NUOH - ECOLI - GREMLIN Contacts

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NUOH - NADH-quinone oxidoreductase subunit H

UniProt:	P0AFD4	Sequences: MSWISPELIEILLTILKAVVILLVVVTCGAFMSFGERRLLGLFQNRYGPNRVGWGGSLQLVADMIKMFFKEDWIPKFSDRVIFTLAPMIAFTSLLLAFAIVPVSPGWVVADLNIGILFFLMMAGLAVYAVLFAGWSSNNKYSLLGAMRASAQTLSYEVFLGLSLMGVVAQAGSFNMTDIVNSQAHVWNVIPQFFGFITFAIAGVAVCHRHPFDQPEAEQELADGYHIEYSGMKFGLFFVGEYIGIVTISALMVTLFFGGWQGPLLPPFIWFALKTAFFMMMFILIRASLPRPRYDQVMSFGWKICLPLTLINLLVTAAVILWQAQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12088
Length:	325 (307)
Sequences:	5434 (2585)
Seq/√Len:	147.5

ECOLI - NUOH HYFC HYCD
HALSA - Q9HRL8
SULSO - Q980H2 Q97ZA4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
173_S	178_D	4.852	1.00
196_F	252_M	3.934	1.00
40_L	287_A	3.812	1.00
200_A	281_M	3.776	1.00
33_S	60_L	3.773	1.00
250_A	271_F	3.653	1.00
43_F	287_A	3.419	1.00
253_V	271_F	3.223	1.00
142_S	227_I	2.774	1.00
250_A	275_T	2.741	1.00
257_F	278_F	2.582	1.00
171_A	188_N	2.467	1.00
61_V	64_M	2.425	1.00
204_V	285_I	2.420	1.00
199_F	252_M	2.405	1.00
182_S	188_N	2.391	1.00
94_L	244_G	2.373	1.00
189_V	257_F	2.367	1.00
72_D	233_K	2.357	1.00
178_D	181_N	2.328	1.00
207_C	282_F	2.275	1.00
262_G	270_W	2.178	1.00
189_V	196_F	2.166	1.00
249_S	278_F	2.158	1.00
94_L	243_I	2.132	1.00
223_D	226_H	2.128	1.00
246_V	279_M	2.085	1.00
120_L	161_G	2.075	1.00
90_A	129_A	2.029	1.00
169_A	317_A	2.025	1.00
82_I	132_F	2.000	1.00
97_A	247_T	1.939	1.00
25_V	243_I	1.938	1.00
201_I	305_C	1.931	1.00
134_G	146_A	1.916	1.00
266_P	270_W	1.880	1.00
203_G	248_I	1.877	1.00
181_N	184_A	1.869	1.00
68_F	235_G	1.857	1.00
90_A	240_G	1.836	1.00
96_L	118_F	1.825	1.00
200_A	204_V	1.815	1.00
277_F	281_M	1.802	1.00
32_M	279_M	1.793	1.00
31_F	60_L	1.747	1.00
118_F	122_M	1.732	1.00
195_G	256_F	1.731	1.00
39_L	280_M	1.718	1.00
35_G	280_M	1.703	1.00
192_Q	316_T	1.701	1.00
29_G	243_I	1.699	1.00
66_K	70_K	1.622	1.00
166_G	195_G	1.619	1.00
186_V	190_I	1.599	1.00
187_W	274_K	1.589	1.00
175_N	178_D	1.587	1.00
152_Q	297_V	1.579	1.00
100_I	118_F	1.567	1.00
108_V	177_T	1.552	1.00
226_H	234_F	1.543	1.00
234_F	238_F	1.502	1.00
43_F	284_L	1.497	1.00
214_Q	297_V	1.492	1.00
19_V	23_L	1.474	1.00
195_G	312_N	1.469	1.00
167_V	179_I	1.458	1.00
266_P	269_I	1.452	1.00
262_G	265_L	1.419	1.00
42_L	47_Y	1.418	1.00
119_F	123_A	1.415	1.00
159_F	202_A	1.414	1.00
