DGOD - ECOLI - GREMLIN Contacts

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DGOD - D-galactonate dehydratase

UniProt:	Q6BF17	Sequences: MKITKITTYRLPPRWMFLKIETDEGVVGWGEPVIEGRARTVEAAVHELGDYLIGQDPSRINDLWQVMYRAGFYRGGPILMSAIAGIDQALWDIKGKVLNAPVWQLMGGLVRDKIKAYSWVGGDRPADVIDGIKTLREIGFDTFKLNGCEELGLIDNSRAVDAAVNTVAQIREAFGNQIEFGLDFHGRVSAPMAKVLIKELEPYRPLFIEEPVLAEQAEYYPKLAAQTHIPLAAGERMFSRFDFKRVLEAGGISILQPDLSHAGGITECYKIAGMAEAYDVTLAPHCPLGPIALAACLHIDFVSYNAVLQEQSMGIHYNKGAELLDFVKNKEDFSMVGGFFKPLTKPGLGVEIDEAKVIEFSKNAPDWRNPLWRHEDNSVAEW	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG20050
Length:	382 (332)
Sequences:	11810 (6926)
Seq/√Len:	380.1

ECOLI - DGOD RSPA GUDX GUDD RHMD AEEP MENC
BACSU - YITF GUDD AEEP MENC
HALSA - Q9HS20 Q9HP25 Q9HQN7
SULSO - GAD Q97VG1 ARAD Q97YL9 Q97YR3 Q97UK8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
55_Q	66_V	3.634	1.00
113_K	339_F	3.311	1.00
245_R	249_A	3.245	1.00
224_A	253_S	3.189	1.00
189_S	192_M	3.017	1.00
221_P	225_A	2.973	1.00
59_R	62_D	2.939	1.00
42_E	46_H	2.712	1.00
216_Q	219_Y	2.708	1.00
18_L	85_G	2.670	1.00
244_K	248_E	2.615	1.00
26_V	93_I	2.540	1.00
21_E	27_V	2.287	1.00
198_K	201_E	2.287	1.00
22_T	93_I	2.277	1.00
222_K	225_A	2.268	1.00
5_K	21_E	2.267	1.00
19_K	27_V	2.242	1.00
7_T	19_K	2.230	1.00
61_N	270_K	2.194	1.00
198_K	226_Q	2.176	1.00
133_K	173_A	2.167	1.00
7_T	21_E	2.140	1.00
197_I	208_I	2.099	1.00
221_P	249_A	2.080	1.00
247_L	280_V	2.062	1.00
240_R	267_E	2.031	1.00
87_D	266_T	2.026	1.00
5_K	49_G	1.997	1.00
222_K	226_Q	1.986	1.00
254_I	281_T	1.979	1.00
22_T	26_V	1.922	1.00
262_A	271_I	1.909	1.00
218_E	249_A	1.898	1.00
24_E	97_V	1.888	1.00
169_Q	172_E	1.888	1.00
197_I	227_T	1.882	1.00
115_K	141_D	1.878	1.00
125_P	129_I	1.865	1.00
55_Q	62_D	1.842	1.00
179_E	206_L	1.830	1.00
199_E	202_P	1.823	1.00
63_L	90_L	1.820	1.00
196_L	200_L	1.815	1.00
168_A	172_E	1.811	1.00
133_K	137_E	1.799	1.00
26_V	97_V	1.793	1.00
9_Y	19_K	1.784	1.00
243_F	271_I	1.750	1.00
95_G	102_V	1.738	1.00
194_K	226_Q	1.714	1.00
212_V	223_L	1.700	1.00
336_V	341_K	1.684	1.00
4_T	21_E	1.684	1.00
168_A	203_Y	1.660	1.00
248_E	278_Y	1.649	1.00
101_P	104_Q	1.644	1.00
74_R	241_F	1.617	1.00
136_R	178_I	1.596	1.00
43_A	47_E	1.594	1.00
20_I	90_L	1.585	1.00
274_M	278_Y	1.585	1.00
165_N	168_A	1.584	1.00
191_P	222_K	1.579	1.00
273_G	276_E	1.562	1.00
201_E	228_H	1.556	1.00
164_V	168_A	1.543	1.00
100_A	104_Q	1.540	1.00
246_V	252_I	1.536	1.00
47_E	77_P	1.525	1.00
122_G	181_G	1.522	1.00
11_L	31_E	1.518	1.00
124_R	127_D	1.494	1.00
164_V	199_E	1.493	1.00
131_G	134_T	1.487	1.00
129_I	173_A	1.487	1.00
26_V	96_K	1.469	1.00
134_T	138_I	1.459	1.00
139_G	178_I	1.453	1.00
