LHGO - ECOLI - GREMLIN Contacts

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LHGO - L-2-hydroxyglutarate oxidase LhgO

UniProt:	P37339	Sequences: MYDFVIIGGGIIGMSTAMQLIDVYPDARIALLEKESAPACHQTGHNSGVIHAGVYYTPGSLKAQFCLAGNRATKAFCDQNGIRYDNCGKMLVATSDLEMERMRALWERTAANGIEREWLNADELREREPNITGLGGIFVPSSGIVSYRDVTAAMAKIFQSRGGEIIYNAEVSGLNEHKNGVVIRTRQGGEYEASTLISCSGLMADRLVKMLGLEPGFIICPFRGEYFRLAPEHNQIVNHLIYPIPDPAMPFLGVHLTRMIDGSVTVGPNAVLAFKREGYRKRDFSFSDTLEILGSSGIRRVLQNHLRSGLGEMKNSLCKSGYLRLVQKYCPRLSLSDLQPWPAGVRAQAVSPDGKLIDDFLFVTTPRTIHTCNAPSPAATSAIPIGAHIVSKVQTLLASQSNPGRTLRAARSVDALHAAFNQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12387
Length:	422 (347)
Sequences:	21707 (15684)
Seq/√Len:	842.0

ECOLI - LHGO PUUB MTOX MQO GLPA DADA GLPD MNMC
BACSU - YURR GLOX YHFW GLPD
HALSA - Q9HSD9 Q9HNS4
SULSO - Q980U0 Q97VT4 Q97ZD5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
158_F	163_G	4.891	1.00
34_K	170_E	3.669	1.00
30_A	166_I	3.026	1.00
5_V	193_A	3.007	1.00
170_E	186_R	2.958	1.00
5_V	183_I	2.894	1.00
120_N	123_E	2.789	1.00
74_K	86_N	2.742	1.00
32_L	191_Y	2.545	1.00
68_A	387_A	2.507	1.00
5_V	32_L	2.461	1.00
124_L	136_G	2.414	1.00
22_D	79_Q	2.408	1.00
21_I	161_R	2.408	1.00
173_G	184_R	2.396	1.00
123_E	126_E	2.339	1.00
99_M	135_G	2.336	1.00
117_E	123_E	2.289	1.00
27_A	394_Q	2.288	1.00
175_N	184_R	2.273	1.00
21_I	163_G	2.254	1.00
28_R	164_E	2.233	1.00
5_V	191_Y	2.209	1.00
4_F	20_L	2.204	1.00
16_T	197_I	2.200	1.00
186_R	189_G	2.199	1.00
14_M	155_A	2.186	1.00
182_V	190_E	2.119	1.00
230_A	337_D	2.091	1.00
177_H	182_V	2.068	1.00
195_T	369_I	2.045	1.00
14_M	151_T	2.033	1.00
38_P	167_Y	2.024	1.00
3_D	194_S	2.000	1.00
18_M	157_I	1.927	1.00
19_Q	387_A	1.921	1.00
185_T	189_G	1.909	1.00
224_G	346_R	1.896	1.00
175_N	182_V	1.868	1.00
184_R	190_E	1.868	1.00
371_T	385_I	1.855	1.00
3_D	28_R	1.852	1.00
75_A	79_Q	1.849	1.00
183_I	186_R	1.842	1.00
371_T	389_I	1.841	1.00
22_D	161_R	1.827	1.00
121_A	125_R	1.789	1.00
106_W	110_A	1.788	1.00
204_A	372_C	1.787	1.00
197_I	393_V	1.777	1.00
107_E	111_A	1.773	1.00
117_E	140_P	1.773	1.00
320_S	324_R	1.772	1.00
9_G	38_P	1.764	1.00
4_F	27_A	1.759	1.00
182_V	192_E	1.756	1.00
18_M	22_D	1.741	1.00
391_S	396_L	1.728	1.00
