Q9HMK7 - HALSA - GREMLIN Contacts

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Q9HMK7 - Glutaryl-CoA dehydrogenase

UniProt:	Q9HMK7	Sequences: MGEMGFYAPNLDGYGLPNVSETAYGLLMQELEACDSGLRSMASVQGALVMYPIHAFGSEAQKERWLPALGAGEAVGCFGLTEPEHGSNPSAMETTAEPDGDEYVLNGSKTWITNSPIADVAVVWARDHGEDGTPVRGFLVETDRDGVTTNEIDEKLSLRASITGEISLRNVRVPAESRLPGVEGMKGPLSCLTQARYGIAWGAVGAARNCFETAREYATDREQFDQPIGGFQMQQDKLAEMATQITTSQLLAHRLAGLKERGDLRPQHVSMAKRNNVRMARDQARVAREMLGGNGITTDYPPMRHMANMETVYTYEGTHDIHTLILGEDLTGMQAYQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	337 (327)
Sequences:	32202 (17462)
Seq/√Len:	965.6

ECOLI - CAIA YDIO AIDB FADE
BACSU - FADE ACDB ACDC ACDA YDBM
HALSA - Q9HMK7 Q9HS75 Q9HQF0 Q9HRI6 Q9HRB3 Q9HPT2
SULSO - Q97UW6 Q97U78 Q97V73 Q97WQ8 Q97XW3 Q97VU6 Q97YZ6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
102_E	172_R	4.185	1.00
244_Q	282_D	3.408	1.00
106_N	170_N	3.313	1.00
98_P	175_A	3.232	1.00
68_A	73_E	2.969	1.00
68_A	74_A	2.804	1.00
148_T	169_R	2.797	1.00
20_S	23_A	2.743	1.00
59_E	63_E	2.682	1.00
237_K	286_V	2.664	1.00
108_S	167_S	2.559	1.00
99_D	172_R	2.545	1.00
208_R	249_Q	2.312	1.00
216_E	220_D	2.237	1.00
108_S	165_E	2.117	1.00
136_R	178_R	2.116	1.00
99_D	104_V	2.086	1.00
121_A	142_T	2.034	1.00
183_E	186_K	1.985	1.00
298_T	303_M	1.956	1.00
303_M	307_A	1.918	1.00
233_M	236_D	1.884	1.00
211_F	245_I	1.874	1.00
227_P	230_G	1.873	1.00
125_A	138_F	1.858	1.00
150_N	167_S	1.855	1.00
59_E	62_K	1.843	1.00
148_T	167_S	1.840	1.00
226_Q	230_G	1.804	1.00
222_E	227_P	1.800	1.00
33_A	212_E	1.783	1.00
29_Q	249_Q	1.773	1.00
77_C	121_A	1.757	1.00
104_V	170_N	1.746	1.00
58_S	61_Q	1.745	1.00
104_V	172_R	1.740	1.00
248_S	276_N	1.736	1.00
258_L	268_H	1.735	1.00
99_D	102_E	1.727	1.00
278_R	319_H	1.723	1.00
254_R	258_L	1.716	1.00
115_S	164_G	1.697	1.00
12_D	18_N	1.690	1.00
213_T	301_P	1.690	1.00
218_A	290_M	1.670	1.00
282_D	286_V	1.656	1.00
97_E	106_N	1.642	1.00
103_Y	138_F	1.641	1.00
257_G	261_R	1.623	1.00
281_R	313_Y	1.616	1.00
30_E	33_A	1.605	1.00
208_R	212_E	1.599	1.00
144_R	171_V	1.594	1.00
116_P	164_G	1.593	1.00
150_N	165_E	1.591	1.00
64_R	176_E	1.591	1.00
22_T	257_G	1.581	1.00
64_R	68_A	1.578	1.00
141_E	177_S	1.562	1.00
210_C	284_A	1.561	1.00
241_M	283_Q	1.560	1.00
247_T	275_N	1.545	1.00
63_E	67_P	1.532	1.00
294_N	300_Y	1.532	1.00
128_H	131_D	1.530	1.00
215_R	219_T	1.520	1.00
209_N	213_T	1.503	1.00
213_T	216_E	1.492	1.00
154_E	298_T	1.475	1.00
101_D	175_A	1.471	1.00
214_A	287_A	1.465	1.00
218_A	234_Q	1.461	1.00
98_P	102_E	1.447	1.00
