Q9HRS8 - HALSA - GREMLIN Contacts

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Q9HRS8 - NADH dehydrogenase/oxidoreductase

UniProt:	Q9HRS8	Sequences: MLLVAGLSGMTVTADLFNMYVFLEITGLTAYALVAAGEDSRSTVAALKYLLVGTFGASLFLLGIGYAYVGTGTLNMADLAAKLADADPVLAQAAFALIVVGLFIKVAVFPLHTWQPDAYAGAPDTVSALISALVSTVAAYALLRVVYTVFGAGFLDSTPVARAILIGGAVVSIVAGSLLAVSQSEIKRVLAYSSVSQFGLILAAIAIGNDTALTGAAIHLVGHAVMKGGLFLTAGVVATETGARTIDEFDGLADRSPVAAGAFGVLAVSMVGVPPTVGFAGKWYIAIGAAEAGSWALLAVIVASTLLTLAYFLRLVERMFFRAPATVPADGRSDGAETPASSSTGMYATVVGATVCAVALGFGAFVYSTQMQATLTQLLS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	380 (340)
Sequences:	24315 (12694)
Seq/√Len:	688.4

ECOLI - HYFB NUOL HYCC HYFF NUOM HYFD NUON
BACSU - MRPA MRPD NDHF
HALSA - Q9HRS8 Q9HRL3 Q9HRT0 Q9HRL2 Q9HRS9 Q9HRL1
SULSO - Q980G8 Q97ZA6 Q97ZA9 Q980G9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
229_G	266_L	4.822	1.00
9_G	22_F	4.507	1.00
75_N	78_D	3.805	1.00
35_A	46_A	3.531	1.00
48_K	117_D	3.295	1.00
185_E	244_R	3.099	1.00
222_G	277_V	2.973	1.00
169_A	206_A	2.878	1.00
173_I	304_S	2.875	1.00
219_H	281_G	2.808	1.00
243_A	248_E	2.734	1.00
184_S	247_D	2.608	1.00
264_G	316_V	2.599	1.00
204_A	285_I	2.572	1.00
73_T	78_D	2.563	1.00
6_G	25_I	2.545	1.00
245_T	248_E	2.528	1.00
203_A	301_I	2.506	1.00
63_G	97_L	2.415	1.00
108_V	202_L	2.404	1.00
267_A	312_F	2.307	1.00
103_F	108_V	2.299	1.00
190_L	234_A	2.282	1.00
174_V	304_S	2.037	1.00
107_A	115_Q	2.012	1.00
181_V	310_A	1.989	1.00
163_A	167_G	1.962	1.00
99_V	103_F	1.906	1.00
78_D	81_A	1.893	1.00
189_V	246_I	1.890	1.00
103_F	168_G	1.869	1.00
119_Y	127_S	1.840	1.00
119_Y	135_S	1.825	1.00
183_Q	188_R	1.803	1.00
359_A	362_F	1.792	1.00
230_L	266_L	1.792	1.00
193_S	311_Y	1.785	1.00
63_G	101_G	1.773	1.00
184_S	245_T	1.756	1.00
207_I	212_A	1.744	1.00
215_G	288_G	1.740	1.00
314_R	318_R	1.711	1.00
256_S	259_A	1.708	1.00
14_A	77_A	1.701	1.00
135_S	194_S	1.699	1.00
351_V	355_V	1.695	1.00
345_G	348_A	1.666	1.00
160_V	163_A	1.655	1.00
340_A	344_T	1.644	1.00
287_I	291_E	1.641	1.00
167_G	171_V	1.623	1.00
289_A	298_L	1.605	1.00
13_T	18_N	1.604	1.00
109_F	171_V	1.599	1.00
166_I	206_A	1.586	1.00
60_F	101_G	1.563	1.00
136_T	140_Y	1.563	1.00
170_V	300_V	1.562	1.00
177_S	196_S	1.557	1.00
186_I	315_L	1.549	1.00
340_A	343_S	1.533	1.00
286_A	301_I	1.516	1.00
117_D	188_R	1.514	1.00
218_I	281_G	1.499	1.00
66_Y	94_A	1.496	1.00
162_R	166_I	1.496	1.00
63_G	94_A	1.491	1.00
201_I	216_A	1.490	1.00
16_L	79_L	1.486	1.00
295_W	299_A	1.483	1.00
6_G	22_F	1.472	1.00
44_V	48_K	1.466	1.00
78_D	82_K	1.466	1.00
108_V	168_G	1.460	1.00
166_I	297_L	1.457	1.00
263_F	315_L	1.454	1.00