6_I	20_I	1.452	1.00
247_L	274_M	1.449	1.00
129_I	133_K	1.446	1.00
113_K	341_K	1.428	1.00
171_R	180_F	1.419	1.00
58_S	97_V	1.417	1.00
102_V	348_L	1.415	1.00
159_A	162_A	1.413	1.00
301_F	342_P	1.401	1.00
272_A	303_S	1.398	1.00
323_L	326_F	1.387	1.00
190_A	222_K	1.383	1.00
269_Y	273_G	1.371	1.00
19_K	29_W	1.359	1.00
190_A	223_L	1.358	1.00
168_A	202_P	1.352	1.00
194_K	222_K	1.343	1.00
65_Q	69_R	1.333	1.00
133_K	136_R	1.330	1.00
49_G	53_I	1.323	1.00
162_A	165_N	1.319	1.00
87_D	91_W	1.310	1.00
109_L	112_D	1.307	1.00
244_K	274_M	1.307	1.00
245_R	248_E	1.303	1.00
92_D	96_K	1.295	1.00
169_Q	173_A	1.294	1.00
67_M	83_I	1.291	1.00
298_H	325_D	1.288	1.00
161_D	165_N	1.288	1.00
4_T	23_D	1.285	1.00
55_Q	63_L	1.282	1.00
158_R	162_A	1.279	1.00
212_V	219_Y	1.275	1.00
247_L	278_Y	1.275	1.00
269_Y	303_S	1.263	1.00
215_E	242_D	1.246	1.00
143_F	178_I	1.245	1.00
100_A	105_L	1.240	1.00
62_D	66_V	1.239	1.00
32_P	85_G	1.222	1.00
181_G	207_F	1.214	1.00
273_G	277_A	1.208	1.00
221_P	251_G	1.202	1.00
268_C	299_I	1.199	1.00
130_D	133_K	1.194	1.00
195_V	199_E	1.191	1.00
190_A	219_Y	1.190	1.00
146_N	185_H	1.189	1.00
195_V	198_K	1.189	1.00
22_T	97_V	1.188	1.00
181_G	206_L	1.188	1.00
94_K	98_L	1.178	1.00
46_H	49_G	1.175	1.00
88_Q	265_I	1.171	1.00
46_H	50_D	1.167	1.00
243_F	255_L	1.165	1.00
26_V	31_E	1.162	1.00
267_E	270_K	1.156	1.00
92_D	295_A	1.145	1.00
6_I	49_G	1.142	1.00
325_D	328_K	1.130	1.00
211_P	231_L	1.129	1.00
331_E	345_K	1.126	1.00
182_L	205_P	1.120	1.00
192_M	195_V	1.119	1.00
174_F	180_F	1.115	1.00
115_K	339_F	1.103	1.00
127_D	130_D	1.101	1.00
232_A	254_I	1.098	1.00
171_R	175_G	1.095	1.00
240_R	274_M	1.092	1.00
242_D	245_R	1.088	1.00
132_I	143_F	1.084	1.00
194_K	223_L	1.084	1.00
164_V	203_Y	1.082	1.00
211_P	223_L	1.079	1.00
88_Q	295_A	1.078	1.00
126_A	135_L	1.069	1.00
95_G	105_L	1.060	1.00
201_E	229_I	1.059	1.00
259_L	268_C	1.056	1.00
51_Y	66_V	1.054	1.00
39_R	42_E	1.053	1.00
276_E	304_Y	1.052	1.00
58_S	98_L	1.046	1.00
184_F	208_I	1.044	1.00
223_L	231_L	1.042	1.00
123_D	127_D	1.036	1.00
145_L	170_I	1.034	1.00
250_G	280_V	1.033	1.00
233_A	246_V	1.026	1.00
193_A	197_I	1.025	1.00
56_D	59_R	1.023	1.00
270_K	273_G	1.022	1.00
161_D	199_E	1.021	1.00
224_A	250_G	1.015	1.00
124_R	179_E	1.015	1.00
58_S	94_K	1.013	1.00
27_V	30_G	1.012	1.00
230_P	307_V	1.009	1.00
136_R	143_F	1.004	1.00
198_K	228_H	1.004	1.00
188_V	193_A	1.004	1.00
91_W	266_T	0.987	1.00
258_D	285_H	0.986	1.00
126_A	130_D	0.985	1.00
262_A	268_C	0.979	1.00
48_L	86_I	0.976	1.00
61_N	269_Y	0.972	1.00
255_L	275_A	0.972	1.00
140_F	314_G	0.964	1.00
247_L	255_L	0.957	1.00
284_P	305_N	0.955	1.00
176_N	204_R	0.952	1.00
232_A	256_Q	0.951	1.00