369_I	389_I	1.727	1.00
198_S	204_A	1.710	1.00
103_R	107_E	1.706	1.00
115_E	141_S	1.698	1.00
369_I	393_V	1.676	1.00
157_I	160_S	1.674	1.00
166_I	169_A	1.649	1.00
374_A	385_I	1.637	1.00
103_R	118_W	1.636	1.00
19_Q	386_G	1.626	1.00
72_A	387_A	1.623	1.00
156_K	159_Q	1.587	1.00
21_I	158_F	1.586	1.00
38_P	155_A	1.586	1.00
155_A	165_I	1.586	1.00
240_L	243_P	1.572	1.00
107_E	110_A	1.567	1.00
73_T	150_V	1.548	1.00
157_I	161_R	1.527	1.00
5_V	30_A	1.521	1.00
30_A	191_Y	1.490	1.00
230_A	339_Q	1.487	1.00
100_E	103_R	1.483	1.00
68_A	71_R	1.482	1.00
229_L	232_E	1.467	1.00
99_M	103_R	1.459	1.00
119_L	123_E	1.449	1.00
172_S	186_R	1.448	1.00
198_S	368_T	1.444	1.00
25_P	394_Q	1.436	1.00
171_V	183_I	1.430	1.00
25_P	396_L	1.426	1.00
9_G	31_L	1.423	1.00
96_D	100_E	1.401	1.00
16_T	371_T	1.401	1.00
146_S	149_D	1.399	1.00
12_I	371_T	1.396	1.00
35_E	40_C	1.392	1.00
172_S	184_R	1.392	1.00
37_A	167_Y	1.391	1.00
155_A	159_Q	1.389	1.00
35_E	41_H	1.387	1.00
173_G	210_M	1.377	1.00
391_S	399_S	1.368	1.00
156_K	160_S	1.368	1.00
323_L	327_Q	1.366	1.00
122_D	126_E	1.365	1.00
195_T	393_V	1.360	1.00
17_A	29_I	1.357	1.00
241_I	244_I	1.356	1.00
9_G	33_E	1.337	1.00
20_L	390_V	1.331	1.00
193_A	196_L	1.324	1.00
14_M	158_F	1.315	1.00
255_H	258_R	1.314	1.00
386_G	390_V	1.306	1.00
175_N	190_E	1.303	1.00
32_L	193_A	1.299	1.00
15_S	19_Q	1.298	1.00
177_H	192_E	1.296	1.00
7_I	200_S	1.294	1.00
88_G	138_F	1.293	1.00
71_R	75_A	1.283	1.00
93_A	102_M	1.280	1.00
237_V	240_L	1.279	1.00
117_E	138_F	1.279	1.00
198_S	370_H	1.279	1.00
11_I	382_A	1.263	1.00
100_E	104_A	1.259	1.00
185_T	191_Y	1.256	1.00
25_P	390_V	1.254	1.00
369_I	392_K	1.247	1.00
19_Q	22_D	1.247	1.00
200_S	207_L	1.247	1.00
123_E	127_R	1.239	1.00
119_L	127_R	1.237	1.00
174_L	196_L	1.232	1.00
365_T	370_H	1.228	1.00
3_D	27_A	1.227	1.00
12_I	374_A	1.223	1.00
387_A	391_S	1.214	1.00
31_L	165_I	1.211	1.00
32_L	171_V	1.204	1.00
32_L	166_I	1.204	1.00
127_R	138_F	1.192	1.00
14_M	31_L	1.183	1.00
72_A	75_A	1.175	1.00
70_N	74_K	1.174	1.00
84_Y	143_G	1.163	1.00
96_D	134_L	1.162	1.00
75_A	78_D	1.159	1.00
176_E	181_V	1.158	1.00
117_E	127_R	1.157	1.00
39_A	151_T	1.154	1.00
15_S	154_M	1.139	1.00
177_H	180_G	1.136	1.00
30_A	164_E	1.131	1.00