203_A	289_A	1.452	1.00
352_G	356_C	1.448	1.00
177_S	304_S	1.442	1.00
7_L	134_V	1.441	1.00
205_I	216_A	1.436	1.00
263_F	267_A	1.418	1.00
169_A	203_A	1.407	1.00
348_A	352_G	1.405	1.00
63_G	98_I	1.393	1.00
175_A	179_L	1.384	1.00
296_A	299_A	1.374	1.00
196_S	308_T	1.367	1.00
60_F	64_I	1.362	1.00
99_V	165_L	1.358	1.00
253_A	260_A	1.355	1.00
169_A	199_G	1.353	1.00
283_W	287_I	1.352	1.00
68_Y	74_L	1.350	1.00
45_A	121_G	1.331	1.00
119_Y	132_A	1.330	1.00
173_I	199_G	1.329	1.00
15_D	74_L	1.329	1.00
56_G	104_I	1.328	1.00
350_V	354_T	1.316	1.00
259_A	337_E	1.315	1.00
116_P	192_Y	1.314	1.00
89_V	93_A	1.300	1.00
180_A	311_Y	1.299	1.00
33_L	126_V	1.292	1.00
270_M	312_F	1.285	1.00
233_T	263_F	1.280	1.00
15_D	75_N	1.272	1.00
299_A	303_A	1.272	1.00
264_G	320_F	1.268	1.00
70_G	94_A	1.268	1.00
19_M	141_A	1.261	1.00
133_L	136_T	1.258	1.00
104_I	111_L	1.252	1.00
165_L	206_A	1.249	1.00
258_V	261_G	1.239	1.00
176_G	199_G	1.226	1.00
226_M	269_S	1.218	1.00
66_Y	70_G	1.218	1.00
125_T	128_A	1.213	1.00
6_G	29_T	1.206	1.00
225_V	352_G	1.202	1.00
96_A	100_V	1.191	1.00
260_A	316_V	1.190	1.00
267_A	316_V	1.188	1.00
176_G	179_L	1.177	1.00
238_A	244_R	1.171	1.00
65_G	69_V	1.163	1.00
39_D	42_S	1.160	1.00
290_A	298_L	1.158	1.00
339_P	342_S	1.148	1.00
265_V	350_V	1.147	1.00
163_A	166_I	1.143	1.00
19_M	142_L	1.142	1.00
136_T	139_A	1.127	1.00
204_A	216_A	1.127	1.00
59_L	97_L	1.125	1.00
352_G	357_A	1.124	1.00
77_A	81_A	1.115	1.00
355_V	359_A	1.115	1.00
8_S	12_V	1.113	1.00
353_A	357_A	1.113	1.00
123_P	131_S	1.112	1.00
204_A	212_A	1.107	1.00
120_A	185_E	1.103	1.00
64_I	98_I	1.099	1.00
52_V	113_T	1.097	1.00
212_A	288_G	1.096	1.00
271_V	309_L	1.091	1.00
19_M	76_M	1.085	1.00
347_Y	351_V	1.082	1.00
218_I	222_G	1.074	1.00
31_Y	46_A	1.073	1.00
260_A	321_F	1.067	1.00
186_I	234_A	1.065	1.00
197_Q	219_H	1.064	1.00
135_S	139_A	1.060	1.00
17_F	74_L	1.059	1.00
109_F	175_A	1.056	1.00
185_E	245_T	1.056	1.00
41_R	44_V	1.055	1.00
66_Y	90_L	1.052	1.00
207_I	289_A	1.051	1.00
70_G	90_L	1.047	1.00
93_A	97_L	1.045	1.00
250_D	318_R	1.037	1.00
92_Q	161_A	1.037	1.00
284_Y	287_I	1.031	1.00
308_T	311_Y	1.027	1.00
349_T	352_G	1.020	1.00
258_V	262_A	1.017	1.00
222_G	281_G	1.016	1.00
327_V	330_D	1.008	1.00
354_T	357_A	1.005	1.00
10_M	19_M	1.003	1.00
143_L	205_I	1.001	1.00
336_A	339_P	0.995	1.00
177_S	311_Y	0.994	1.00
144_R	216_A	0.986	1.00
92_Q	160_V	0.985	1.00
73_T	79_L	0.985	1.00
223_H	227_K	0.983	1.00
119_Y	131_S	0.981	1.00
262_A	266_L	0.980	1.00
43_T	46_A	0.979	1.00
173_I	301_I	0.979	1.00
89_V	92_Q	0.978	1.00
159_P	162_R	0.976	1.00
341_S	345_G	0.972	1.00
241_T	249_F	0.972	1.00
115_Q	119_Y	0.970	1.00