60_A	64_R	1.444	1.00
141_E	144_R	1.443	1.00
67_P	71_A	1.437	1.00
68_A	71_A	1.437	1.00
174_P	177_S	1.436	1.00
242_A	246_T	1.435	1.00
98_P	182_V	1.429	1.00
33_A	208_R	1.422	1.00
234_Q	290_M	1.413	1.00
106_N	169_R	1.413	1.00
56_F	190_S	1.399	1.00
175_A	178_R	1.395	1.00
207_A	245_I	1.394	1.00
29_Q	208_R	1.391	1.00
207_A	283_Q	1.381	1.00
84_E	93_E	1.375	1.00
241_M	286_V	1.375	1.00
103_Y	175_A	1.360	1.00
285_R	310_E	1.353	1.00
223_Q	231_F	1.348	1.00
74_A	119_D	1.338	1.00
281_R	285_R	1.337	1.00
178_R	182_V	1.337	1.00
246_T	254_R	1.322	1.00
14_Y	62_K	1.322	1.00
226_Q	231_F	1.322	1.00
21_E	260_E	1.313	1.00
244_Q	279_M	1.305	1.00
35_D	38_L	1.303	1.00
98_P	103_Y	1.296	1.00
254_R	257_G	1.292	1.00
96_A	138_F	1.288	1.00
19_V	23_A	1.286	1.00
127_D	136_R	1.285	1.00
144_R	177_S	1.285	1.00
25_G	256_A	1.274	1.00
124_W	137_G	1.272	1.00
193_T	266_P	1.270	1.00
79_G	112_I	1.266	1.00
9_P	27_L	1.263	1.00
55_A	190_S	1.261	1.00
60_A	176_E	1.261	1.00
280_A	309_M	1.257	1.00
29_Q	253_H	1.248	1.00
213_T	291_L	1.243	1.00
102_E	175_A	1.243	1.00
82_E	109_K	1.239	1.00
142_T	149_T	1.229	1.00
244_Q	286_V	1.226	1.00
258_L	263_D	1.222	1.00
173_V	177_S	1.215	1.00
64_R	177_S	1.211	1.00
209_N	305_H	1.208	1.00
97_E	104_V	1.206	1.00
248_S	279_M	1.202	1.00
211_F	215_R	1.201	1.00
81_T	111_W	1.200	1.00
25_G	201_W	1.197	1.00
142_T	147_V	1.193	1.00
240_E	323_T	1.190	1.00
65_W	120_V	1.186	1.00
274_R	319_H	1.181	1.00
287_A	302_P	1.178	1.00
285_R	313_Y	1.165	1.00
250_L	254_R	1.165	1.00
76_G	120_V	1.164	1.00
62_K	66_L	1.163	1.00
79_G	121_A	1.151	1.00
11_L	70_G	1.147	1.00
201_W	252_A	1.145	1.00
123_V	140_V	1.144	1.00
69_L	76_G	1.139	1.00
124_W	135_V	1.139	1.00
219_T	229_G	1.126	1.00
310_E	313_Y	1.120	1.00
279_M	282_D	1.120	1.00
20_S	260_E	1.120	1.00
237_K	320_D	1.118	1.00
105_L	138_F	1.117	1.00
96_A	125_A	1.106	1.00
274_R	323_T	1.099	1.00
245_I	283_Q	1.095	1.00
278_R	282_D	1.095	1.00
49_V	76_G	1.089	1.00
240_E	244_Q	1.087	1.00
56_F	187_G	1.073	1.00
215_R	238_L	1.071	1.00
218_A	229_G	1.068	1.00
270_S	322_H	1.067	1.00
281_R	306_M	1.060	1.00
61_Q	65_W	1.057	1.00
95_T	106_N	1.053	1.00
288_R	306_M	1.053	1.00
10_N	24_Y	1.051	1.00
147_V	171_V	1.050	1.00
123_V	168_L	1.049	1.00
26_L	30_E	1.045	1.00
79_G	168_L	1.040	1.00
120_V	141_E	1.037	1.00
110_T	165_E	1.037	1.00
57_G	61_Q	1.036	1.00
60_A	63_E	1.033	1.00
22_T	260_E	1.033	1.00
88_N	91_A	1.023	1.00
13_G	63_E	1.020	1.00
203_A	312_V	1.017	1.00
74_A	120_V	1.016	1.00
195_A	316_E	1.015	1.00
284_A	309_M	1.012	1.00
22_T	253_H	1.005	1.00
97_E	170_N	1.000	1.00