19_Q	25_P	1.127	1.00
15_S	386_G	1.123	1.00
169_A	185_T	1.113	1.00
7_I	196_L	1.111	1.00
6_I	17_A	1.109	1.00
104_A	107_E	1.106	1.00
69_G	73_T	1.105	1.00
200_S	204_A	1.103	1.00
125_R	133_G	1.096	1.00
388_H	391_S	1.094	1.00
207_L	210_M	1.092	1.00
7_I	171_V	1.081	1.00
324_R	327_Q	1.080	1.00
325_L	328_K	1.074	1.00
83_R	149_D	1.071	1.00
16_T	386_G	1.061	1.00
198_S	208_V	1.054	1.00
196_L	367_R	1.050	1.00
6_I	16_T	1.048	1.00
38_P	165_I	1.043	1.00
88_G	140_P	1.042	1.00
68_A	72_A	1.034	1.00
17_A	31_L	1.033	1.00
256_L	259_M	1.031	1.00
15_S	382_A	1.027	1.00
4_F	195_T	1.025	1.00
371_T	374_A	1.023	1.00
174_L	181_V	1.015	1.00
145_V	150_V	1.002	1.00
16_T	199_C	1.001	1.00
80_N	83_R	0.999	1.00
99_M	118_W	0.998	1.00
17_A	163_G	0.994	1.00
195_T	364_T	0.994	1.00
18_M	161_R	0.993	1.00
69_G	72_A	0.991	1.00
20_L	27_A	0.990	1.00
150_V	379_A	0.990	1.00
25_P	391_S	0.985	1.00
110_A	116_R	0.977	1.00
48_G	147_Y	0.972	1.00
324_R	328_K	0.966	1.00
90_M	124_L	0.965	1.00
68_A	384_P	0.963	1.00
106_W	118_W	0.958	1.00
17_A	158_F	0.957	1.00
362_F	385_I	0.957	1.00
106_W	137_I	0.954	1.00
65_F	69_G	0.953	1.00
145_V	379_A	0.950	1.00
73_T	382_A	0.943	1.00
14_M	165_I	0.942	1.00
254_V	258_R	0.934	1.00
45_H	342_P	0.930	1.00
74_K	78_D	0.925	1.00
169_A	191_Y	0.924	1.00
31_L	163_G	0.924	1.00
166_I	191_Y	0.923	1.00
169_A	189_G	0.921	1.00
148_R	152_A	0.920	1.00
239_H	243_P	0.917	1.00
95_S	98_E	0.915	1.00
153_A	157_I	0.915	1.00
319_K	341_W	0.909	1.00
176_E	180_G	0.902	1.00
166_I	189_G	0.898	1.00
206_R	209_K	0.895	1.00
362_F	389_I	0.891	1.00
149_D	152_A	0.885	1.00
29_I	163_G	0.880	1.00
390_V	393_V	0.877	1.00
364_T	392_K	0.877	1.00
99_M	134_L	0.870	1.00
364_T	367_R	0.868	1.00
176_E	367_R	0.868	1.00
73_T	77_C	0.860	1.00
223_R	271_V	0.858	1.00
209_K	214_E	0.854	1.00
122_D	125_R	0.841	1.00
106_W	109_T	0.837	1.00
51_H	377_P	0.836	1.00
99_M	102_M	0.835	1.00
69_G	384_P	0.833	1.00
31_L	155_A	0.826	1.00
170_E	206_R	0.824	1.00
18_M	154_M	0.819	1.00
153_A	156_K	0.817	1.00
159_Q	165_I	0.816	1.00
51_H	380_T	0.816	1.00
42_Q	202_L	0.813	1.00
174_L	183_I	0.812	1.00
240_L	244_I	0.800	1.00
181_V	196_L	0.794	1.00
195_T	198_S	0.794	1.00
174_L	211_L	0.793	1.00
364_T	369_I	0.793	1.00
254_V	257_T	0.792	1.00