266_L	350_V	0.968	1.00
215_G	284_Y	0.962	1.00
171_V	175_A	0.954	1.00
16_L	64_I	0.951	1.00
124_D	127_S	0.945	1.00
166_I	169_A	0.945	1.00
262_A	350_V	0.936	1.00
135_S	140_Y	0.935	1.00
141_A	145_V	0.932	1.00
226_M	278_G	0.930	1.00
20_Y	61_L	0.926	1.00
14_A	75_N	0.925	1.00
300_V	304_S	0.923	1.00
338_T	341_S	0.922	1.00
233_T	346_M	0.921	1.00
246_I	319_M	0.920	1.00
286_A	298_L	0.916	1.00
258_V	347_Y	0.914	1.00
178_L	307_L	0.913	1.00
176_G	196_S	0.911	1.00
240_E	256_S	0.910	1.00
272_G	282_K	0.896	1.00
260_A	320_F	0.894	1.00
102_L	141_A	0.891	1.00
228_G	232_L	0.887	1.00
166_I	170_V	0.886	1.00
106_V	139_A	0.886	1.00
325_A	328_P	0.885	1.00
338_T	343_S	0.885	1.00
74_L	78_D	0.883	1.00
15_D	18_N	0.883	1.00
94_A	98_I	0.879	1.00
197_Q	311_Y	0.878	1.00
132_A	136_T	0.877	1.00
20_Y	24_E	0.876	1.00
10_M	137_V	0.874	1.00
124_D	187_K	0.871	1.00
20_Y	64_I	0.870	1.00
250_D	325_A	0.870	1.00
127_S	130_I	0.867	1.00
3_L	7_L	0.865	1.00
139_A	220_L	0.865	1.00
124_D	131_S	0.864	1.00
186_I	249_F	0.863	1.00
350_V	353_A	0.863	1.00
267_A	315_L	0.857	1.00
174_V	178_L	0.850	1.00
124_D	235_G	0.850	1.00
164_I	167_G	0.849	1.00
173_I	203_A	0.849	1.00
288_G	292_A	0.849	1.00
346_M	357_A	0.846	1.00
312_F	315_L	0.839	1.00
200_L	285_I	0.837	1.00
237_V	252_L	0.837	1.00
179_L	192_Y	0.836	1.00
124_D	128_A	0.834	1.00
23_L	60_F	0.831	1.00
354_T	358_V	0.830	1.00
13_T	22_F	0.829	1.00
344_T	347_Y	0.828	1.00
169_A	202_L	0.826	1.00
261_G	265_V	0.825	1.00
7_L	138_A	0.821	1.00
140_Y	144_R	0.820	1.00
236_V	259_A	0.820	1.00
76_M	80_A	0.819	1.00
341_S	344_T	0.819	1.00
11_T	141_A	0.819	1.00
4_V	8_S	0.818	1.00
304_S	307_L	0.812	1.00
288_G	291_E	0.811	1.00
262_A	347_Y	0.810	1.00
197_Q	308_T	0.809	1.00
316_V	321_F	0.806	1.00
243_A	249_F	0.805	1.00
11_T	137_V	0.803	1.00
120_A	188_R	0.801	1.00
71_T	79_L	0.800	1.00
277_V	356_C	0.798	1.00
116_P	195_V	0.797	1.00
92_Q	96_A	0.797	1.00
256_S	337_E	0.794	1.00
219_H	226_M	0.794	1.00
7_L	26_T	0.791	1.00
201_I	220_L	0.790	1.00
16_L	146_V	0.790	1.00
355_V	362_F	0.789	1.00
194_S	223_H	0.789	1.00
338_T	342_S	0.789	1.00
174_V	300_V	0.787	1.00
108_V	198_F	0.786	1.00
219_H	222_G	0.785	1.00
316_V	320_F	0.784	1.00
63_G	67_A	0.783	1.00
67_A	94_A	0.782	1.00
113_T	116_P	0.782	1.00
166_I	203_A	0.773	1.00
128_A	232_L	0.770	1.00
342_S	345_G	0.769	1.00
327_V	331_G	0.767	1.00
337_E	343_S	0.766	1.00
93_A	96_A	0.765	1.00
269_S	278_G	0.762	1.00
128_A	231_F	0.761	1.00
47_L	51_L	0.760	1.00
240_E	342_S	0.759	1.00
349_T	353_A	0.756	1.00
347_Y	350_V	0.754	1.00
262_A	346_M	0.753	1.00
6_G	10_M	0.753	1.00
164_I	168_G	0.748	1.00
134_V	138_A	0.746	1.00
190_L	230_L	0.745	1.00
