Q9HRL1 - HALSA - GREMLIN Contacts

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Q9HRL1 - NADH dehydrogenase/oxidoreductase

UniProt:	Q9HRL1	Sequences: MASHDYLDDADSVAEFYALTLLAATGMTLMAAANSLVTVFISLELASLPSYVLVSYLKRDRGSIEAGLKYFLIGALSSGVMLYGISLVYAATGVMGLPAIADTITAGTDFVGVLGLGIVMLVAGFAFKTASVPFHFWAPEAYEGAPAPVSAFISSASKAAGFAVLFRVFTTAFPLDVIAGTVIDWSLLFAALAVVTMTLGNFAAATQENVKRMLAYSSVGHAGYVLIGLAALQSGGGAQNSLVLGASMMHLLVYGFMNTGAFLFVALAEYWDVGRTFEDYNGLSKRAPVACVAMTVFMFSLAGLPVGAGFLSKYVLFAGAVQSGFAWLAGIAAINSALSLFYYSRVVKALWIEDPRDDLSLSGQPTGLYVAVLAAAVGTIALLVAFDPVAQTATHAADVLFAG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	403 (355)
Sequences:	24192 (12651)
Seq/√Len:	671.5

ECOLI - HYFB NUOL HYCC HYFF NUOM HYFD NUON
BACSU - MRPA MRPD NDHF
HALSA - Q9HRL1 Q9HRL3 Q9HRT0 Q9HRL2 Q9HRS9 Q9HRS8
SULSO - Q980G8 Q97ZA9 Q97ZA6 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
260_G	297_F	4.798	1.00
29_L	42_S	4.622	1.00
96_G	99_A	3.686	1.00
55_S	67_G	3.575	1.00
69_K	140_E	3.345	1.00
253_V	308_A	3.011	1.00
209_N	275_R	2.974	1.00
250_H	312_S	2.924	1.00
197_M	335_N	2.915	1.00
193_A	230_A	2.861	1.00
227_I	332_A	2.597	1.00
39_V	164_V	2.577	1.00
208_E	278_E	2.531	1.00
274_G	279_D	2.511	1.00
131_S	226_L	2.485	1.00
94_V	99_A	2.479	1.00
26_G	45_L	2.441	1.00
295_T	347_V	2.438	1.00
228_G	316_L	2.418	1.00
276_T	279_D	2.416	1.00
214_L	265_V	2.395	1.00
84_G	120_M	2.394	1.00
126_A	131_S	2.300	1.00
142_Y	150_S	2.214	1.00
298_M	343_Y	2.133	1.00
205_A	341_F	2.003	1.00
198_T	335_N	1.987	1.00
213_M	277_F	1.980	1.00
130_A	138_A	1.964	1.00
217_S	342_Y	1.948	1.00
12_S	15_E	1.891	1.00
187_L	191_A	1.889	1.00
142_Y	158_K	1.879	1.00
126_A	192_L	1.842	1.00
385_A	388_P	1.825	1.00
84_G	124_G	1.798	1.00
99_A	102_D	1.798	1.00
122_V	126_A	1.787	1.00
158_K	218_S	1.780	1.00
261_A	297_F	1.748	1.00
34_N	98_P	1.736	1.00
208_E	276_T	1.726	1.00
317_F	332_A	1.696	1.00
207_Q	212_R	1.683	1.00
366_T	370_V	1.673	1.00
287_A	290_A	1.662	1.00
345_R	349_A	1.657	1.00
53_L	149_V	1.650	1.00
377_V	381_A	1.637	1.00
201_N	220_G	1.631	1.00
81_M	124_G	1.617	1.00
190_A	230_A	1.610	1.00
33_A	38_T	1.605	1.00
320_A	329_A	1.605	1.00
166_F	247_S	1.601	1.00
184_D	187_L	1.600	1.00
246_A	319_G	1.597	1.00
249_M	312_S	1.580	1.00
371_A	374_A	1.572	1.00
210_V	346_V	1.567	1.00