29_G	239_V	1.403	1.00
217_A	221_L	1.401	1.00
162_L	313_L	1.393	1.00
149_A	215_P	1.370	1.00
39_L	283_I	1.357	1.00
284_L	288_S	1.351	1.00
203_G	252_M	1.350	1.00
171_A	179_I	1.350	1.00
89_I	93_S	1.345	1.00
39_L	43_F	1.340	1.00
214_Q	292_P	1.336	1.00
171_A	182_S	1.328	1.00
104_S	107_W	1.297	1.00
164_L	255_L	1.293	1.00
252_M	278_F	1.292	1.00
217_A	220_E	1.282	1.00
112_L	118_F	1.281	1.00
169_A	320_I	1.281	1.00
145_G	215_P	1.264	1.00
84_T	233_K	1.262	1.00
47_Y	50_N	1.256	1.00
193_F	197_I	1.253	1.00
160_L	202_A	1.248	1.00
300_F	305_C	1.246	1.00
23_L	26_V	1.244	1.00
54_W	58_L	1.231	1.00
139_N	142_S	1.219	1.00
159_F	309_T	1.217	1.00
96_L	122_M	1.205	1.00
131_L	150_S	1.202	1.00
253_V	257_F	1.186	1.00
170_Q	192_Q	1.185	1.00
294_Y	298_M	1.181	1.00
205_A	212_F	1.179	1.00
199_F	248_I	1.178	1.00
61_V	65_I	1.177	1.00
28_C	246_V	1.174	1.00
36_E	209_R	1.168	1.00
222_A	227_I	1.167	1.00
245_I	279_M	1.156	1.00
38_R	42_L	1.153	1.00
177_T	181_N	1.150	1.00
99_A	118_F	1.142	1.00
166_G	309_T	1.134	0.99
265_L	269_I	1.127	0.99
27_T	61_V	1.126	0.99
280_M	284_L	1.124	0.99
98_F	247_T	1.123	0.99
83_F	87_P	1.122	0.99
245_I	282_F	1.121	0.99
178_D	182_S	1.115	0.99
36_E	286_R	1.111	0.99
68_F	232_M	1.109	0.99
133_A	136_S	1.107	0.99
59_Q	63_D	1.100	0.99
86_A	133_A	1.088	0.99
111_D	175_N	1.086	0.99
28_C	276_A	1.081	0.99
34_F	57_S	1.081	0.99
193_F	196_F	1.076	0.99
207_C	248_I	1.069	0.99
198_T	308_L	1.069	0.99
184_A	261_Q	1.068	0.99
159_F	301_G	1.066	0.99
42_L	50_N	1.065	0.99
253_V	275_T	1.057	0.99
183_Q	188_N	1.056	0.99
111_D	177_T	1.054	0.99
65_I	69_F	1.046	0.99
183_Q	258_G	1.046	0.99
214_Q	296_Q	1.043	0.99
31_F	57_S	1.039	0.99
127_V	153_T	1.036	0.99
250_A	254_T	1.035	0.99
232_M	235_G	1.033	0.99
116_I	168_V	1.028	0.99
214_Q	221_L	1.026	0.99
75_P	83_F	1.025	0.99
33_S	242_Y	1.025	0.99
86_A	132_F	1.022	0.99
75_P	78_S	1.020	0.99
278_F	281_M	1.019	0.99
35_G	39_L	1.015	0.99
259_G	274_K	1.012	0.99
159_F	306_L	1.011	0.99
91_F	95_L	1.010	0.99
91_F	236_L	1.004	0.99
173_S	179_I	1.000	0.99
16_L	20_V	0.996	0.99
52_V	59_Q	0.993	0.99
34_F	60_L	0.992	0.99
257_F	274_K	0.990	0.99
133_A	229_Y	0.989	0.99
188_N	191_P	0.988	0.99
197_I	201_I	0.987	0.99
162_L	310_L	0.979	0.98
133_A	237_F	0.979	0.98
147_M	215_P	0.976	0.98
187_W	258_G	0.966	0.98
221_L	225_Y	0.960	0.98
74_I	84_T	0.954	0.98
168_V	174_F	0.954	0.98
166_G	313_L	0.953	0.98
