Q9HNH1 - HALSA - GREMLIN Contacts

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Q9HNH1 - Succinate dehydrogenase subunit

UniProt:	Q9HNH1	Sequences: MTSLGTASAAPGEFDSGRLTVGETRDGTTLGLPVAVVNGARDGKTLYMQAASDGDELNGVGVVRRVVPQLDPAEIAGEILIVGIANLPAFRVAEHRNPIDDTKLNRAYPGTADGSSSERIAHATFTAAESADLVVDLHQGSTSRMINEVRVRCGRHHRLHSQCLELAKVFGTGHVLDQKGPDGQLARAGPNTGVPTIDPELGGCVGWDADSIEYGVTGVFNVLRHYGFLDGDVDTTEQVRAREFDRYGSPAGGLVDYAVELGDRVDAGDALFDVTDPFGMLKATVTADRNGIFWRSRRKPQVATGEYVCSVGARVDTY	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	318 (283)
Sequences:	3033 (2066)
Seq/√Len:	122.8

HALSA - Q9HNH1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
46_L	223_L	5.762	1.00
266_D	290_N	4.215	1.00
270_A	284_T	3.493	1.00
259_V	269_D	3.440	1.00
122_H	126_T	3.409	1.00
165_E	225_H	3.163	1.00
48_M	63_V	3.100	1.00
255_V	272_F	3.083	1.00
270_A	286_T	2.954	1.00
41_R	76_A	2.888	1.00
63_V	81_I	2.778	1.00
45_T	78_E	2.698	1.00
39_G	43_G	2.642	1.00
266_D	269_D	2.598	1.00
67_V	81_I	2.582	1.00
46_L	228_F	2.558	1.00
147_N	150_R	2.525	1.00
138_H	200_E	2.487	1.00
65_R	216_V	2.471	1.00
260_E	263_D	2.456	1.00
36_V	78_E	2.424	1.00
164_L	168_K	2.409	1.00
85_A	124_T	2.377	1.00
147_N	152_R	2.332	1.00
224_R	231_G	2.255	1.00
115_S	118_E	1.971	1.00
258_A	273_D	1.955	1.00
117_S	124_T	1.920	1.00
184_Q	188_A	1.915	1.00
259_V	293_F	1.897	1.00
58_N	139_Q	1.877	1.00
95_H	106_R	1.865	1.00
117_S	121_A	1.823	1.00
273_D	284_T	1.820	1.00
95_H	105_N	1.816	1.00
47_Y	131_A	1.809	1.00
117_S	120_I	1.780	1.00
135_V	222_V	1.714	1.00
35_A	67_V	1.713	1.00
148_E	152_R	1.675	1.00
249_S	253_G	1.633	1.00
79_I	228_F	1.623	1.00
125_F	188_A	1.622	1.00
184_Q	187_R	1.620	1.00
105_N	138_H	1.609	1.00
51_A	60_V	1.608	1.00
38_N	78_E	1.582	1.00
45_T	80_L	1.579	1.00
53_D	138_H	1.569	1.00
46_L	226_Y	1.566	1.00
49_Q	52_S	1.565	1.00
55_D	95_H	1.561	1.00
60_V	90_F	1.554	1.00
221_N	224_R	1.546	1.00
259_V	263_D	1.514	1.00
217_T	221_N	1.500	1.00
162_Q	165_E	1.497	1.00
106_R	138_H	1.472	1.00
75_I	228_F	1.471	1.00
111_T	118_E	1.462	1.00
247_Y	288_D	1.462	1.00
223_L	226_Y	1.454	1.00
47_Y	134_V	1.449	1.00
149_V	152_R	1.446	1.00
110_G	114_G	1.428	1.00
270_A	273_D	1.423	1.00
253_G	262_G	1.410	1.00
208_D	211_S	1.406	1.00
66_V	219_V	1.403	1.00
71_D	74_E	1.397	1.00
56_E	138_H	1.392	1.00
293_F	309_C	1.390	1.00
255_V	258_A	1.365	1.00
209_A	213_E	1.360	1.00
105_N	198_D	1.358	1.00
39_G	74_E	1.352	1.00
287_A	290_N	1.347	1.00
149_V	153_C	1.340	1.00
169_V	225_H	1.334	1.00
69_Q	220_F	1.332	1.00
105_N	200_E	1.331	1.00
45_T	130_S	1.322	1.00
52_S	136_D	1.302	1.00
120_I	125_F	1.295	1.00
263_D	269_D	1.285	1.00
39_G	75_I	1.280	1.00
133_L	226_Y	1.277	1.00
50_A	63_V	1.270	1.00
53_D	56_E	1.265	1.00
62_V	215_G	1.260	1.00
184_Q	189_G	1.255	1.00