225_V	247_S	1.556	1.00
132_V	195_V	1.556	1.00
318_A	322_Q	1.553	1.00
54_V	145_A	1.553	1.00
36_L	168_V	1.542	1.00
201_N	335_N	1.540	1.00
326_A	330_G	1.520	1.00
87_L	117_G	1.517	1.00
19_L	52_V	1.512	1.00
376_A	380_I	1.511	1.00
166_F	229_L	1.510	1.00
140_E	212_R	1.506	1.00
26_G	42_S	1.503	1.00
163_A	167_R	1.489	1.00
112_G	116_L	1.487	1.00
191_A	195_V	1.485	1.00
193_A	227_I	1.484	1.00
186_S	190_A	1.482	1.00
142_Y	154_S	1.472	1.00
36_L	100_I	1.463	1.00
229_L	247_S	1.460	1.00
84_G	117_G	1.454	1.00
131_S	192_L	1.441	1.00
125_F	164_V	1.436	1.00
60_D	63_S	1.434	1.00
89_Y	95_M	1.432	1.00
65_E	69_K	1.426	1.00
366_T	369_Y	1.421	1.00
204_A	342_Y	1.408	1.00
227_I	320_A	1.404	1.00
31_A	163_A	1.404	1.00
99_A	103_T	1.400	1.00
194_V	331_I	1.397	1.00
27_M	156_A	1.396	1.00
139_P	216_Y	1.385	1.00
30_M	160_A	1.385	1.00
199_L	203_A	1.382	1.00
193_A	223_G	1.371	1.00
378_G	382_L	1.353	1.00
66_A	144_G	1.353	1.00
190_A	328_L	1.351	1.00
365_P	368_L	1.350	1.00
122_V	189_F	1.348	1.00
220_G	339_S	1.347	1.00
91_A	117_G	1.347	1.00
294_M	298_M	1.347	1.00
84_G	121_L	1.344	1.00
35_S	95_M	1.325	1.00
77_S	127_F	1.323	1.00
294_M	346_V	1.320	1.00
361_L	364_Q	1.315	1.00
81_M	85_I	1.314	1.00
284_S	291_C	1.300	1.00
264_F	294_M	1.298	1.00
189_F	230_A	1.286	1.00
127_F	134_F	1.284	1.00
295_T	351_W	1.283	1.00
373_L	377_V	1.266	1.00
256_F	378_G	1.264	1.00
35_S	96_G	1.263	1.00
197_M	223_G	1.258	1.00
379_T	383_L	1.257	1.00
87_L	91_A	1.238	1.00
327_W	330_G	1.234	1.00
22_L	49_P	1.225	1.00
21_L	25_T	1.225	1.00
374_A	378_G	1.217	1.00
290_A	363_G	1.213	1.00
187_L	190_A	1.200	1.00
80_V	120_M	1.191	1.00
330_G	334_I	1.189	1.00
298_M	347_V	1.188	1.00
200_G	223_G	1.185	1.00
314_Y	318_A	1.184	1.00
291_C	347_V	1.172	1.00
119_V	123_A	1.171	1.00
301_L	343_Y	1.169	1.00
26_G	49_P	1.162	1.00
289_V	292_V	1.158	1.00
339_S	342_Y	1.158	1.00
269_E	275_R	1.157	1.00
228_G	247_S	1.154	1.00
197_M	332_A	1.145	1.00
380_I	383_L	1.135	1.00
221_H	250_H	1.130	1.00
253_V	312_S	1.128	1.00
129_T	162_F	1.127	1.00
257_M	300_S	1.122	1.00
210_V	265_V	1.119	1.00
37_V	95_M	1.115	1.00
86_S	90_A	1.112	1.00
23_A	27_M	1.106	1.00
143_E	209_N	1.102	1.00
254_Y	258_N	1.101	1.00
155_S	159_A	1.088	1.00
200_G	203_A	1.088	1.00
28_T	32_A	1.083	1.00
201_N	342_Y	1.079	1.00
73_I	136_F	1.078	1.00
