381_P	1.187	1.00
32_L	124_Q	1.186	1.00
11_V	160_D	1.181	1.00
9_I	32_L	1.178	1.00
144_V	153_A	1.178	1.00
153_A	156_V	1.172	1.00
135_V	150_I	1.169	1.00
293_V	349_K	1.163	1.00
136_R	296_G	1.160	1.00
279_H	282_P	1.145	1.00
134_L	169_S	1.144	1.00
45_M	48_G	1.143	1.00
187_E	190_G	1.140	1.00
7_D	29_L	1.130	1.00
266_P	269_S	1.130	1.00
20_A	300_V	1.127	1.00
11_V	166_L	1.127	1.00
162_V	306_F	1.120	1.00
106_L	109_R	1.119	1.00
280_M	283_E	1.119	1.00
65_S	68_V	1.109	1.00
136_R	141_V	1.097	1.00
81_T	84_S	1.096	1.00
358_M	362_Q	1.092	1.00
278_A	281_V	1.076	1.00
81_T	85_A	1.075	1.00
190_G	232_S	1.073	1.00
10_V	21_A	1.072	1.00
378_S	382_R	1.071	1.00
26_R	117_Q	1.067	1.00
132_D	145_Q	1.056	1.00
134_L	170_L	1.056	1.00
243_D	246_H	1.051	1.00
19_V	23_V	1.046	1.00
294_N	297_V	1.046	1.00
33_V	125_F	1.045	1.00
21_A	31_V	1.045	1.00
293_V	342_A	1.044	1.00
34_I	126_I	1.043	1.00
252_P	255_L	1.042	1.00
10_V	31_V	1.039	1.00
115_M	125_F	1.036	1.00
225_F	236_G	1.035	1.00
48_G	317_M	1.031	1.00
31_V	123_A	1.031	1.00
66_A	113_W	1.030	1.00
60_P	329_T	1.026	1.00
308_L	319_L	1.026	1.00
347_Q	350_R	1.017	1.00
86_V	89_D	1.015	1.00
278_A	283_E	1.015	1.00
300_V	348_Y	1.012	1.00
191_L	194_E	1.011	1.00
11_V	156_V	1.001	1.00
375_R	378_S	0.993	1.00
58_I	63_A	0.988	1.00
346_A	350_R	0.986	1.00
257_D	260_Q	0.986	1.00
299_I	303_A	0.985	1.00
6_F	30_D	0.985	1.00
374_P	377_F	0.982	1.00
34_I	129_V	0.981	1.00
141_V	156_V	0.980	1.00
18_S	118_A	0.978	1.00
6_F	124_Q	0.976	1.00
63_A	117_Q	0.974	1.00
25_A	122_G	0.972	1.00
309_N	312_F	0.971	1.00
289_V	299_I	0.957	1.00
283_E	365_R	0.956	1.00
142_T	145_Q	0.955	1.00
265_R	269_S	0.949	1.00
116_E	120_Q	0.946	1.00
56_E	59_I	0.941	1.00
35_E	127_P	0.939	1.00
22_L	61_G	0.934	1.00
40_A	115_M	0.933	1.00
144_V	156_V	0.930	1.00
326_A	329_T	0.923	1.00
55_L	64_V	0.923	1.00
141_V	296_G	0.922	1.00
333_A	347_Q	0.921	1.00
71_K	103_Y	0.921	1.00
63_A	113_W	0.916	1.00
53_H	315_R	0.911	1.00
131_V	165_M	0.909	1.00
87_T	90_F	0.906	1.00
253_Q	257_D	0.904	1.00
66_A	70_R	0.902	1.00
13_A	35_E	0.897	1.00
109_R	229_N	0.897	1.00
298_M	348_Y	0.896	1.00
70_R	112_P	0.895	1.00
70_R	113_W	0.887	1.00
15_V	321_I	0.881	1.00
187_E	235_L	0.881	1.00
48_G	107_R	0.881	1.00
308_L	361_M	0.880	1.00
131_V	169_S	0.878	1.00
53_H	322_A	0.877	1.00
113_W	116_E	0.875	1.00
18_S	115_M	0.874	1.00
263_A	266_P	0.873	1.00
365_R	369_A	0.870	1.00
158_L	297_V	0.869	1.00
32_L	153_A	0.868	1.00