186_V	191_P	0.948	0.98
86_A	136_S	0.945	0.98
293_R	298_M	0.943	0.98
163_S	198_T	0.938	0.98
267_P	270_W	0.936	0.98
115_G	175_N	0.935	0.98
271_F	275_T	0.929	0.98
23_L	27_T	0.925	0.98
217_A	291_R	0.923	0.98
128_Y	294_Y	0.921	0.98
38_R	70_K	0.918	0.98
42_L	55_G	0.918	0.98
200_A	282_F	0.918	0.98
100_I	115_G	0.916	0.98
312_N	316_T	0.914	0.98
91_F	240_G	0.908	0.98
213_D	291_R	0.894	0.97
183_Q	187_W	0.894	0.97
284_L	289_L	0.889	0.97
213_D	216_E	0.884	0.97
199_F	256_F	0.880	0.97
40_L	286_R	0.879	0.97
170_Q	320_I	0.877	0.97
64_M	69_F	0.871	0.97
67_M	235_G	0.870	0.97
316_T	320_I	0.869	0.97
119_F	176_M	0.869	0.97
86_A	129_A	0.869	0.97
93_S	122_M	0.868	0.97
262_G	266_P	0.868	0.97
210_H	289_L	0.865	0.97
152_Q	208_H	0.864	0.97
192_Q	312_N	0.863	0.97
64_M	68_F	0.862	0.97
26_V	95_L	0.854	0.96
35_G	283_I	0.853	0.96
163_S	202_A	0.848	0.96
116_I	176_M	0.847	0.96
200_A	252_M	0.845	0.96
292_P	296_Q	0.841	0.96
90_A	237_F	0.840	0.96
181_N	185_H	0.835	0.96
38_R	50_N	0.834	0.96
152_Q	156_Y	0.834	0.96
41_G	47_Y	0.833	0.96
31_F	61_V	0.832	0.96
159_F	305_C	0.831	0.96
187_W	259_G	0.829	0.96
226_H	238_F	0.826	0.96
120_L	164_L	0.826	0.96
209_R	213_D	0.822	0.96
166_G	192_Q	0.818	0.95
67_M	238_F	0.816	0.95
187_W	190_I	0.815	0.95
215_P	225_Y	0.814	0.95
50_N	55_G	0.811	0.95
308_L	312_N	0.804	0.95
196_F	256_F	0.803	0.95
34_F	42_L	0.802	0.95
84_T	88_M	0.801	0.95
180_V	260_W	0.800	0.95
103_V	109_V	0.797	0.95
44_Q	49_P	0.796	0.95
64_M	239_V	0.794	0.95
59_Q	66_K	0.792	0.95
231_G	235_G	0.792	0.95
49_P	59_Q	0.786	0.94
281_M	285_I	0.780	0.94
37_R	46_R	0.779	0.94
63_D	66_K	0.777	0.94
108_V	111_D	0.769	0.94
130_V	149_A	0.764	0.93
135_W	138_N	0.764	0.93
30_A	40_L	0.763	0.93
33_S	36_E	0.763	0.93
31_F	34_F	0.757	0.93
79_D	138_N	0.752	0.93
258_G	274_K	0.750	0.93
219_Q	222_A	0.750	0.93
15_I	19_V	0.749	0.93
235_G	239_V	0.744	0.93
21_I	109_V	0.743	0.92
109_V	239_V	0.742	0.92
36_E	40_L	0.740	0.92
37_R	63_D	0.735	0.92
83_F	229_Y	0.735	0.92
180_V	259_G	0.734	0.92
112_L	119_F	0.734	0.92
253_V	274_K	0.733	0.92
94_L	247_T	0.729	0.92
238_F	286_R	0.727	0.92
206_V	209_R	0.726	0.92
112_L	237_F	0.725	0.92
58_L	61_V	0.724	0.91
204_V	282_F	0.723	0.91
105_P	181_N	0.719	0.91
123_A	126_A	0.717	0.91
182_S	185_H	0.717	0.91
163_S	166_G	0.717	0.91
299_S	303_K	0.717	0.91
265_L	268_F	0.715	0.91
34_F	40_L	0.714	0.91
36_E	242_Y	0.713	0.91