224_R	230_D	1.252	1.00
276_D	280_M	1.249	0.99
95_H	138_H	1.247	0.99
216_V	220_F	1.247	0.99
70_L	75_I	1.243	0.99
146_I	149_V	1.240	0.99
217_T	224_R	1.231	0.99
19_L	80_L	1.225	0.99
53_D	200_E	1.222	0.99
201_L	215_G	1.222	0.99
219_V	223_L	1.213	0.99
48_M	79_I	1.208	0.99
186_A	189_G	1.196	0.99
211_S	214_Y	1.189	0.99
259_V	262_G	1.186	0.99
65_R	209_A	1.180	0.99
56_E	105_N	1.177	0.99
37_V	67_V	1.169	0.99
53_D	136_D	1.154	0.99
176_L	244_F	1.131	0.99
163_C	197_I	1.129	0.99
118_E	124_T	1.121	0.99
249_S	274_V	1.112	0.99
285_V	308_V	1.105	0.99
56_E	200_E	1.103	0.99
95_H	103_K	1.100	0.99
49_Q	124_T	1.098	0.99
234_D	237_E	1.094	0.99
43_G	77_G	1.094	0.99
106_R	200_E	1.092	0.99
178_Q	181_P	1.092	0.99
258_A	270_A	1.080	0.99
250_P	283_A	1.074	0.98
165_E	169_V	1.071	0.98
109_P	114_G	1.071	0.98
105_N	136_D	1.062	0.98
95_H	200_E	1.055	0.98
147_N	153_C	1.045	0.98
66_V	220_F	1.044	0.98
62_V	201_L	1.031	0.98
185_L	188_A	1.027	0.98
54_G	89_A	1.027	0.98
66_V	81_I	1.023	0.98
253_G	256_D	1.022	0.98
118_E	125_F	1.022	0.98
178_Q	182_D	1.021	0.98
82_V	124_T	1.019	0.98
56_E	106_R	1.018	0.98
147_N	155_R	1.012	0.98
207_W	212_I	1.007	0.98
129_E	192_T	1.004	0.98
136_D	200_E	1.001	0.98
64_R	68_P	1.000	0.98
52_S	85_A	0.998	0.98
121_A	125_F	0.992	0.97
227_G	230_D	0.987	0.97
135_V	219_V	0.985	0.97
96_R	100_D	0.982	0.97
152_R	155_R	0.977	0.97
100_D	117_S	0.966	0.97
71_D	75_I	0.964	0.97
56_E	95_H	0.958	0.97
167_A	197_I	0.957	0.97
37_V	74_E	0.955	0.97
35_A	83_G	0.948	0.97
255_V	308_V	0.943	0.97
48_M	81_I	0.941	0.96
48_M	137_L	0.932	0.96
57_L	90_F	0.925	0.96
76_A	227_G	0.912	0.96
268_G	286_T	0.910	0.96
298_R	308_V	0.905	0.96
222_V	226_Y	0.900	0.95
267_A	287_A	0.894	0.95
117_S	125_F	0.892	0.95
121_A	128_A	0.891	0.95
22_G	27_G	0.889	0.95
182_D	188_A	0.887	0.95
220_F	224_R	0.883	0.95
261_L	264_R	0.881	0.95
137_L	292_I	0.881	0.95
271_L	309_C	0.880	0.95
33_P	39_G	0.878	0.95
210_D	214_Y	0.875	0.95
146_I	150_R	0.873	0.95
296_S	309_C	0.872	0.95
161_S	165_E	0.869	0.95
203_G	206_G	0.863	0.94
49_Q	85_A	0.857	0.94
198_D	201_L	0.852	0.94
133_L	166_L	0.849	0.94
253_G	261_L	0.848	0.94
112_A	122_H	0.842	0.94
106_R	198_D	0.842	0.94
124_T	128_A	0.839	0.93
60_V	84_I	0.839	0.93
20_T	31_G	0.837	0.93
40_A	43_G	0.836	0.93
50_A	60_V	0.836	0.93
247_Y	251_A	0.835	0.93
150_R	154_G	0.834	0.93
137_L	199_P	0.833	0.93
148_E	153_C	0.831	0.93
61_G	64_R	0.829	0.93
201_L	211_S	0.827	0.93
124_T	185_L	0.826	0.93
44_K	77_G	0.824	0.93
84_I	90_F	0.823	0.93
174_H	177_D	0.823	0.93
223_L	228_F	0.821	0.93
48_M	219_V	0.815	0.92
165_E	168_K	0.814	0.92
48_M	223_L	0.813	0.92
119_R	123_A	0.812	0.92
120_I	123_A	0.810	0.92
249_S	254_L	0.807	0.92
135_V	197_I	0.805	0.92
33_P	36_V	0.804	0.92
185_L	189_G	0.803	0.92
