Q97YF6 - SULSO - GREMLIN Contacts

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Q97YF6 - Pyruvate dehydrogenase, alpha subunit (Lipoamide). (PdhA-1)

UniProt:	Q97YF6	Sequences: MIIKPEPSLKDLSYIIENAGLKASDLLNMYKRMLIIRYFEESIRKIYHEGKNPFNMASGRIRGEMHLSIGQEAVAVGTLYDIRDEDVVVSTHRPHHHAIAKGVDLKGLAAEILGKATGLCKGKGGHMHLFDKSKNFACSGIVGASFPQAAGAAFAFKYLGKDNVAISFAGEGAANHGTFAETLNIASAWELPLIIVIEDNKYADSTPKSFVMSTTFHYQRGLAYNVPSYLVDGMDVIDVYSTSKKAIERARKGFGPTLIEALTYRYVGHFEGDGEEYRTKEEVEFWSSLDPIRRLENRLLRLNYADSDILARLREEARKQVQEAIDFAINSKYPELTDAFGGVFA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	345 (316)
Sequences:	5188 (2872)
Seq/√Len:	161.6

BACSU - ACOA ODPA ODBA
HALSA - Q9HN77 Q9HNV6
SULSO - Q97YF6 Q97Y23

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
31_K	316_E	4.217	1.00
180_A	224_Y	3.594	1.00
306_D	309_I	3.557	1.00
194_I	250_A	3.092	1.00
247_I	251_R	2.989	1.00
248_E	252_K	2.774	1.00
169_A	197_I	2.763	1.00
229_Y	245_K	2.741	1.00
307_S	311_A	2.715	1.00
106_K	327_F	2.621	1.00
78_T	168_F	2.601	1.00
60_R	329_I	2.529	1.00
164_V	247_I	2.496	1.00
190_E	213_S	2.470	1.00
230_L	262_L	2.455	1.00
36_I	96_H	2.392	1.00
300_L	307_S	2.389	1.00
89_V	152_A	2.327	1.00
35_I	320_Q	2.321	1.00
150_A	182_T	2.290	1.00
296_E	300_L	2.247	1.00
249_R	254_F	2.238	1.00
249_R	257_T	2.229	1.00
156_F	165_A	2.215	1.00
338_D	341_G	2.199	1.00
22_K	25_D	2.166	1.00
305_A	310_L	2.138	1.00
106_K	323_E	2.133	1.00
326_D	330_N	2.081	1.00
296_E	314_R	2.053	1.00
285_F	288_S	2.016	1.00
78_T	243_S	1.993	1.00
156_F	161_K	1.987	1.00
146_F	179_F	1.969	1.00
83_R	162_D	1.962	1.00
297_N	301_R	1.952	1.00
179_F	183_L	1.938	1.00
312_R	316_E	1.879	1.00
221_G	228_S	1.879	1.00
319_K	323_E	1.874	1.00
235_D	238_D	1.845	1.00
296_E	310_L	1.831	1.00
250_A	257_T	1.814	1.00
85_E	163_N	1.775	1.00
197_I	217_H	1.769	1.00
150_A	195_I	1.733	1.00
28_N	32_R	1.731	1.00
196_V	261_A	1.730	1.00
234_M	266_Y	1.713	1.00
156_F	163_N	1.706	1.00
78_T	166_I	1.696	1.00
117_T	331_S	1.694	1.00
172_G	203_A	1.675	1.00
231_V	242_T	1.658	1.00
300_L	310_L	1.613	1.00
23_A	309_I	1.610	1.00
227_P	249_R	1.605	1.00
227_P	255_G	1.564	1.00
153_A	193_L	1.559	1.00
229_Y	242_T	1.557	1.00
78_T	196_V	1.554	1.00
26_L	299_L	1.536	1.00
123_K	342_G	1.516	1.00
309_I	312_R	1.507	1.00
29_M	236_V	1.491	1.00
146_F	182_T	1.471	1.00
219_Q	222_L	1.470	1.00
199_D	260_E	1.467	1.00
246_A	257_T	1.465	1.00
29_M	80_Y	1.460	1.00
327_F	331_S	1.452	1.00
323_E	327_F	1.450	1.00