34_V	118_A	0.741	1.00
177_S	308_T	0.740	1.00
343_S	347_Y	0.737	1.00
274_P	279_F	0.736	1.00
309_L	313_L	0.735	1.00
26_T	135_S	0.734	1.00
59_L	100_V	0.730	1.00
77_A	80_A	0.730	1.00
268_V	273_V	0.729	1.00
236_V	338_T	0.729	1.00
34_V	123_P	0.725	1.00
313_L	317_E	0.725	1.00
346_M	350_V	0.723	1.00
148_T	151_G	0.722	1.00
37_G	40_S	0.722	1.00
229_G	349_T	0.719	1.00
127_S	131_S	0.716	1.00
291_E	294_S	0.714	1.00
131_S	223_H	0.711	1.00
41_R	121_G	0.707	1.00
56_G	101_G	0.707	1.00
160_V	164_I	0.706	1.00
123_P	128_A	0.705	1.00
170_V	174_V	0.703	1.00
215_G	285_I	0.702	1.00
259_A	338_T	0.698	1.00
336_A	340_A	0.697	1.00
109_F	176_G	0.693	1.00
212_A	216_A	0.692	1.00
80_A	148_T	0.692	1.00
178_L	182_S	0.691	1.00
269_S	276_T	0.691	1.00
226_M	270_M	0.691	1.00
170_V	297_L	0.690	1.00
197_Q	227_K	0.689	1.00
261_G	320_F	0.688	1.00
170_V	203_A	0.685	1.00
95_F	99_V	0.682	1.00
204_A	215_G	0.680	1.00
276_T	280_A	0.679	1.00
286_A	302_V	0.679	1.00
306_L	310_A	0.677	1.00
224_A	228_G	0.675	1.00
179_L	182_S	0.674	1.00
3_L	129_L	0.674	1.00
131_S	194_S	0.673	1.00
275_P	358_V	0.672	1.00
73_T	76_M	0.670	1.00
139_A	145_V	0.670	1.00
40_S	120_A	0.670	1.00
14_A	18_N	0.667	1.00
189_V	315_L	0.667	1.00
68_Y	71_T	0.666	1.00
356_C	360_L	0.664	1.00
167_G	170_V	0.664	1.00
255_R	324_P	0.664	1.00
277_V	353_A	0.663	1.00
10_M	22_F	0.663	1.00
183_Q	189_V	0.662	1.00
27_G	57_A	0.662	1.00
119_Y	128_A	0.662	1.00
144_R	205_I	0.661	1.00
272_G	276_T	0.660	1.00
67_A	79_L	0.659	1.00
272_G	278_G	0.657	1.00
123_P	126_V	0.656	1.00
60_F	102_L	0.656	1.00
95_F	161_A	0.654	1.00
183_Q	192_Y	0.654	1.00
54_T	57_A	0.652	1.00
220_L	224_A	0.651	1.00
31_Y	53_G	0.649	1.00
356_C	359_A	0.649	1.00
60_F	98_I	0.649	1.00
263_F	320_F	0.647	1.00
246_I	315_L	0.647	1.00
197_Q	270_M	0.646	1.00
126_V	235_G	0.643	1.00
67_A	70_G	0.643	1.00
132_A	228_G	0.641	1.00
152_A	159_P	0.640	1.00
139_A	201_I	0.639	1.00
260_A	264_G	0.639	1.00
90_L	93_A	0.639	1.00
236_V	240_E	0.637	1.00
169_A	173_I	0.630	1.00
119_Y	194_S	0.630	1.00
314_R	317_E	0.630	1.00
119_Y	191_A	0.626	1.00
337_E	340_A	0.624	1.00
9_G	12_V	0.620	1.00
132_A	231_F	0.620	1.00
246_I	318_R	0.620	1.00
227_K	231_F	0.618	1.00
109_F	112_H	0.618	1.00
261_G	264_G	0.613	1.00
207_I	292_A	0.613	1.00
91_A	94_A	0.612	1.00
177_S	193_S	0.610	1.00
3_L	30_A	0.609	1.00
140_Y	145_V	0.609	1.00
145_V	149_V	0.608	1.00
331_G	336_A	0.608	1.00
193_S	223_H	0.606	1.00
299_A	302_V	0.605	1.00
25_I	29_T	0.604	1.00
177_S	307_L	0.603	1.00
254_D	257_P	0.603	1.00
302_V	305_T	0.602	1.00
267_A	271_V	0.601	1.00
204_A	208_G	0.600	1.00
42_S	120_A	0.600	1.00
10_M	27_G	0.598	1.00
282_K	305_T	0.592	1.00