11_I	43_T	0.791	1.00
180_G	192_E	0.782	1.00
158_F	165_I	0.777	1.00
199_C	371_T	0.774	1.00
101_R	104_A	0.768	1.00
119_L	124_L	0.768	1.00
208_V	370_H	0.767	1.00
93_A	99_M	0.767	1.00
37_A	40_C	0.762	1.00
27_A	195_T	0.762	1.00
235_Q	238_N	0.762	1.00
62_K	66_C	0.760	1.00
181_V	185_T	0.756	1.00
43_T	46_N	0.754	1.00
125_R	132_T	0.751	1.00
228_R	265_T	0.751	1.00
280_R	283_D	0.750	1.00
110_A	115_E	0.745	1.00
180_G	194_S	0.744	1.00
253_G	259_M	0.744	1.00
176_E	366_P	0.743	1.00
181_V	368_T	0.742	1.00
118_W	135_G	0.739	1.00
219_I	347_A	0.737	1.00
115_E	140_P	0.736	1.00
124_L	127_R	0.736	1.00
237_V	241_I	0.736	1.00
230_A	263_S	0.735	1.00
16_T	389_I	0.734	1.00
257_T	260_I	0.733	1.00
319_K	323_L	0.732	1.00
229_L	266_V	0.731	1.00
7_I	198_S	0.728	1.00
124_L	131_I	0.728	1.00
90_M	136_G	0.726	1.00
327_Q	334_S	0.724	1.00
64_Q	68_A	0.724	1.00
266_V	326_V	0.719	1.00
239_H	242_Y	0.719	1.00
382_A	386_G	0.718	1.00
67_L	70_N	0.717	1.00
181_V	367_R	0.715	1.00
256_L	260_I	0.713	1.00
67_L	71_R	0.711	1.00
65_F	388_H	0.710	1.00
118_W	137_I	0.710	1.00
20_L	393_V	0.710	1.00
11_I	151_T	0.705	1.00
86_N	141_S	0.702	1.00
73_T	383_I	0.700	1.00
243_P	248_A	0.700	1.00
21_I	25_P	0.698	1.00
66_C	70_N	0.698	1.00
108_R	111_A	0.696	1.00
89_K	142_S	0.696	1.00
103_R	106_W	0.695	1.00
377_P	380_T	0.695	1.00
176_E	179_N	0.695	1.00
37_A	168_N	0.694	1.00
240_L	245_P	0.694	1.00
238_N	243_P	0.694	1.00
120_N	124_L	0.692	1.00
32_L	185_T	0.692	1.00
32_L	169_A	0.691	1.00
149_D	153_A	0.690	1.00
195_T	367_R	0.690	1.00
34_K	203_M	0.690	1.00
181_V	184_R	0.689	1.00
72_A	76_F	0.689	1.00
203_M	206_R	0.687	1.00
334_S	337_D	0.687	1.00
65_F	68_A	0.687	1.00
5_V	196_L	0.686	1.00
263_S	339_Q	0.686	1.00
171_V	174_L	0.685	1.00
50_I	145_V	0.685	1.00
21_I	28_R	0.683	1.00
127_R	239_H	0.682	1.00
194_S	367_R	0.678	1.00
360_F	363_V	0.678	1.00
225_E	271_V	0.678	1.00
150_V	154_M	0.676	1.00
279_Y	283_D	0.673	1.00
242_Y	245_P	0.672	1.00
228_R	340_P	0.672	1.00
121_A	124_L	0.671	1.00
222_F	348_Q	0.671	1.00
135_G	139_V	0.670	1.00
128_E	131_I	0.669	1.00
321_G	324_R	0.666	1.00
349_A	373_N	0.665	1.00
85_D	144_I	0.664	1.00
236_I	240_L	0.663	1.00
185_T	190_E	0.663	1.00
327_Q	335_L	0.660	1.00
80_N	157_I	0.660	1.00
279_Y	282_R	0.658	1.00