298_R	302_L	1.437	1.00
154_F	158_Y	1.432	1.00
169_A	173_A	1.429	1.00
244_K	248_E	1.404	1.00
27_L	309_I	1.389	1.00
121_K	342_G	1.383	1.00
104_D	107_G	1.371	1.00
34_L	317_A	1.369	1.00
234_M	263_T	1.365	1.00
183_L	226_V	1.358	1.00
315_E	319_K	1.348	1.00
23_A	304_Y	1.342	1.00
25_D	28_N	1.339	1.00
242_T	259_I	1.324	1.00
197_I	258_L	1.321	1.00
316_E	320_Q	1.319	1.00
243_S	259_I	1.316	1.00
293_R	297_N	1.301	1.00
218_Y	230_L	1.298	1.00
74_V	261_A	1.297	1.00
41_E	69_I	1.296	1.00
23_A	27_L	1.286	1.00
281_E	284_E	1.282	1.00
166_I	194_I	1.277	1.00
286_W	289_L	1.270	1.00
98_A	136_F	1.270	1.00
87_V	156_F	1.261	1.00
280_K	284_E	1.257	1.00
216_F	219_Q	1.257	1.00
324_A	328_A	1.252	1.00
190_E	255_G	1.249	1.00
131_D	134_K	1.247	1.00
231_V	238_D	1.239	1.00
201_K	262_L	1.238	1.00
77_G	239_V	1.238	1.00
27_L	305_A	1.230	1.00
38_Y	318_R	1.222	1.00
196_V	243_S	1.217	1.00
164_V	250_A	1.215	1.00
30_Y	34_L	1.203	1.00
110_A	117_T	1.191	1.00
34_L	314_R	1.190	1.00
84_D	134_K	1.182	1.00
284_E	287_S	1.176	1.00
308_D	311_A	1.173	1.00
308_D	312_R	1.158	1.00
177_G	181_E	1.158	1.00
311_A	315_E	1.149	1.00
240_Y	244_K	1.137	1.00
32_R	80_Y	1.135	1.00
326_D	329_I	1.133	1.00
74_V	196_V	1.125	1.00
284_E	288_S	1.116	1.00
322_Q	326_D	1.111	1.00
335_E	338_D	1.109	1.00
42_S	322_Q	1.107	1.00
187_S	226_V	1.107	1.00
77_G	236_V	1.106	1.00
166_I	243_S	1.105	1.00
81_D	240_Y	1.102	1.00
35_I	105_L	1.098	1.00
81_D	244_K	1.090	1.00
175_N	220_R	1.086	0.99
152_A	165_A	1.084	0.99
139_S	144_A	1.081	0.99
82_I	247_I	1.072	0.99
141_I	144_A	1.068	0.99
82_I	166_I	1.067	0.99
294_R	298_R	1.066	0.99
81_D	247_I	1.064	0.99
150_A	193_L	1.063	0.99
85_E	101_K	1.061	0.99
310_L	314_R	1.061	0.99
116_A	332_K	1.056	0.99
23_A	302_L	1.054	0.99
175_N	211_V	1.051	0.99
164_V	194_I	1.051	0.99
105_L	320_Q	1.050	0.99
320_Q	324_A	1.050	0.99
38_Y	321_V	1.047	0.99
232_D	238_D	1.043	0.99
212_M	217_H	1.043	0.99
185_I	189_W	1.042	0.99
26_L	295_L	1.035	0.99
123_K	338_D	1.033	0.99
38_Y	314_R	1.033	0.99
166_I	196_V	1.033	0.99
43_I	112_I	1.032	0.99
245_K	248_E	1.027	0.99
229_Y	257_T	1.027	0.99
34_L	292_I	1.025	0.99
237_I	295_L	1.023	0.99
228_S	258_L	1.021	0.99
115_K	333_Y	1.020	0.99
266_Y	287_S	1.012	0.99
190_E	254_F	1.007	0.99
164_V	251_R	1.007	0.99
46_I	325_I	1.006	0.99
80_Y	240_Y	1.000	0.99
34_L	38_Y	0.990	0.99
28_N	80_Y	0.990	0.99
31_K	35_I	0.983	0.99
221_G	226_V	0.982	0.99
26_L	237_I	0.981	0.99
264_Y	286_W	0.977	0.99
295_L	299_L	0.973	0.99