26_L	253_H	0.998	1.00
185_M	189_L	0.996	1.00
121_A	147_V	0.996	1.00
22_T	26_L	0.993	1.00
11_L	50_M	0.992	1.00
255_L	272_A	0.990	1.00
240_E	286_V	0.988	1.00
204_V	252_A	0.986	1.00
204_V	245_I	0.980	1.00
61_Q	177_S	0.977	1.00
206_A	280_A	0.974	1.00
242_A	271_M	0.969	1.00
103_Y	127_D	0.968	1.00
94_T	105_L	0.966	1.00
32_E	39_R	0.961	1.00
313_Y	319_H	0.959	1.00
236_D	240_E	0.959	1.00
267_Q	329_D	0.955	1.00
122_V	137_G	0.954	1.00
64_R	141_E	0.953	1.00
102_E	174_P	0.950	1.00
156_L	306_M	0.930	1.00
146_G	171_V	0.929	1.00
172_R	175_A	0.929	1.00
105_L	173_V	0.925	1.00
101_D	172_R	0.922	1.00
138_F	178_R	0.922	1.00
204_V	248_S	0.921	1.00
206_A	305_H	0.919	1.00
119_D	143_D	0.917	1.00
136_R	182_V	0.916	1.00
244_Q	275_N	0.916	1.00
126_R	135_V	0.908	1.00
218_A	228_I	0.908	1.00
306_M	310_E	0.903	1.00
145_D	172_R	0.902	1.00
265_R	268_H	0.900	1.00
121_A	166_I	0.895	1.00
243_T	271_M	0.895	1.00
237_K	240_E	0.893	1.00
97_E	128_H	0.888	1.00
311_T	315_Y	0.887	1.00
237_K	289_E	0.887	1.00
218_A	238_L	0.886	1.00
149_T	166_I	0.882	1.00
285_R	306_M	0.879	1.00
37_G	160_A	0.877	1.00
282_D	285_R	0.874	1.00
105_L	125_A	0.874	1.00
275_N	279_M	0.868	1.00
158_L	311_T	0.865	1.00
116_P	162_I	0.865	1.00
312_V	315_Y	0.862	1.00
159_R	298_T	0.860	1.00
281_R	310_E	0.860	1.00
278_R	323_T	0.855	1.00
120_V	139_L	0.855	1.00
236_D	324_L	0.853	1.00
240_E	282_D	0.853	1.00
277_V	319_H	0.849	1.00
105_L	123_V	0.848	1.00
49_V	122_V	0.842	1.00
13_G	59_E	0.841	1.00
168_L	171_V	0.840	1.00
95_T	128_H	0.831	1.00
115_S	149_T	0.831	1.00
284_A	305_H	0.830	1.00
251_L	272_A	0.829	1.00
319_H	323_T	0.825	1.00
138_F	173_V	0.824	1.00
211_F	242_A	0.823	1.00
235_Q	324_L	0.823	1.00
216_E	219_T	0.822	1.00
210_C	287_A	0.820	1.00
147_V	166_I	0.818	1.00
210_C	305_H	0.816	1.00
103_Y	182_V	0.815	1.00
212_E	216_E	0.815	1.00
61_Q	139_L	0.811	1.00
213_T	305_H	0.809	1.00
119_D	142_T	0.807	1.00
77_C	118_A	0.807	1.00
92_M	124_W	0.806	1.00
200_A	272_A	0.803	1.00
9_P	19_V	0.803	1.00
214_A	290_M	0.802	1.00
156_L	303_M	0.802	1.00
246_T	249_Q	0.795	1.00
50_M	69_L	0.792	1.00
178_R	181_G	0.788	1.00
207_A	279_M	0.786	1.00
217_Y	294_N	0.784	1.00
199_I	316_E	0.781	1.00
14_Y	59_E	0.781	1.00
246_T	250_L	0.781	1.00
278_R	313_Y	0.780	1.00
58_S	62_K	0.779	1.00
96_A	127_D	0.776	1.00
103_Y	178_R	0.772	1.00
243_T	275_N	0.772	1.00
111_W	297_T	0.771	1.00
214_A	291_L	0.770	1.00
111_W	294_N	0.769	1.00
243_T	274_R	0.767	1.00
144_R	147_V	0.764	1.00
96_A	103_Y	0.763	1.00
117_I	162_I	0.763	1.00
211_F	330_L	0.759	1.00
232_Q	236_D	0.758	1.00