106_W	116_R	0.655	1.00
15_S	383_I	0.655	1.00
244_I	247_P	0.653	1.00
243_P	247_P	0.653	1.00
77_C	82_I	0.652	1.00
169_A	187_Q	0.652	1.00
255_H	267_G	0.651	1.00
70_N	73_T	0.650	1.00
155_A	167_Y	0.649	1.00
391_S	398_A	0.646	1.00
327_Q	333_L	0.644	1.00
16_T	393_V	0.642	1.00
236_I	239_H	0.641	1.00
33_E	167_Y	0.640	1.00
236_I	241_I	0.638	1.00
151_T	155_A	0.636	1.00
277_E	281_K	0.635	1.00
25_P	387_A	0.633	1.00
158_F	162_G	0.633	1.00
45_H	344_G	0.632	1.00
9_G	167_Y	0.632	1.00
219_I	372_C	0.630	1.00
253_G	256_L	0.629	1.00
236_I	242_Y	0.628	1.00
235_Q	240_L	0.628	1.00
174_L	210_M	0.624	1.00
128_E	239_H	0.624	1.00
390_V	394_Q	0.622	1.00
179_N	366_P	0.622	1.00
159_Q	164_E	0.620	1.00
12_I	385_I	0.619	1.00
63_A	67_L	0.618	1.00
65_F	384_P	0.618	1.00
3_D	30_A	0.617	1.00
158_F	161_R	0.617	1.00
49_V	142_S	0.616	1.00
331_P	334_S	0.614	1.00
347_A	374_A	0.612	1.00
197_I	389_I	0.611	1.00
241_I	245_P	0.610	1.00
243_P	246_D	0.610	1.00
43_T	151_T	0.608	1.00
349_A	375_P	0.607	1.00
384_P	387_A	0.607	1.00
208_V	211_L	0.606	1.00
69_G	74_K	0.606	1.00
34_K	41_H	0.605	1.00
321_G	325_L	0.602	1.00
120_N	126_E	0.602	1.00
150_V	383_I	0.601	1.00
227_F	338_L	0.600	1.00
71_R	74_K	0.599	1.00
220_C	272_L	0.599	1.00
21_I	29_I	0.597	1.00
333_L	336_S	0.597	1.00
237_V	242_Y	0.596	1.00
226_Y	342_P	0.596	1.00
175_N	192_E	0.595	1.00
66_C	69_G	0.594	1.00
174_L	198_S	0.593	1.00
105_L	108_R	0.592	1.00
4_F	197_I	0.588	1.00
171_V	207_L	0.588	1.00
37_A	152_A	0.587	1.00
183_I	187_Q	0.587	1.00
255_H	260_I	0.585	1.00
6_I	29_I	0.585	1.00
19_Q	72_A	0.583	1.00
50_I	84_Y	0.583	1.00
139_V	142_S	0.583	1.00
18_M	21_I	0.583	1.00
97_L	100_E	0.581	1.00
213_L	365_T	0.581	1.00
128_E	238_N	0.581	1.00
223_R	343_A	0.579	1.00
204_A	219_I	0.579	1.00
154_M	382_A	0.579	1.00
374_A	378_A	0.577	1.00
183_I	196_L	0.576	1.00
104_A	108_R	0.575	1.00
25_P	395_T	0.574	1.00
209_K	212_G	0.573	1.00
235_Q	243_P	0.572	1.00
76_F	80_N	0.572	1.00
72_A	384_P	0.569	1.00
89_K	92_V	0.569	1.00
320_S	335_L	0.569	1.00
46_N	379_A	0.568	1.00
242_Y	247_P	0.568	1.00
171_V	185_T	0.566	1.00
238_N	242_Y	0.565	1.00
102_M	106_W	0.564	1.00
33_E	37_A	0.563	1.00
72_A	383_I	0.562	1.00
371_T	386_G	0.562	1.00
392_K	395_T	0.561	1.00