26_V	30_G	0.947	1.00
6_I	52_L	0.947	1.00
129_I	172_E	0.945	1.00
132_I	174_F	0.945	1.00
39_R	47_E	0.937	1.00
165_N	169_Q	0.936	1.00
167_V	182_L	0.936	1.00
210_E	256_Q	0.927	1.00
17_F	291_I	0.927	1.00
42_E	45_V	0.925	1.00
106_M	269_Y	0.924	1.00
167_V	203_Y	0.921	1.00
205_P	229_I	0.919	1.00
184_F	197_I	0.915	1.00
217_A	251_G	0.914	1.00
55_Q	59_R	0.910	1.00
270_K	276_E	0.906	1.00
295_A	348_L	0.902	1.00
17_F	29_W	0.900	1.00
23_D	57_P	0.897	1.00
134_T	137_E	0.895	1.00
60_I	94_K	0.895	1.00
188_V	196_L	0.894	1.00
98_L	105_L	0.894	1.00
161_D	202_P	0.889	1.00
239_S	242_D	0.888	1.00
27_V	31_E	0.886	1.00
33_V	38_A	0.883	1.00
252_I	255_L	0.878	1.00
8_T	46_H	0.877	1.00
212_V	220_Y	0.875	1.00
104_Q	344_T	0.866	1.00
144_K	147_G	0.862	1.00
94_K	105_L	0.860	1.00
129_I	174_F	0.856	1.00
17_F	328_K	0.854	1.00
125_P	165_N	0.850	1.00
234_G	258_D	0.845	1.00
193_A	212_V	0.844	1.00
225_A	250_G	0.841	1.00
272_A	282_L	0.841	1.00
91_W	265_I	0.834	1.00
191_P	195_V	0.833	1.00
238_F	242_D	0.830	1.00
171_R	176_N	0.829	1.00
130_D	134_T	0.827	1.00
201_E	227_T	0.823	1.00
9_Y	17_F	0.823	1.00
166_T	169_Q	0.821	1.00
63_L	66_V	0.815	1.00
102_V	265_I	0.813	1.00
218_E	245_R	0.812	1.00
170_I	174_F	0.811	1.00
171_R	177_Q	0.802	1.00
259_L	296_C	0.798	1.00
284_P	300_D	0.798	1.00
220_Y	233_A	0.798	1.00
272_A	284_P	0.798	1.00
35_E	142_T	0.795	1.00
244_K	278_Y	0.793	1.00
64_W	87_D	0.793	1.00
237_M	243_F	0.791	1.00
174_F	178_I	0.790	1.00
274_M	277_A	0.788	1.00
47_E	50_D	0.787	1.00
44_A	82_A	0.786	1.00
218_E	221_P	0.786	1.00
4_T	24_E	0.785	1.00
269_Y	302_V	0.781	1.00
57_P	94_K	0.779	1.00
68_Y	267_E	0.778	1.00
341_K	344_T	0.776	1.00
103_W	298_H	0.776	1.00
142_T	181_G	0.775	1.00
103_W	342_P	0.775	1.00
190_A	194_K	0.772	1.00
118_S	140_F	0.769	1.00
265_I	295_A	0.763	1.00
40_T	43_A	0.762	1.00
57_P	90_L	0.761	1.00
259_L	299_I	0.756	1.00
257_P	268_C	0.754	1.00
63_L	67_M	0.753	1.00
194_K	212_V	0.753	1.00
323_L	327_V	0.750	1.00
164_V	202_P	0.748	1.00
57_P	97_V	0.747	1.00
135_L	138_I	0.745	1.00
322_E	326_F	0.744	1.00
160_V	196_L	0.741	1.00
217_A	246_V	0.741	1.00
39_R	43_A	0.738	1.00
167_V	200_L	0.738	1.00
240_R	270_K	0.737	1.00
265_I	269_Y	0.737	1.00
125_P	169_Q	0.737	1.00
195_V	226_Q	0.735	1.00
217_A	245_R	0.729	1.00
233_A	252_I	0.727	1.00
45_V	49_G	0.727	1.00
190_A	212_V	0.726	1.00
220_Y	231_L	0.725	1.00
143_F	174_F	0.725	1.00
223_L	227_T	0.724	1.00
40_T	47_E	0.721	1.00
119_W	122_G	0.721	1.00
52_L	55_Q	0.720	1.00
321_A	327_V	0.717	1.00
99_N	346_P	0.714	1.00
51_Y	70_A	0.710	1.00
64_W	266_T	0.710	1.00
224_A	231_L	0.706	1.00
129_I	327_V	0.706	1.00
237_M	242_D	0.704	1.00
219_Y	222_K	0.704	1.00
335_M	340_F	0.704	1.00