78_S	83_F	0.712	0.91
199_F	203_G	0.709	0.91
220_E	291_R	0.708	0.91
101_V	250_A	0.707	0.91
37_R	216_E	0.705	0.90
293_R	296_Q	0.705	0.90
100_I	119_F	0.704	0.90
149_A	217_A	0.702	0.90
28_C	31_F	0.702	0.90
205_A	297_V	0.700	0.90
200_A	278_F	0.700	0.90
13_L	16_L	0.699	0.90
53_G	58_L	0.698	0.90
160_L	301_G	0.697	0.90
277_F	280_M	0.694	0.90
111_D	115_G	0.692	0.90
26_V	30_A	0.691	0.89
262_G	267_P	0.691	0.89
166_G	312_N	0.691	0.89
216_E	224_G	0.691	0.89
268_F	272_A	0.689	0.89
92_T	315_V	0.689	0.89
184_A	188_N	0.685	0.89
139_N	282_F	0.684	0.89
91_F	227_I	0.682	0.89
116_I	179_I	0.682	0.89
40_L	45_N	0.682	0.89
219_Q	223_D	0.682	0.89
253_V	267_P	0.681	0.89
152_Q	155_S	0.680	0.89
90_A	126_A	0.680	0.89
44_Q	228_E	0.675	0.88
196_F	257_F	0.674	0.88
271_F	274_K	0.672	0.88
279_M	283_I	0.670	0.88
248_I	252_M	0.667	0.88
176_M	251_L	0.666	0.88
260_W	274_K	0.663	0.87
22_L	26_V	0.663	0.87
156_Y	205_A	0.662	0.87
87_P	229_Y	0.660	0.87
28_C	279_M	0.660	0.87
137_S	229_Y	0.657	0.87
149_A	221_L	0.657	0.87
155_S	298_M	0.657	0.87
74_I	80_R	0.656	0.87
295_D	298_M	0.656	0.87
82_I	86_A	0.656	0.87
96_L	178_D	0.653	0.87
47_Y	51_R	0.653	0.87
160_L	163_S	0.652	0.87
142_S	223_D	0.651	0.87
309_T	316_T	0.643	0.86
101_V	109_V	0.642	0.86
145_G	149_A	0.641	0.86
13_L	17_K	0.641	0.86
25_V	29_G	0.639	0.86
266_P	273_L	0.633	0.85
37_R	48_G	0.631	0.85
210_H	219_Q	0.631	0.85
34_F	55_G	0.631	0.85
291_R	295_D	0.630	0.85
213_D	221_L	0.629	0.85
18_A	110_A	0.629	0.85
101_V	247_T	0.628	0.85
170_Q	191_P	0.626	0.84
27_T	30_A	0.625	0.84
30_A	34_F	0.624	0.84
18_A	21_I	0.624	0.84
315_V	318_A	0.623	0.84
83_F	133_A	0.623	0.84
30_A	64_M	0.622	0.84
42_L	283_I	0.621	0.84
198_T	201_I	0.620	0.84
165_M	313_L	0.620	0.84
275_T	279_M	0.617	0.83
75_P	87_P	0.615	0.83
21_I	103_V	0.614	0.83
179_I	255_L	0.613	0.83
85_L	88_M	0.612	0.83
89_I	92_T	0.611	0.83
70_K	303_K	0.609	0.83
166_G	316_T	0.606	0.82
273_L	276_A	0.605	0.82
72_D	83_F	0.601	0.82
129_A	132_F	0.598	0.82
130_V	208_H	0.598	0.82
161_G	164_L	0.597	0.81
116_I	164_L	0.595	0.81
90_A	130_V	0.594	0.81
64_M	235_G	0.591	0.81
200_A	284_L	0.588	0.80
167_V	255_L	0.588	0.80
24_V	28_C	0.587	0.80
145_G	222_A	0.583	0.80
137_S	142_S	0.582	0.80
165_M	168_V	0.581	0.80
38_R	57_S	0.581	0.80
95_L	243_I	0.579	0.79
223_D	238_F	0.578	0.79
53_G	59_Q	0.578	0.79
301_G	304_I	0.577	0.79
306_L	309_T	0.575	0.79