4_F	194_S	0.560	1.00
351_S	359_D	0.559	1.00
11_I	150_V	0.559	1.00
349_A	361_L	0.558	1.00
97_L	101_R	0.557	1.00
383_I	386_G	0.556	1.00
96_D	99_M	0.555	1.00
237_V	243_P	0.548	1.00
6_I	13_G	0.548	1.00
110_A	113_G	0.547	1.00
265_T	269_N	0.547	1.00
218_I	350_V	0.547	1.00
172_S	185_T	0.545	1.00
148_R	340_P	0.544	1.00
93_A	98_E	0.544	1.00
320_S	323_L	0.543	1.00
42_Q	48_G	0.540	1.00
227_F	322_Y	0.540	1.00
39_A	44_G	0.539	1.00
28_R	194_S	0.539	1.00
197_I	369_I	0.539	1.00
255_H	259_M	0.539	1.00
325_L	329_Y	0.539	1.00
55_Y	58_P	0.538	1.00
346_R	374_A	0.538	1.00
124_L	128_E	0.538	1.00
147_Y	379_A	0.537	1.00
109_T	116_R	0.537	1.00
105_L	109_T	0.534	1.00
208_V	368_T	0.533	1.00
184_R	187_Q	0.532	1.00
169_A	186_R	0.532	1.00
30_A	193_A	0.532	1.00
224_G	269_N	0.531	1.00
174_L	368_T	0.531	1.00
57_T	60_S	0.530	1.00
54_V	57_T	0.529	1.00
90_M	138_F	0.528	1.00
11_I	379_A	0.528	1.00
9_G	155_A	0.528	1.00
22_D	157_I	0.527	1.00
61_L	65_F	0.527	1.00
275_K	279_Y	0.526	1.00
117_E	126_E	0.524	1.00
66_C	381_S	0.521	1.00
230_A	233_H	0.520	1.00
276_R	279_Y	0.520	1.00
180_G	366_P	0.520	1.00
130_N	332_R	0.519	1.00
238_N	241_I	0.519	1.00
66_C	73_T	0.518	1.00
360_F	364_T	0.517	1.00
198_S	207_L	0.517	1.00
108_R	112_N	0.515	1.00
221_P	345_V	0.515	1.00
19_Q	390_V	0.512	1.00
3_D	193_A	0.512	1.00
211_L	368_T	0.510	1.00
65_F	70_N	0.509	1.00
125_R	131_I	0.508	1.00
172_S	175_N	0.508	1.00
241_I	246_D	0.508	1.00
119_L	136_G	0.508	1.00
4_F	29_I	0.507	1.00
269_N	346_R	0.507	1.00
172_S	189_G	0.506	1.00
233_H	236_I	0.505	1.00
346_R	376_S	0.504	1.00
6_I	197_I	0.503	1.00
33_E	165_I	0.503	1.00
240_L	246_D	0.502	1.00
39_A	148_R	0.502	1.00
50_I	380_T	0.502	1.00
159_Q	162_G	0.501	1.00
360_F	381_S	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
4h1bA	1	0.846	100	0.362	Contact Map
4x9mA	1	0.8744	100	0.365	Contact Map
1y56B	1	0.8626	100	0.387	Contact Map
2gf3A	1	0.8768	100	0.388	Contact Map
3axbA	2	0.872	100	0.39	Contact Map
1ryiA	4	0.827	100	0.39	Contact Map
3dmeA	2	0.8246	100	0.391	Contact Map
2gagB	1	0.8673	100	0.4	Contact Map
3pvcA	1	0.8436	100	0.403	Contact Map
4rslA	1	0.9147	100	0.41	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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