317_A	321_V	0.971	0.99
146_F	169_A	0.971	0.99
29_M	240_Y	0.968	0.99
30_Y	313_L	0.964	0.99
21_L	25_D	0.964	0.99
305_A	309_I	0.958	0.99
194_I	247_I	0.956	0.99
42_S	45_K	0.953	0.99
33_M	292_I	0.952	0.99
149_A	193_L	0.952	0.99
32_R	76_V	0.950	0.99
229_Y	259_I	0.939	0.99
42_S	325_I	0.937	0.99
82_I	88_V	0.935	0.98
296_E	307_S	0.932	0.98
169_A	174_A	0.922	0.98
246_A	250_A	0.922	0.98
241_S	245_K	0.920	0.98
33_M	73_A	0.918	0.98
157_K	190_E	0.917	0.98
30_Y	296_E	0.915	0.98
235_D	294_R	0.915	0.98
38_Y	41_E	0.910	0.98
143_G	179_F	0.908	0.98
107_G	133_S	0.906	0.98
202_Y	282_E	0.903	0.98
162_D	252_K	0.903	0.98
150_A	191_L	0.897	0.98
214_T	219_Q	0.896	0.98
187_S	225_N	0.893	0.98
278_R	282_E	0.891	0.98
35_I	317_A	0.890	0.98
319_K	322_Q	0.889	0.98
264_Y	282_E	0.888	0.98
238_D	241_S	0.886	0.98
281_E	285_F	0.884	0.98
174_A	179_F	0.881	0.98
116_A	121_K	0.880	0.98
143_G	173_A	0.879	0.98
85_E	162_D	0.879	0.98
25_D	240_Y	0.876	0.98
149_A	167_S	0.874	0.98
268_G	274_G	0.874	0.98
47_Y	271_E	0.870	0.98
183_L	258_L	0.866	0.98
187_S	213_S	0.865	0.97
323_E	326_D	0.863	0.97
280_K	283_V	0.854	0.97
320_Q	323_E	0.854	0.97
174_A	217_H	0.852	0.97
232_D	294_R	0.850	0.97
187_S	190_E	0.847	0.97
106_K	324_A	0.844	0.97
317_A	320_Q	0.844	0.97
297_N	300_L	0.843	0.97
216_F	230_L	0.842	0.97
49_E	60_R	0.840	0.97
46_I	113_L	0.838	0.97
182_T	195_I	0.837	0.97
239_V	261_A	0.828	0.97
194_I	243_S	0.822	0.97
106_K	331_S	0.818	0.96
68_S	96_H	0.817	0.96
153_A	192_P	0.816	0.96
299_L	304_Y	0.814	0.96
76_V	236_V	0.813	0.96
149_A	165_A	0.812	0.96
295_L	298_R	0.804	0.96
305_A	313_L	0.800	0.96
73_A	77_G	0.797	0.96
88_V	97_H	0.795	0.96
98_A	103_V	0.795	0.96
64_E	270_F	0.793	0.96
246_A	249_R	0.792	0.96
216_F	262_L	0.790	0.96
39_F	109_A	0.784	0.96
27_L	31_K	0.775	0.95
30_Y	314_R	0.771	0.95
110_A	331_S	0.771	0.95
267_V	271_E	0.769	0.95
249_R	255_G	0.764	0.95
246_A	259_I	0.764	0.95
44_R	48_H	0.764	0.95
242_T	246_A	0.764	0.95
64_E	271_E	0.761	0.95
231_V	259_I	0.761	0.95
74_V	263_T	0.756	0.95
28_N	31_K	0.755	0.95
194_I	257_T	0.752	0.94
318_R	322_Q	0.752	0.94
311_A	314_R	0.751	0.94
254_F	257_T	0.750	0.94
25_D	244_K	0.749	0.94
26_L	304_Y	0.747	0.94
31_K	313_L	0.746	0.94
77_G	81_D	0.746	0.94
97_H	168_F	0.744	0.94
243_S	247_I	0.744	0.94
32_R	100_A	0.743	0.94
234_M	294_R	0.743	0.94
237_I	298_R	0.739	0.94
83_R	247_I	0.738	0.94
83_R	163_N	0.736	0.94
285_F	289_L	0.735	0.94
203_A	211_V	0.731	0.94
312_R	315_E	0.730	0.93