284_A	306_M	0.753	1.00
208_R	242_A	0.753	1.00
100_G	172_R	0.753	1.00
247_T	251_L	0.752	1.00
11_L	14_Y	0.751	1.00
13_G	62_K	0.750	1.00
80_L	192_L	0.748	1.00
207_A	248_S	0.746	1.00
237_K	290_M	0.744	1.00
254_R	268_H	0.742	1.00
235_Q	327_G	0.742	1.00
241_M	287_A	0.741	1.00
288_R	302_P	0.740	1.00
51_Y	55_A	0.740	1.00
126_R	129_G	0.733	1.00
244_Q	247_T	0.732	1.00
200_A	252_A	0.729	1.00
249_Q	253_H	0.728	1.00
33_A	209_N	0.722	1.00
64_R	67_P	0.722	1.00
251_L	271_M	0.718	1.00
51_Y	54_H	0.715	1.00
231_F	235_Q	0.715	1.00
209_N	212_E	0.714	1.00
200_A	276_N	0.714	1.00
126_R	134_P	0.713	1.00
95_T	129_G	0.711	1.00
108_S	150_N	0.711	1.00
65_W	139_L	0.710	1.00
183_E	187_G	0.708	1.00
127_D	134_P	0.705	1.00
94_T	109_K	0.702	1.00
79_G	166_I	0.700	1.00
322_H	325_I	0.700	1.00
158_L	315_Y	0.696	1.00
26_L	29_Q	0.694	1.00
128_H	134_P	0.692	1.00
186_K	190_S	0.690	1.00
54_H	62_K	0.690	1.00
79_G	123_V	0.690	1.00
92_M	135_V	0.690	1.00
208_R	245_I	0.690	1.00
244_Q	278_R	0.689	1.00
288_R	295_G	0.689	1.00
112_I	166_I	0.687	1.00
203_A	277_V	0.687	1.00
65_W	177_S	0.687	1.00
57_G	62_K	0.686	1.00
324_L	328_E	0.685	1.00
8_A	17_P	0.682	1.00
251_L	275_N	0.681	1.00
206_A	309_M	0.681	1.00
228_I	231_F	0.675	1.00
279_M	283_Q	0.672	1.00
87_S	321_I	0.672	1.00
140_V	168_L	0.670	1.00
13_G	18_N	0.670	1.00
248_S	275_N	0.669	1.00
102_E	176_E	0.668	1.00
281_R	309_M	0.667	1.00
126_R	131_D	0.667	1.00
52_P	56_F	0.666	1.00
256_A	260_E	0.665	1.00
304_R	308_N	0.664	1.00
252_A	276_N	0.664	1.00
83_P	108_S	0.663	1.00
214_A	241_M	0.661	1.00
214_A	218_A	0.658	1.00
291_L	302_P	0.655	1.00
154_E	159_R	0.653	1.00
8_A	70_G	0.652	1.00
52_P	191_C	0.650	1.00
318_T	321_I	0.648	1.00
77_C	142_T	0.645	1.00
149_T	164_G	0.644	1.00
21_E	259_K	0.643	1.00
128_H	132_G	0.643	1.00
124_W	188_P	0.643	1.00
30_E	34_C	0.642	1.00
94_T	107_G	0.641	1.00
246_T	251_L	0.638	1.00
284_A	302_P	0.632	1.00
78_F	188_P	0.629	1.00
204_V	208_R	0.627	1.00
24_Y	198_G	0.622	1.00
301_P	305_H	0.622	1.00
12_D	15_G	0.621	1.00
143_D	147_V	0.619	1.00
82_E	94_T	0.616	1.00
101_D	176_E	0.614	1.00
194_Q	259_K	0.613	1.00
228_I	234_Q	0.612	1.00
94_T	123_V	0.612	1.00
136_R	180_P	0.609	1.00
197_Y	252_A	0.608	1.00
69_L	120_V	0.608	1.00
242_A	330_L	0.608	1.00
80_L	89_P	0.606	1.00
240_E	278_R	0.605	1.00
152_I	165_E	0.605	1.00
223_Q	228_I	0.604	1.00
233_M	237_K	0.602	1.00
40_S	158_L	0.601	1.00
85_H	93_E	0.599	1.00
140_V	171_V	0.595	1.00
24_Y	47_A	0.594	1.00
80_L	124_W	0.593	1.00
61_Q	64_R	0.593	1.00
122_V	179_L	0.592	1.00
157_S	308_N	0.592	1.00