296_V	376_A	1.074	1.00
85_I	121_L	1.070	1.00
362_S	365_P	1.070	1.00
297_F	376_A	1.069	1.00
231_A	320_A	1.069	1.00
87_L	113_V	1.066	1.00
171_T	174_P	1.064	1.00
64_I	67_G	1.063	1.00
165_L	226_L	1.058	1.00
147_A	211_K	1.058	1.00
132_V	199_L	1.057	1.00
39_V	97_L	1.045	1.00
138_A	142_Y	1.041	1.00
302_A	340_L	1.034	1.00
98_P	102_D	1.034	1.00
154_S	262_F	1.026	1.00
321_V	329_A	1.022	1.00
289_V	293_A	1.016	1.00
268_A	283_L	1.014	1.00
291_C	352_I	1.012	1.00
156_A	159_A	1.012	1.00
315_V	318_A	1.006	1.00
91_A	113_V	1.004	1.00
209_N	276_T	1.000	1.00
162_F	222_A	0.998	1.00
51_Y	67_G	0.994	1.00
116_L	120_M	0.994	1.00
57_L	60_D	0.990	1.00
40_F	82_L	0.989	1.00
30_M	39_V	0.987	1.00
364_Q	367_G	0.982	1.00
378_G	383_L	0.982	1.00
190_A	193_A	0.980	1.00
195_V	199_L	0.974	1.00
14_A	18_A	0.973	1.00
34_N	96_G	0.973	1.00
381_A	385_A	0.972	1.00
36_L	85_I	0.972	1.00
246_A	315_V	0.969	1.00
264_F	372_V	0.961	1.00
60_D	143_E	0.960	1.00
115_G	184_D	0.957	1.00
289_V	373_L	0.950	1.00
249_M	253_V	0.949	1.00
162_F	225_V	0.949	1.00
221_H	342_Y	0.948	1.00
165_L	229_L	0.944	1.00
257_M	309_G	0.942	1.00
62_G	143_E	0.941	1.00
190_A	194_V	0.937	1.00
202_F	338_L	0.926	1.00
281_N	349_A	0.922	1.00
40_F	44_E	0.917	1.00
221_H	339_S	0.916	1.00
122_V	165_L	0.915	1.00
183_I	186_S	0.908	1.00
95_M	99_A	0.907	1.00
94_V	100_I	0.907	1.00
380_I	384_V	0.905	1.00
200_G	220_G	0.904	1.00
147_A	150_S	0.903	1.00
303_G	313_K	0.897	1.00
142_Y	145_A	0.896	1.00
151_A	263_L	0.896	1.00
50_S	153_I	0.892	1.00
151_A	259_T	0.889	1.00
97_L	101_A	0.886	1.00
112_G	115_G	0.880	1.00
162_F	251_L	0.880	1.00
308_A	382_L	0.879	1.00
364_Q	369_Y	0.877	1.00
115_G	185_W	0.875	1.00
290_A	364_Q	0.875	1.00
300_S	309_G	0.873	1.00
293_A	297_F	0.873	1.00
317_F	329_A	0.865	1.00
298_M	346_V	0.860	1.00
293_A	376_A	0.860	1.00
203_A	216_Y	0.857	1.00
277_F	350_L	0.853	1.00
331_I	335_N	0.852	1.00
35_S	38_T	0.852	1.00
381_A	388_P	0.851	1.00
224_Y	316_L	0.850	1.00
250_H	253_V	0.847	1.00
31_A	159_A	0.842	1.00
347_V	352_I	0.841	1.00
335_N	338_L	0.841	1.00
198_T	202_F	0.841	1.00
145_A	150_S	0.838	1.00
94_V	97_L	0.834	1.00
210_V	280_Y	0.834	1.00
218_S	254_Y	0.833	1.00
356_R	359_L	0.831	1.00
27_M	46_A	0.831	1.00
43_L	81_M	0.830	1.00
146_P	149_V	0.828	1.00
271_W	287_A	0.828	1.00
291_C	351_W	0.828	1.00