283_V	287_S	0.728	0.93
109_A	325_I	0.728	0.93
99_I	108_L	0.727	0.93
21_L	240_Y	0.725	0.93
99_I	105_L	0.719	0.93
249_R	253_G	0.716	0.93
188_A	211_V	0.713	0.93
27_L	299_L	0.712	0.93
179_F	258_L	0.711	0.93
238_D	242_T	0.710	0.93
266_Y	290_D	0.710	0.93
44_R	271_E	0.709	0.92
314_R	318_R	0.708	0.92
143_G	146_F	0.703	0.92
110_A	115_K	0.700	0.92
69_I	267_V	0.699	0.92
201_K	209_S	0.698	0.92
119_L	129_L	0.698	0.92
68_S	75_A	0.698	0.92
135_N	163_N	0.695	0.92
71_Q	198_E	0.695	0.92
275_E	283_V	0.693	0.92
24_S	28_N	0.692	0.92
289_L	294_R	0.689	0.91
147_P	178_T	0.688	0.91
38_Y	317_A	0.685	0.91
175_N	212_M	0.685	0.91
235_D	298_R	0.684	0.91
264_Y	283_V	0.682	0.91
107_G	119_L	0.680	0.91
79_L	168_F	0.677	0.91
204_D	270_F	0.676	0.91
300_L	305_A	0.676	0.91
169_A	195_I	0.672	0.90
168_F	196_V	0.670	0.90
142_V	176_H	0.669	0.90
39_F	108_L	0.667	0.90
153_A	191_L	0.666	0.90
105_L	321_V	0.664	0.90
103_V	134_K	0.663	0.90
89_V	148_Q	0.662	0.90
103_V	119_L	0.661	0.90
300_L	306_D	0.660	0.90
221_G	258_L	0.658	0.89
316_E	319_K	0.655	0.89
227_P	257_T	0.654	0.89
207_P	210_F	0.654	0.89
106_K	110_A	0.653	0.89
77_G	243_S	0.651	0.89
143_G	176_H	0.648	0.89
144_A	148_Q	0.646	0.89
110_A	327_F	0.646	0.89
296_E	305_A	0.644	0.88
310_L	313_L	0.644	0.88
121_K	338_D	0.644	0.88
142_V	173_A	0.643	0.88
68_S	95_H	0.642	0.88
241_S	244_K	0.641	0.88
31_K	320_Q	0.641	0.88
278_R	283_V	0.638	0.88
232_D	289_L	0.638	0.88
67_L	267_V	0.637	0.88
30_Y	310_L	0.633	0.88
313_L	317_A	0.629	0.87
34_L	313_L	0.627	0.87
25_D	80_Y	0.626	0.87
234_M	264_Y	0.626	0.87
29_M	237_I	0.624	0.87
126_H	137_A	0.622	0.87
162_D	247_I	0.622	0.87
218_Y	228_S	0.620	0.86
298_R	304_Y	0.619	0.86
79_L	101_K	0.618	0.86
123_K	341_G	0.618	0.86
111_E	118_G	0.618	0.86
217_H	258_L	0.617	0.86
42_S	46_I	0.616	0.86
89_V	145_S	0.613	0.86
204_D	272_G	0.613	0.86
153_A	165_A	0.613	0.86
171_E	217_H	0.612	0.86
186_A	195_I	0.612	0.86
220_R	223_A	0.610	0.86
40_E	47_Y	0.609	0.85
327_F	330_N	0.609	0.85
332_K	335_E	0.609	0.85
293_R	296_E	0.607	0.85
205_S	271_E	0.604	0.85
124_G	127_M	0.604	0.85
43_I	109_A	0.602	0.85
117_T	332_K	0.601	0.85
89_V	149_A	0.601	0.85
92_H	145_S	0.599	0.85
35_I	99_I	0.598	0.84
196_V	239_V	0.594	0.84
116_A	338_D	0.593	0.84
226_V	258_L	0.593	0.84
242_T	245_K	0.591	0.84
21_L	26_L	0.591	0.84
101_K	134_K	0.586	0.83
44_R	69_I	0.586	0.83
30_Y	292_I	0.584	0.83
31_K	317_A	0.584	0.83
294_R	297_N	0.581	0.83
226_V	256_P	0.581	0.83
231_V	261_A	0.580	0.83