151_E	164_G	0.588	1.00
207_A	280_A	0.586	1.00
243_T	247_T	0.585	1.00
251_L	255_L	0.585	1.00
147_V	168_L	0.583	1.00
92_M	126_R	0.582	1.00
207_A	210_C	0.582	1.00
127_D	182_V	0.581	1.00
11_L	54_H	0.581	1.00
193_T	269_V	0.581	1.00
13_G	16_L	0.579	1.00
143_D	146_G	0.579	1.00
197_Y	256_A	0.578	1.00
94_T	125_A	0.577	1.00
231_F	234_Q	0.572	1.00
209_N	301_P	0.571	1.00
53_I	57_G	0.571	1.00
234_Q	237_K	0.569	1.00
294_N	297_T	0.569	1.00
36_S	206_A	0.567	1.00
271_M	326_L	0.567	1.00
211_F	241_M	0.566	1.00
25_G	253_H	0.559	1.00
130_E	134_P	0.558	1.00
75_V	117_I	0.557	1.00
55_A	194_Q	0.555	1.00
49_V	52_P	0.555	1.00
224_F	231_F	0.554	1.00
156_L	307_A	0.554	1.00
247_T	250_L	0.554	1.00
180_P	183_E	0.554	1.00
234_Q	238_L	0.553	1.00
50_M	66_L	0.553	1.00
65_W	68_A	0.552	1.00
280_A	284_A	0.552	1.00
120_V	177_S	0.550	1.00
221_R	224_F	0.547	1.00
98_P	101_D	0.547	1.00
197_Y	259_K	0.547	1.00
175_A	182_V	0.546	1.00
65_W	74_A	0.543	1.00
105_L	140_V	0.542	1.00
94_T	168_L	0.542	1.00
98_P	104_V	0.540	1.00
274_R	278_R	0.537	1.00
301_P	304_R	0.535	1.00
266_P	329_D	0.534	1.00
274_R	322_H	0.533	1.00
240_E	243_T	0.532	1.00
244_Q	283_Q	0.532	1.00
201_W	205_G	0.531	1.00
14_Y	63_E	0.531	1.00
155_K	163_T	0.531	1.00
293_G	296_I	0.530	1.00
277_V	312_V	0.530	1.00
27_L	31_L	0.527	1.00
127_D	138_F	0.525	1.00
246_T	271_M	0.525	1.00
289_E	310_E	0.525	1.00
244_Q	248_S	0.525	1.00
116_P	149_T	0.524	1.00
100_G	104_V	0.522	1.00
211_F	238_L	0.521	1.00
210_C	214_A	0.520	1.00
115_S	166_I	0.520	1.00
99_D	175_A	0.518	1.00
310_E	314_T	0.516	1.00
213_T	302_P	0.515	1.00
6_F	27_L	0.513	1.00
222_E	230_G	0.512	1.00
41_M	44_V	0.509	1.00
25_G	197_Y	0.509	1.00
129_G	132_G	0.509	1.00
125_A	136_R	0.509	1.00
285_R	289_E	0.508	1.00
270_S	325_I	0.508	1.00
25_G	252_A	0.508	1.00
14_Y	66_L	0.507	1.00
28_M	32_E	0.505	1.00
24_Y	28_M	0.505	1.00
89_P	92_M	0.504	1.00
83_P	110_T	0.504	1.00
79_G	109_K	0.504	1.00
217_Y	220_D	0.503	1.00
217_Y	300_Y	0.503	1.00
192_L	196_R	0.502	1.00
222_E	225_D	0.500	1.00

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
2ix5A	4	0.9941	100	0.095	Contact Map
3sf6A	4	0.9881	100	0.107	Contact Map
3swoA	4	0.9881	100	0.109	Contact Map
3ii9A	4	0.997	100	0.11	Contact Map
1siqA	4	0.9911	100	0.113	Contact Map
4w9uA	4	0.9763	100	0.116	Contact Map
2ebaA	4	0.9733	100	0.116	Contact Map
1ivhA	4	0.9881	100	0.121	Contact Map
2jifA	4	0.9881	100	0.123	Contact Map
2d29A	4	0.9911	100	0.124	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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