271_G	274_L	0.864	1.00
188_V	191_L	0.864	1.00
113_W	117_Q	0.862	1.00
29_L	335_K	0.858	1.00
7_D	153_A	0.856	1.00
28_G	31_V	0.856	1.00
23_V	27_A	0.854	1.00
119_E	124_Q	0.851	1.00
172_M	289_V	0.849	1.00
375_R	379_Q	0.846	1.00
55_L	103_Y	0.845	1.00
293_V	345_L	0.844	1.00
25_A	31_V	0.832	1.00
207_G	211_L	0.831	1.00
134_L	166_L	0.831	1.00
255_L	259_K	0.828	1.00
374_P	381_P	0.827	1.00
262_P	266_P	0.822	1.00
134_L	297_V	0.822	1.00
254_M	258_F	0.819	1.00
292_L	353_E	0.816	1.00
34_I	153_A	0.814	1.00
39_S	127_P	0.808	1.00
164_S	167_G	0.807	1.00
136_R	295_E	0.806	1.00
67_P	113_W	0.805	1.00
49_R	102_S	0.804	1.00
24_M	29_L	0.803	1.00
342_A	346_A	0.803	1.00
25_A	119_E	0.803	1.00
347_Q	351_E	0.802	1.00
23_V	26_R	0.797	1.00
59_I	68_V	0.795	1.00
166_L	297_V	0.792	1.00
25_A	118_A	0.785	1.00
317_M	321_I	0.782	1.00
158_L	170_L	0.780	1.00
268_I	271_G	0.778	1.00
53_H	56_E	0.777	1.00
18_S	111_D	0.775	1.00
111_D	115_M	0.770	1.00
7_D	151_L	0.770	1.00
54_T	57_A	0.769	1.00
118_A	122_G	0.766	1.00
256_E	260_Q	0.766	1.00
308_L	313_T	0.762	1.00
49_R	104_T	0.761	1.00
209_A	214_G	0.760	1.00
76_K	208_A	0.760	1.00
208_A	211_L	0.756	1.00
24_M	331_V	0.754	1.00
299_I	304_A	0.753	1.00
340_F	344_S	0.752	1.00
172_M	294_N	0.752	1.00
255_L	269_S	0.751	1.00
292_L	304_A	0.751	1.00
255_L	258_F	0.751	1.00
119_E	122_G	0.751	1.00
266_P	270_G	0.745	1.00
351_E	354_Q	0.745	1.00
374_P	378_S	0.743	1.00
234_S	238_V	0.742	1.00
155_V	298_M	0.742	1.00
190_G	193_P	0.740	1.00
55_L	59_I	0.739	1.00
58_I	321_I	0.737	1.00
34_I	144_V	0.736	1.00
53_H	355_S	0.734	1.00
157_I	327_A	0.730	1.00
328_A	332_I	0.730	1.00
76_K	89_D	0.730	1.00
191_L	195_Q	0.728	1.00
295_E	342_A	0.723	1.00
245_A	249_K	0.722	1.00
192_T	195_Q	0.719	1.00
21_A	123_A	0.716	1.00
333_A	338_A	0.716	1.00
354_Q	359_R	0.714	1.00
190_G	231_D	0.714	1.00
8_A	155_V	0.713	1.00
376_L	379_Q	0.712	1.00
107_R	111_D	0.711	1.00
105_V	110_L	0.709	1.00
118_A	121_A	0.709	1.00
332_I	336_E	0.708	1.00
229_N	232_S	0.704	1.00
313_T	364_F	0.703	1.00
334_A	337_R	0.699	1.00
275_E	278_A	0.698	1.00
19_V	114_L	0.697	1.00
325_Q	329_T	0.697	1.00
130_R	165_M	0.692	1.00
251_V	258_F	0.691	1.00
82_E	85_A	0.690	1.00
23_V	57_A	0.690	1.00
67_P	110_L	0.687	1.00
337_R	341_S	0.687	1.00
207_G	212_F	0.686	1.00
245_A	248_Q	0.686	1.00
21_A	118_A	0.686	1.00
24_M	328_A	0.684	1.00
317_M	320_A	0.679	1.00
334_A	347_Q	0.679	1.00
25_A	124_Q	0.679	1.00
288_M	353_E	0.679	1.00