32_R	35_I	0.579	0.82
85_E	161_K	0.576	0.82
337_T	341_G	0.575	0.82
152_A	155_A	0.574	0.82
90_S	136_F	0.573	0.82
44_R	267_V	0.572	0.82
113_L	329_I	0.571	0.82
194_I	259_I	0.571	0.82
30_Y	305_A	0.569	0.81
322_Q	325_I	0.568	0.81
29_M	76_V	0.567	0.81
328_A	331_S	0.567	0.81
27_L	304_Y	0.567	0.81
212_M	220_R	0.566	0.81
69_I	266_Y	0.566	0.81
146_F	183_L	0.564	0.81
180_A	223_A	0.564	0.81
87_V	135_N	0.564	0.81
324_A	327_F	0.563	0.81
153_A	156_F	0.563	0.81
33_M	295_L	0.563	0.81
165_A	193_L	0.563	0.81
90_S	94_P	0.562	0.81
208_K	212_M	0.560	0.80
204_D	271_E	0.558	0.80
231_V	239_V	0.555	0.80
78_T	97_H	0.555	0.80
132_K	135_N	0.553	0.80
88_V	101_K	0.553	0.80
124_G	137_A	0.553	0.80
202_Y	266_Y	0.548	0.79
227_P	245_K	0.548	0.79
97_H	166_I	0.548	0.79
214_T	217_H	0.545	0.79
21_L	241_S	0.543	0.78
230_L	260_E	0.543	0.78
319_K	326_D	0.542	0.78
166_I	247_I	0.541	0.78
36_I	76_V	0.541	0.78
173_A	197_I	0.539	0.78
19_A	241_S	0.539	0.78
92_H	270_F	0.538	0.78
92_H	204_D	0.536	0.77
201_K	208_K	0.536	0.77
88_V	168_F	0.536	0.77
59_G	62_R	0.536	0.77
29_M	77_G	0.534	0.77
44_R	67_L	0.532	0.77
299_L	305_A	0.532	0.77
209_S	215_T	0.532	0.77
199_D	208_K	0.531	0.77
111_E	140_G	0.530	0.77
127_M	142_V	0.530	0.77
39_F	95_H	0.529	0.77
229_Y	246_A	0.526	0.76
187_S	224_Y	0.525	0.76
268_G	275_E	0.524	0.76
67_L	268_G	0.520	0.75
237_I	241_S	0.519	0.75
88_V	136_F	0.519	0.75
39_F	43_I	0.519	0.75
263_T	286_W	0.518	0.75
71_Q	91_T	0.518	0.75
35_I	324_A	0.517	0.75
63_G	270_F	0.517	0.75
87_V	163_N	0.515	0.75
113_L	328_A	0.514	0.74
47_Y	64_E	0.514	0.74
215_T	219_Q	0.512	0.74
83_R	251_R	0.510	0.74
311_A	319_K	0.510	0.74
46_I	49_E	0.509	0.74
78_T	194_I	0.508	0.74
182_T	193_L	0.507	0.73
214_T	225_N	0.506	0.73
89_V	167_S	0.504	0.73
94_P	198_E	0.504	0.73
109_A	328_A	0.504	0.73
125_G	128_H	0.504	0.73
91_T	145_S	0.503	0.73
35_I	321_V	0.503	0.73
194_I	246_A	0.502	0.73
306_D	312_R	0.500	0.72
87_V	165_A	0.500	0.72

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
1qs0A	2	0.9681	100	0.275	Contact Map
1umdA	2	0.9681	100	0.278	Contact Map
2bfdA	2	0.9072	100	0.281	Contact Map
2ozlA	2	0.9652	100	0.319	Contact Map
1w85A	2	0.9449	100	0.323	Contact Map
2xt6A	2	0.887	100	0.421	Contact Map
2yicA	2	0.8957	100	0.422	Contact Map
2jgdA	2	0.8696	100	0.444	Contact Map
5c4iC	2	0.7275	100	0.658	Contact Map
1itzA	2	0.8609	100	0.677	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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