233_V	236_T	0.802	0.92
76_A	230_D	0.802	0.92
107_A	118_E	0.800	0.92
69_Q	217_T	0.798	0.92
170_F	218_G	0.798	0.92
54_G	103_K	0.798	0.92
36_V	80_L	0.796	0.91
168_K	237_E	0.792	0.91
251_A	254_L	0.786	0.91
224_R	234_D	0.786	0.91
302_V	308_V	0.781	0.91
107_A	121_A	0.771	0.90
248_G	307_Y	0.767	0.90
21_V	25_R	0.765	0.90
179_K	182_D	0.763	0.90
278_F	281_L	0.762	0.90
118_E	121_A	0.760	0.90
151_V	155_R	0.758	0.89
274_V	285_V	0.755	0.89
141_S	144_R	0.752	0.89
134_V	185_L	0.751	0.89
133_L	195_P	0.749	0.89
70_L	79_I	0.749	0.89
52_S	82_V	0.749	0.89
225_H	230_D	0.746	0.89
224_R	229_L	0.744	0.89
243_E	253_G	0.743	0.88
248_G	253_G	0.742	0.88
148_E	151_V	0.742	0.88
53_D	95_H	0.742	0.88
207_W	211_S	0.741	0.88
221_N	225_H	0.738	0.88
75_I	81_I	0.736	0.88
106_R	136_D	0.735	0.88
166_L	197_I	0.735	0.88
230_D	233_V	0.732	0.88
265_V	269_D	0.732	0.88
253_G	257_Y	0.732	0.88
139_Q	206_G	0.732	0.88
82_V	131_A	0.731	0.88
267_A	270_A	0.726	0.87
127_A	130_S	0.723	0.87
186_A	198_D	0.712	0.86
150_R	155_R	0.708	0.86
274_V	286_T	0.702	0.85
216_V	222_V	0.700	0.85
107_A	117_S	0.700	0.85
45_T	132_D	0.700	0.85
221_N	234_D	0.698	0.85
231_G	234_D	0.691	0.85
36_V	39_G	0.690	0.84
170_F	199_P	0.690	0.84
23_E	26_D	0.689	0.84
260_E	270_A	0.687	0.84
172_T	175_V	0.687	0.84
187_R	197_I	0.687	0.84
53_D	105_N	0.685	0.84
232_D	235_T	0.679	0.84
86_N	89_A	0.679	0.84
246_R	249_S	0.678	0.83
120_I	124_T	0.677	0.83
271_L	287_A	0.677	0.83
261_L	308_V	0.673	0.83
250_P	253_G	0.673	0.83
272_F	308_V	0.671	0.83
61_G	209_A	0.671	0.83
64_R	84_I	0.670	0.83
276_D	281_L	0.668	0.83
238_Q	241_A	0.662	0.82
257_Y	272_F	0.659	0.82
114_G	118_E	0.658	0.82
66_V	70_L	0.656	0.81
267_A	290_N	0.654	0.81
296_S	308_V	0.654	0.81
72_P	231_G	0.653	0.81
117_S	128_A	0.652	0.81
33_P	38_N	0.651	0.81
169_V	172_T	0.650	0.81
59_G	83_G	0.649	0.81
146_I	152_R	0.649	0.81
140_G	295_R	0.648	0.81
144_R	295_R	0.642	0.80
48_M	66_V	0.640	0.80
135_V	163_C	0.637	0.79
265_V	287_A	0.636	0.79
49_Q	82_V	0.636	0.79
245_D	288_D	0.635	0.79
227_G	233_V	0.634	0.79
102_T	107_A	0.634	0.79
89_A	150_R	0.628	0.79
283_A	288_D	0.625	0.78
245_D	250_P	0.625	0.78
238_Q	243_E	0.624	0.78
121_A	124_T	0.622	0.78
184_Q	196_T	0.621	0.78
116_S	120_I	0.621	0.78
267_A	289_R	0.620	0.78
178_Q	186_A	0.616	0.77
40_A	71_D	0.615	0.77
247_Y	253_G	0.615	0.77
109_P	125_F	0.613	0.77
65_R	165_E	0.611	0.77
51_A	90_F	0.610	0.76
125_F	192_T	0.610	0.76
140_G	144_R	0.610	0.76
111_T	114_G	0.609	0.76
123_A	127_A	0.609	0.76
53_D	106_R	0.609	0.76
70_L	81_I	0.606	0.76
23_E	31_G	0.604	0.76
213_E	250_P	0.602	0.76
198_D	205_V	0.602	0.76
46_L	133_L	0.601	0.75
134_V	196_T	0.600	0.75
22_G	30_L	0.597	0.75
138_H	198_D	0.596	0.75
141_S	204_C	0.596	0.75
24_T	30_L	0.594	0.75
221_N	231_G	0.590	0.74