200_L	304_S	0.590	1.00
159_P	163_A	0.590	1.00
204_A	288_G	0.589	1.00
346_M	349_T	0.589	1.00
346_M	352_G	0.588	1.00
34_V	130_I	0.588	1.00
233_T	266_L	0.577	1.00
212_A	215_G	0.576	1.00
213_L	216_A	0.575	1.00
193_S	197_Q	0.569	1.00
27_G	53_G	0.569	1.00
61_L	65_G	0.568	1.00
95_F	149_V	0.567	1.00
166_I	207_I	0.565	1.00
170_V	173_I	0.565	1.00
262_A	343_S	0.565	1.00
239_T	336_A	0.564	1.00
239_T	342_S	0.563	1.00
138_A	141_A	0.563	1.00
99_V	142_L	0.561	1.00
253_A	320_F	0.561	1.00
280_A	284_Y	0.560	1.00
24_E	105_K	0.559	1.00
326_T	329_A	0.559	1.00
323_A	326_T	0.557	1.00
301_I	305_T	0.554	1.00
225_V	277_V	0.551	1.00
226_M	353_A	0.551	1.00
135_S	198_F	0.550	1.00
126_V	131_S	0.550	1.00
16_L	76_M	0.550	1.00
251_G	254_D	0.548	1.00
290_A	293_G	0.546	1.00
250_D	322_R	0.545	1.00
286_A	305_T	0.545	1.00
143_L	213_L	0.545	1.00
357_A	360_L	0.544	1.00
20_Y	31_Y	0.544	1.00
99_V	168_G	0.542	1.00
254_D	323_A	0.542	1.00
112_H	116_P	0.540	1.00
20_Y	57_A	0.539	1.00
258_V	343_S	0.538	1.00
136_T	141_A	0.537	1.00
52_V	104_I	0.536	1.00
176_G	195_V	0.535	1.00
344_T	348_A	0.535	1.00
95_F	146_V	0.535	1.00
352_G	355_V	0.535	1.00
26_T	137_V	0.534	1.00
221_V	224_A	0.534	1.00
240_E	255_R	0.533	1.00
179_L	183_Q	0.533	1.00
71_T	75_N	0.532	1.00
184_S	193_S	0.531	1.00
348_A	351_V	0.530	1.00
67_A	98_I	0.530	1.00
45_A	118_A	0.529	1.00
173_I	200_L	0.529	1.00
126_V	130_I	0.528	1.00
23_L	26_T	0.527	1.00
124_D	129_L	0.524	1.00
252_L	257_P	0.523	1.00
236_V	342_S	0.522	1.00
79_L	82_K	0.521	1.00
319_M	322_R	0.521	1.00
134_V	141_A	0.520	1.00
257_P	260_A	0.519	1.00
23_L	137_V	0.519	1.00
18_N	21_V	0.519	1.00
310_A	314_R	0.518	0.99
125_T	131_S	0.517	0.99
236_V	346_M	0.516	0.99
131_S	135_S	0.516	0.99
127_S	187_K	0.515	0.99
350_V	356_C	0.514	0.99
19_M	60_F	0.513	0.99
326_T	330_D	0.513	0.99
192_Y	195_V	0.512	0.99
121_G	188_R	0.510	0.99
30_A	134_V	0.508	0.99
279_F	283_W	0.507	0.99
136_T	198_F	0.507	0.99
147_Y	151_G	0.506	0.99
230_L	263_F	0.505	0.99
16_L	67_A	0.505	0.99
137_V	140_Y	0.505	0.99
264_G	268_V	0.505	0.99
48_K	51_L	0.504	0.99
347_Y	357_A	0.500	0.99
233_T	262_A	0.500	0.99

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
3rkoM	1	0.9763	100	0.076	Contact Map
4he8M	1	0.9632	100	0.086	Contact Map
3rkoN	1	0.9395	100	0.102	Contact Map
4he8L	1	0.9605	100	0.138	Contact Map
3rkoL	1	0.9579	100	0.138	Contact Map
4he8N	1	0.8921	100	0.169	Contact Map
3rkoK	1	0.2211	48.2	0.951	Contact Map
4he8K	1	0.2211	40.1	0.954	Contact Map
3wdoA	1	0.8921	2.6	0.974	Contact Map
2yevB	1	0.2711	2.4	0.974	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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