190_A	227_I	0.827	1.00
197_M	227_I	0.826	1.00
362_S	366_T	0.826	1.00
308_A	379_T	0.825	1.00
370_V	373_L	0.822	1.00
234_S	245_G	0.817	1.00
136_F	139_P	0.816	1.00
24_A	28_T	0.815	1.00
61_R	65_E	0.815	1.00
188_L	191_A	0.814	1.00
250_H	257_M	0.814	1.00
111_V	114_L	0.814	1.00
367_G	371_A	0.813	1.00
33_A	42_S	0.813	1.00
159_A	222_A	0.812	1.00
27_M	160_A	0.812	1.00
26_G	30_M	0.811	1.00
368_L	371_A	0.808	1.00
271_W	368_L	0.807	1.00
154_S	218_S	0.804	1.00
21_L	24_A	0.803	1.00
40_F	85_I	0.798	1.00
292_V	296_V	0.797	1.00
340_L	344_S	0.797	1.00
260_G	375_A	0.796	1.00
281_N	356_R	0.796	1.00
319_G	323_S	0.795	1.00
272_D	280_Y	0.795	1.00
293_A	373_L	0.784	1.00
20_T	152_F	0.783	1.00
131_S	222_A	0.782	1.00
182_V	186_S	0.781	1.00
344_S	348_K	0.780	1.00
13_V	17_Y	0.780	1.00
154_S	258_N	0.776	1.00
89_Y	92_T	0.775	1.00
68_L	72_L	0.774	1.00
292_V	351_W	0.774	1.00
343_Y	346_V	0.774	1.00
27_M	157_S	0.774	1.00
307_G	311_L	0.770	1.00
117_G	121_L	0.769	1.00
194_V	227_I	0.767	1.00
270_Y	362_S	0.766	1.00
193_A	226_L	0.765	1.00
267_L	290_A	0.765	1.00
54_V	141_A	0.763	1.00
375_A	379_T	0.762	1.00
366_T	371_A	0.762	1.00
62_G	144_G	0.760	1.00
145_A	154_S	0.759	1.00
88_V	100_I	0.757	1.00
23_A	50_S	0.757	1.00
277_F	346_V	0.755	1.00
319_G	322_Q	0.755	1.00
221_H	258_N	0.755	1.00
373_L	376_A	0.754	1.00
293_A	372_V	0.753	1.00
115_G	119_V	0.753	1.00
143_E	212_R	0.752	1.00
92_T	100_I	0.750	1.00
299_F	304_L	0.750	1.00
20_T	24_A	0.749	1.00
369_Y	373_L	0.748	1.00
363_G	366_T	0.744	1.00
168_V	172_A	0.741	1.00
139_P	219_V	0.739	1.00
259_T	263_L	0.735	1.00
383_L	386_F	0.731	1.00
154_S	158_K	0.730	1.00
188_L	192_L	0.729	1.00
150_S	158_K	0.728	1.00
155_S	258_N	0.726	1.00
300_S	307_G	0.724	1.00
270_Y	368_L	0.724	1.00
147_A	266_A	0.724	1.00
306_V	384_V	0.720	1.00
194_V	198_T	0.718	1.00
77_S	124_G	0.717	1.00
155_S	158_K	0.717	1.00
118_I	185_W	0.717	1.00
198_T	331_I	0.716	1.00
88_V	117_G	0.716	1.00
23_A	152_F	0.713	1.00
142_Y	218_S	0.712	1.00
267_L	372_V	0.712	1.00
376_A	379_T	0.711	1.00
75_A	78_S	0.711	1.00
43_L	160_A	0.710	1.00
225_V	251_L	0.710	1.00
34_N	38_T	0.707	1.00
62_G	65_E	0.706	1.00
84_G	88_V	0.704	1.00
228_G	246_A	0.702	1.00
246_A	316_L	0.701	1.00
111_V	115_G	0.701	1.00
80_V	123_A	0.698	1.00
132_V	200_G	0.696	1.00
274_G	280_Y	0.696	1.00