213_D	220_E	0.573	0.79
163_S	195_G	0.572	0.79
132_F	136_S	0.571	0.79
272_A	275_T	0.570	0.78
171_A	178_D	0.569	0.78
90_A	97_A	0.569	0.78
62_A	140_K	0.568	0.78
297_V	306_L	0.567	0.78
63_D	291_R	0.565	0.78
214_Q	217_A	0.564	0.78
41_G	46_R	0.563	0.78
125_L	304_I	0.560	0.77
207_C	244_G	0.560	0.77
123_A	252_M	0.559	0.77
16_L	196_F	0.555	0.77
17_K	21_I	0.554	0.76
225_Y	238_F	0.554	0.76
283_I	286_R	0.554	0.76
14_T	17_K	0.553	0.76
34_F	38_R	0.550	0.76
65_I	68_F	0.547	0.76
103_V	250_A	0.546	0.75
292_P	301_G	0.546	0.75
13_L	277_F	0.546	0.75
116_I	174_F	0.545	0.75
129_A	161_G	0.542	0.75
93_S	96_L	0.541	0.75
167_V	192_Q	0.540	0.75
254_T	259_G	0.540	0.75
85_L	89_I	0.539	0.74
209_R	242_Y	0.538	0.74
77_F	231_G	0.538	0.74
155_S	306_L	0.537	0.74
291_R	294_Y	0.537	0.74
18_A	22_L	0.536	0.74
42_L	161_G	0.535	0.74
30_A	239_V	0.534	0.74
14_T	20_V	0.533	0.74
119_F	247_T	0.533	0.74
194_F	312_N	0.531	0.73
100_I	201_I	0.531	0.73
74_I	78_S	0.530	0.73
249_S	253_V	0.530	0.73
183_Q	259_G	0.529	0.73
129_A	146_A	0.529	0.73
159_F	294_Y	0.529	0.73
117_L	294_Y	0.528	0.73
150_S	159_F	0.527	0.73
208_H	241_E	0.527	0.73
46_R	224_G	0.527	0.73
269_I	273_L	0.526	0.73
197_I	313_L	0.524	0.72
142_S	320_I	0.523	0.72
21_I	24_V	0.523	0.72
95_L	239_V	0.520	0.72
208_H	244_G	0.520	0.72
86_A	124_G	0.519	0.72
263_P	266_P	0.518	0.72
100_I	103_V	0.518	0.72
103_V	272_A	0.517	0.71
60_L	67_M	0.517	0.71
60_L	283_I	0.515	0.71
253_V	278_F	0.515	0.71
81_V	320_I	0.515	0.71
53_G	235_G	0.513	0.71
197_I	277_F	0.513	0.71
181_N	259_G	0.511	0.71
14_T	320_I	0.511	0.71
93_S	126_A	0.510	0.70
297_V	302_W	0.510	0.70
146_A	240_G	0.510	0.70
221_L	226_H	0.510	0.70
128_Y	160_L	0.509	0.70
97_A	114_I	0.508	0.70
242_Y	286_R	0.506	0.70
120_L	129_A	0.506	0.70
194_F	198_T	0.505	0.70
151_A	205_A	0.504	0.70
153_T	161_G	0.503	0.69
177_T	185_H	0.500	0.69

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
4he8H	1	0.8215	100	0.079	Contact Map
2jpkA	1	0.1077	7.4	0.97	Contact Map
3mp7A	1	0.1631	6.2	0.972	Contact Map
1q90G	1	0.0923	4.8	0.973	Contact Map
4h25C	1	0.0677	4.2	0.974	Contact Map
1q2fA	1	0.0954	3.8	0.974	Contact Map
1vryA	1	0.1877	3.3	0.975	Contact Map
2ll2A	1	0.08	2.8	0.976	Contact Map
3dacP	1	0.04	2.3	0.977	Contact Map
3w4tA	1	0.9385	1.9	0.978	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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