377_F	380_Y	0.678	1.00
84_S	87_T	0.677	1.00
319_L	356_C	0.676	1.00
265_R	270_G	0.674	1.00
31_V	118_A	0.673	1.00
273_L	276_Y	0.668	1.00
298_M	345_L	0.668	1.00
319_L	360_D	0.667	1.00
378_S	381_P	0.666	1.00
20_A	328_A	0.663	1.00
167_G	299_I	0.662	1.00
334_A	338_A	0.660	1.00
51_Y	318_D	0.660	1.00
289_V	292_L	0.658	1.00
170_L	294_N	0.655	1.00
27_A	328_A	0.655	1.00
89_D	92_R	0.654	1.00
158_L	164_S	0.654	1.00
191_L	233_I	0.653	1.00
207_G	210_W	0.652	1.00
315_R	319_L	0.652	1.00
78_S	86_V	0.651	1.00
210_W	213_A	0.651	1.00
306_F	323_S	0.651	1.00
118_A	125_F	0.648	1.00
377_F	381_P	0.647	1.00
40_A	111_D	0.647	1.00
46_T	107_R	0.646	1.00
129_V	147_G	0.645	1.00
140_K	154_N	0.644	1.00
18_S	125_F	0.642	1.00
209_A	212_F	0.642	1.00
343_S	347_Q	0.640	1.00
13_A	40_A	0.639	1.00
271_G	275_E	0.638	1.00
171_G	174_P	0.637	1.00
341_S	344_S	0.636	1.00
179_H	183_V	0.636	1.00
208_A	212_F	0.635	1.00
106_L	229_N	0.635	1.00
359_R	362_Q	0.634	1.00
59_I	65_S	0.630	1.00
234_S	239_C	0.630	1.00
288_M	358_M	0.627	1.00
259_K	265_R	0.626	1.00
23_V	325_Q	0.625	1.00
350_R	354_Q	0.624	1.00
39_S	42_C	0.623	1.00
139_N	296_G	0.623	1.00
249_K	253_Q	0.622	1.00
244_I	249_K	0.618	1.00
288_M	292_L	0.615	1.00
235_L	239_C	0.615	1.00
329_T	333_A	0.615	1.00
86_V	90_F	0.614	1.00
158_L	165_M	0.614	1.00
155_V	335_K	0.612	1.00
346_A	349_K	0.612	1.00
68_V	71_K	0.609	1.00
22_L	25_A	0.608	1.00
315_R	318_D	0.607	1.00
363_H	367_I	0.607	1.00
267_L	271_G	0.605	1.00
364_F	368_P	0.605	1.00
222_G	257_D	0.603	1.00
134_L	141_V	0.601	1.00
18_S	33_V	0.600	1.00
16_A	157_I	0.599	1.00
334_A	343_S	0.597	1.00
187_E	191_L	0.596	1.00
267_L	270_G	0.596	1.00
58_I	67_P	0.595	1.00
206_E	209_A	0.595	1.00
166_L	169_S	0.595	1.00
233_I	236_G	0.595	1.00
70_R	105_V	0.594	1.00
155_V	331_V	0.588	1.00
235_L	238_V	0.588	1.00
264_I	267_L	0.586	1.00
8_A	20_A	0.586	1.00
305_G	352_L	0.585	1.00
20_A	159_A	0.584	1.00
181_Y	184_G	0.584	1.00
22_L	63_A	0.580	1.00
22_L	123_A	0.578	1.00
334_A	344_S	0.578	1.00
367_I	370_L	0.577	1.00
223_G	227_Y	0.576	1.00
156_V	296_G	0.576	1.00
338_A	341_S	0.574	1.00
340_F	343_S	0.573	1.00
374_P	382_R	0.573	1.00
254_M	257_D	0.572	1.00
356_C	361_M	0.572	1.00
272_K	275_E	0.571	1.00
376_L	380_Y	0.570	1.00
20_A	331_V	0.569	1.00
300_V	324_A	0.569	1.00
154_N	335_K	0.567	1.00
182_A	186_K	0.564	1.00
362_Q	365_R	0.563	1.00
359_R	363_H	0.560	1.00
58_I	110_L	0.560	1.00
80_L	85_A	0.558	1.00
156_V	297_V	0.558	1.00