51_Y	74_G	0.696	1.00
347_V	351_W	0.693	1.00
16_F	148_P	0.692	1.00
207_Q	213_M	0.692	1.00
201_N	217_S	0.688	1.00
214_L	261_A	0.686	1.00
54_V	153_I	0.684	1.00
129_T	165_L	0.682	1.00
46_A	158_K	0.682	1.00
259_T	375_A	0.679	1.00
337_A	341_F	0.679	1.00
292_V	295_T	0.677	1.00
281_N	353_E	0.675	1.00
201_N	339_S	0.674	1.00
294_M	351_W	0.674	1.00
194_V	328_L	0.673	1.00
221_H	301_L	0.670	1.00
30_M	47_S	0.670	1.00
357_D	360_S	0.666	1.00
217_S	254_Y	0.662	1.00
47_S	78_S	0.661	1.00
44_E	128_K	0.661	1.00
257_M	301_L	0.659	1.00
148_P	266_A	0.659	1.00
152_F	156_A	0.658	1.00
383_L	387_D	0.658	1.00
213_M	346_V	0.658	1.00
202_F	206_T	0.651	1.00
129_T	161_G	0.651	1.00
40_F	78_S	0.650	1.00
191_A	194_V	0.648	1.00
46_A	160_A	0.646	1.00
287_A	363_G	0.643	1.00
116_L	119_V	0.642	1.00
113_V	116_L	0.642	1.00
98_P	101_A	0.642	1.00
50_S	157_S	0.641	1.00
277_F	349_A	0.640	1.00
159_A	255_G	0.640	1.00
267_L	364_Q	0.639	1.00
286_R	361_L	0.639	1.00
203_A	206_T	0.635	1.00
175_L	183_I	0.632	1.00
16_F	149_V	0.631	1.00
333_A	336_S	0.628	1.00
175_L	184_D	0.627	1.00
228_G	232_L	0.627	1.00
132_V	135_H	0.627	1.00
190_A	231_A	0.623	1.00
63_S	143_E	0.620	1.00
81_M	125_F	0.620	1.00
122_V	192_L	0.616	1.00
233_Q	319_G	0.614	1.00
364_Q	368_L	0.614	1.00
317_F	333_A	0.609	1.00
251_L	255_G	0.608	1.00
264_F	297_F	0.607	1.00
382_L	389_V	0.607	1.00
305_P	310_F	0.607	1.00
125_F	165_L	0.606	1.00
298_M	302_A	0.606	1.00
313_K	336_S	0.605	1.00
311_L	386_F	0.604	1.00
217_S	258_N	0.604	1.00
101_A	171_T	0.603	1.00
255_G	259_T	0.602	1.00
40_F	51_Y	0.601	1.00
286_R	355_P	0.598	1.00
224_Y	335_N	0.598	1.00
291_C	295_T	0.598	1.00
167_R	171_T	0.598	1.00
363_G	369_Y	0.598	1.00
15_E	19_L	0.596	1.00
375_A	378_G	0.596	1.00
82_L	86_S	0.595	1.00
100_I	103_T	0.595	1.00
207_Q	216_Y	0.595	1.00
184_D	188_L	0.594	1.00
288_P	291_C	0.594	1.00
118_I	172_A	0.594	1.00
166_F	244_L	0.590	1.00
118_I	122_V	0.589	1.00
162_F	226_L	0.589	1.00
142_Y	215_A	0.588	1.00
377_V	380_I	0.586	1.00
92_T	96_G	0.585	1.00
88_V	91_A	0.584	1.00
372_V	375_A	0.582	1.00
217_S	221_H	0.580	1.00
30_M	42_S	0.576	1.00
201_N	338_L	0.576	1.00
114_L	117_G	0.574	1.00
256_F	308_A	0.573	1.00
150_S	211_K	0.572	1.00
370_V	374_A	0.572	1.00
289_V	369_Y	0.565	1.00
303_G	307_G	0.565	1.00
36_L	97_L	0.565	1.00
361_L	365_P	0.564	1.00