226_Y	229_L	0.589	0.74
48_M	135_V	0.589	0.74
128_A	131_A	0.588	0.74
100_D	118_E	0.587	0.74
49_Q	134_V	0.586	0.74
168_K	217_T	0.584	0.73
57_L	297_R	0.584	0.73
150_R	153_C	0.584	0.73
97_N	102_T	0.581	0.73
256_D	275_T	0.579	0.73
96_R	115_S	0.578	0.73
76_A	224_R	0.578	0.73
103_K	186_A	0.577	0.72
137_L	219_V	0.577	0.72
188_A	192_T	0.576	0.72
217_T	220_F	0.575	0.72
149_V	155_R	0.575	0.72
110_G	125_F	0.572	0.72
233_V	237_E	0.572	0.72
38_N	41_R	0.571	0.72
71_D	80_L	0.571	0.72
147_N	151_V	0.571	0.72
39_G	72_P	0.571	0.72
252_G	304_T	0.566	0.71
139_Q	204_C	0.564	0.71
22_G	88_P	0.563	0.71
32_L	120_I	0.562	0.71
264_R	267_A	0.561	0.70
289_R	292_I	0.560	0.70
230_D	234_D	0.559	0.70
297_R	308_V	0.555	0.70
102_T	118_E	0.555	0.70
239_V	242_R	0.554	0.69
267_A	281_L	0.554	0.69
243_E	254_L	0.554	0.69
26_D	30_L	0.553	0.69
97_N	117_S	0.553	0.69
269_D	291_G	0.553	0.69
167_A	175_V	0.551	0.69
171_G	217_T	0.551	0.69
256_D	273_D	0.551	0.69
54_G	59_G	0.550	0.69
77_G	305_G	0.548	0.69
274_V	283_A	0.548	0.69
166_L	226_Y	0.548	0.69
303_A	306_E	0.546	0.68
165_E	233_V	0.546	0.68
271_L	308_V	0.543	0.68
266_D	286_T	0.542	0.68
216_V	219_V	0.542	0.68
126_T	129_E	0.540	0.67
152_R	180_G	0.538	0.67
128_A	192_T	0.537	0.67
169_V	221_N	0.537	0.67
278_F	282_K	0.537	0.67
110_G	121_A	0.534	0.67
49_Q	185_L	0.534	0.67
202_G	215_G	0.533	0.66
93_A	205_V	0.531	0.66
219_V	222_V	0.531	0.66
227_G	231_G	0.530	0.66
103_K	137_L	0.529	0.66
245_D	249_S	0.529	0.66
243_E	252_G	0.529	0.66
62_V	207_W	0.527	0.66
236_T	251_A	0.527	0.66
250_P	256_D	0.526	0.65
209_A	256_D	0.526	0.65
239_V	243_E	0.525	0.65
267_A	308_V	0.525	0.65
20_T	23_E	0.523	0.65
142_T	211_S	0.523	0.65
44_K	268_G	0.521	0.65
166_L	222_V	0.520	0.65
75_I	230_D	0.519	0.64
168_K	171_G	0.518	0.64
133_L	222_V	0.517	0.64
178_Q	198_D	0.517	0.64
43_G	76_A	0.517	0.64
19_L	26_D	0.514	0.64
146_I	296_S	0.514	0.64
162_Q	166_L	0.513	0.64
215_G	223_L	0.511	0.63
243_E	289_R	0.510	0.63
282_K	308_V	0.510	0.63
68_P	191_N	0.509	0.63
141_S	297_R	0.508	0.63
58_N	204_C	0.508	0.63
23_E	27_G	0.504	0.62
168_K	175_V	0.503	0.62
283_A	286_T	0.503	0.62
246_R	253_G	0.502	0.62
178_Q	184_Q	0.501	0.62
217_T	233_V	0.500	0.62
66_V	216_V	0.500	0.62

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
2qj8A	2	0.978	100	0.26	Contact Map
3cdxA	4	0.9811	100	0.263	Contact Map
3na6A	4	0.9874	100	0.274	Contact Map
3fmcA	4	0.9277	100	0.296	Contact Map
2bcoA	1	0.9497	100	0.406	Contact Map
1yw4A	1	0.8931	100	0.454	Contact Map
3nh4A	2	0.8239	100	0.468	Contact Map
1yw6A	4	0.9214	100	0.472	Contact Map
2gu2A	3	0.8365	100	0.518	Contact Map
4wckA	1	0.8868	100	0.547	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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