377_F	382_R	0.557	1.00
190_G	194_E	0.556	1.00
322_A	326_A	0.556	1.00
338_A	342_A	0.555	1.00
57_A	61_G	0.553	1.00
138_G	141_V	0.553	1.00
227_Y	236_G	0.551	1.00
337_R	340_F	0.551	1.00
168_R	173_V	0.550	1.00
305_G	356_C	0.550	1.00
335_K	338_A	0.549	1.00
50_L	54_T	0.547	1.00
184_G	187_E	0.547	1.00
270_G	273_L	0.546	1.00
51_Y	54_T	0.546	1.00
322_A	352_L	0.545	1.00
224_G	228_T	0.543	1.00
30_D	154_N	0.542	1.00
187_E	194_E	0.540	1.00
343_S	346_A	0.539	1.00
374_P	379_Q	0.538	1.00
29_L	331_V	0.538	1.00
71_K	74_R	0.537	1.00
312_F	368_P	0.534	1.00
264_I	268_I	0.534	1.00
244_I	248_Q	0.534	1.00
326_A	348_Y	0.533	1.00
154_N	296_G	0.533	1.00
67_P	103_Y	0.533	1.00
366_K	369_A	0.532	1.00
326_A	352_L	0.532	1.00
174_P	287_A	0.531	1.00
46_T	227_Y	0.531	1.00
206_E	212_F	0.530	1.00
119_E	127_P	0.530	1.00
38_D	127_P	0.529	1.00
315_R	360_D	0.525	1.00
156_V	166_L	0.525	1.00
155_V	334_A	0.524	1.00
302_D	320_A	0.524	1.00
78_S	89_D	0.524	1.00
128_G	148_D	0.523	1.00
13_A	33_V	0.523	1.00
364_F	367_I	0.522	1.00
309_N	313_T	0.520	1.00
180_H	183_V	0.520	1.00
210_W	214_G	0.520	1.00
368_P	372_E	0.519	1.00
157_I	331_V	0.519	1.00
363_H	366_K	0.518	1.00
283_E	286_L	0.518	1.00
59_I	100_H	0.518	1.00
57_A	60_P	0.518	1.00
333_A	337_R	0.517	1.00
88_L	92_R	0.517	1.00
10_V	17_G	0.516	1.00
37_G	41_G	0.515	1.00
181_Y	185_V	0.515	1.00
313_T	367_I	0.515	1.00
276_Y	279_H	0.514	1.00
20_A	23_V	0.513	1.00
64_V	67_P	0.513	1.00
189_I	192_T	0.512	1.00
11_V	134_L	0.512	1.00
250_S	254_M	0.512	1.00
131_V	146_A	0.512	1.00
57_A	322_A	0.511	1.00
6_F	154_N	0.510	1.00
276_Y	282_P	0.510	1.00
19_V	57_A	0.509	1.00
177_D	180_H	0.509	1.00
362_Q	366_K	0.508	1.00
369_A	373_N	0.508	1.00
31_V	122_G	0.507	1.00
23_V	324_A	0.506	1.00
178_P	181_Y	0.506	1.00
163_N	168_R	0.505	1.00
6_F	151_L	0.505	1.00
78_S	81_T	0.505	1.00
185_V	188_V	0.503	1.00
193_P	196_I	0.502	1.00
47_G	234_S	0.502	1.00
56_E	60_P	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	0.9301	100	0.378	Contact Map
2qa1A	2	0.8951	100	0.383	Contact Map
2qa2A	2	0.8998	100	0.388	Contact Map
2dkhA	2	0.9044	100	0.396	Contact Map
4k5sA	2	0.9044	100	0.399	Contact Map
3ihgA	3	0.9068	100	0.401	Contact Map
4bjzA	2	0.8904	100	0.402	Contact Map
4k22A	4	0.8019	100	0.403	Contact Map
2x3nA	1	0.8135	100	0.403	Contact Map
3c96A	1	0.8228	100	0.405	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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