158_K	222_A	0.563	1.00
73_I	127_F	0.562	1.00
258_N	262_F	0.558	1.00
263_L	371_A	0.558	1.00
367_G	370_V	0.557	1.00
321_V	324_G	0.557	1.00
50_S	141_A	0.556	1.00
264_F	293_A	0.556	1.00
19_L	49_P	0.555	1.00
384_V	388_P	0.555	1.00
39_V	81_M	0.554	1.00
361_L	366_T	0.553	1.00
231_A	323_S	0.553	1.00
378_G	381_A	0.553	1.00
113_V	117_G	0.549	1.00
382_L	386_F	0.549	1.00
200_G	219_V	0.548	1.00
197_M	224_Y	0.548	1.00
228_G	319_G	0.548	1.00
88_V	121_L	0.548	1.00
135_H	139_P	0.547	1.00
257_M	379_T	0.543	1.00
47_S	74_G	0.542	1.00
217_S	343_Y	0.542	1.00
252_L	255_G	0.541	1.00
122_V	185_W	0.541	1.00
268_A	280_Y	0.540	1.00
267_L	271_W	0.540	1.00
121_L	168_V	0.539	1.00
296_V	380_I	0.539	1.00
34_N	167_R	0.537	1.00
254_Y	262_F	0.534	1.00
66_A	141_A	0.534	1.00
23_A	157_S	0.533	1.00
155_S	259_T	0.533	1.00
282_G	285_K	0.533	1.00
50_S	53_L	0.530	1.00
378_G	384_V	0.530	1.00
345_R	348_K	0.529	1.00
154_S	254_Y	0.529	1.00
310_F	314_Y	0.528	1.00
23_A	49_P	0.527	1.00
341_F	345_R	0.527	1.00
382_L	385_A	0.526	1.00
267_L	368_L	0.525	0.99
150_S	262_F	0.524	0.99
81_M	121_L	0.520	0.99
208_E	217_S	0.520	0.99
330_G	333_A	0.519	0.99
193_A	197_M	0.516	0.99
311_L	315_V	0.516	0.99
22_L	26_G	0.515	0.99
363_G	368_L	0.515	0.99
29_L	32_A	0.514	0.99
203_A	207_Q	0.514	0.99
45_L	49_P	0.514	0.99
154_S	159_A	0.514	0.99
151_A	262_F	0.514	0.99
159_A	254_Y	0.513	0.99
384_V	387_D	0.511	0.99
196_T	223_G	0.511	0.99
317_F	336_S	0.510	0.99
194_V	197_M	0.510	0.99
142_Y	155_S	0.509	0.99
16_F	56_Y	0.508	0.99
97_L	171_T	0.508	0.99
293_A	369_Y	0.508	0.99
327_W	331_I	0.508	0.99
218_S	258_N	0.507	0.99
36_L	88_V	0.506	0.99
297_F	379_T	0.505	0.99
261_A	294_M	0.505	0.99
285_K	354_D	0.505	0.99
284_S	351_W	0.504	0.99
332_A	336_S	0.504	0.99
211_K	254_Y	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	0.9529	100	0.118	Contact Map
3rkoN	1	0.9305	100	0.129	Contact Map
4he8L	1	0.9553	100	0.133	Contact Map
3rkoL	1	0.9529	100	0.133	Contact Map
4he8M	1	0.9404	100	0.148	Contact Map
4he8N	1	0.8759	100	0.207	Contact Map
4he8K	1	0.2308	38.5	0.957	Contact Map
3rkoK	1	0.2407	31.4	0.959	Contact Map
2gfpA	2	0.7419	15.3	0.965	Contact Map
1pw4A	1	0.7841	14.8	0.965	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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