272_A	276_E	0.703	1.00
276_E	305_N	0.703	1.00
61_N	266_T	0.703	1.00
91_W	102_V	0.700	0.99
243_F	275_A	0.700	0.99
21_E	29_W	0.699	0.99
152_G	163_A	0.698	0.99
322_E	325_D	0.697	0.99
240_R	271_I	0.696	0.99
243_F	280_V	0.693	0.99
257_P	272_A	0.692	0.99
109_L	344_T	0.692	0.99
20_I	52_L	0.690	0.99
22_T	57_P	0.689	0.99
297_L	342_P	0.689	0.99
8_T	45_V	0.689	0.99
51_Y	55_Q	0.688	0.99
43_A	46_H	0.687	0.99
194_K	227_T	0.686	0.99
222_K	250_G	0.684	0.99
65_Q	270_K	0.684	0.99
98_L	101_P	0.684	0.99
336_V	339_F	0.682	0.99
184_F	188_V	0.681	0.99
41_V	45_V	0.678	0.99
147_G	184_F	0.678	0.99
217_A	249_A	0.678	0.99
61_N	65_Q	0.677	0.99
133_K	327_V	0.676	0.99
48_L	67_M	0.675	0.99
168_A	171_R	0.675	0.99
11_L	291_I	0.672	0.99
172_E	176_N	0.672	0.99
57_P	93_I	0.669	0.99
281_T	307_V	0.669	0.99
188_V	208_I	0.668	0.99
59_R	104_Q	0.668	0.99
127_D	131_G	0.667	0.99
295_A	299_I	0.665	0.99
301_F	343_L	0.664	0.99
10_R	38_A	0.660	0.99
64_W	68_Y	0.658	0.99
106_M	265_I	0.656	0.99
130_D	173_A	0.654	0.99
163_A	188_V	0.654	0.99
93_I	97_V	0.653	0.99
83_I	264_G	0.649	0.99
50_D	53_I	0.647	0.99
45_V	50_D	0.646	0.99
132_I	136_R	0.646	0.99
66_V	69_R	0.645	0.99
241_F	244_K	0.645	0.99
132_I	170_I	0.645	0.99
255_L	280_V	0.644	0.99
323_L	328_K	0.642	0.99
241_F	245_R	0.640	0.99
193_A	223_L	0.637	0.99
31_E	291_I	0.637	0.99
240_R	244_K	0.637	0.99
113_K	337_G	0.635	0.99
171_R	204_R	0.634	0.99
140_F	312_S	0.633	0.99
10_R	130_D	0.632	0.99
197_I	229_I	0.626	0.99
321_A	324_L	0.624	0.99
286_C	293_L	0.623	0.99
95_G	98_L	0.622	0.99
91_W	106_M	0.622	0.99
60_I	90_L	0.622	0.99
102_V	105_L	0.621	0.99
64_W	67_M	0.620	0.99
94_K	97_V	0.618	0.99
118_S	135_L	0.616	0.99
162_A	166_T	0.616	0.99
29_W	291_I	0.613	0.99
237_M	246_V	0.613	0.99
243_F	257_P	0.613	0.99
95_G	346_P	0.612	0.99
220_Y	223_L	0.612	0.99
321_A	326_F	0.612	0.99
95_G	100_A	0.610	0.99
118_S	122_G	0.610	0.99
310_E	313_M	0.610	0.99
252_I	280_V	0.609	0.99
129_I	169_Q	0.608	0.99
6_I	86_I	0.606	0.99
320_G	324_L	0.606	0.99
90_L	94_K	0.606	0.99
102_V	106_M	0.602	0.98
61_N	112_D	0.598	0.98
256_Q	285_H	0.598	0.98
10_R	42_E	0.598	0.98
275_A	280_V	0.597	0.98
145_L	167_V	0.595	0.98
146_N	166_T	0.594	0.98
331_E	334_S	0.592	0.98
171_R	174_F	0.592	0.98
47_E	51_Y	0.590	0.98
309_Q	312_S	0.589	0.98
328_K	331_E	0.588	0.98
251_G	280_V	0.586	0.98
40_T	44_A	0.583	0.98
175_G	178_I	0.582	0.98
269_Y	299_I	0.579	0.98
45_V	86_I	0.579	0.98
132_I	173_A	0.579	0.98
136_R	174_F	0.577	0.98
127_D	135_L	0.576	0.98
68_Y	83_I	0.576	0.98
334_S	341_K	0.575	0.98
8_T	42_E	0.575	0.98
257_P	282_L	0.575	0.98
106_M	302_V	0.573	0.98
207_F	283_A	0.572	0.98
104_Q	109_L	0.570	0.98
103_W	344_T	0.570	0.98
60_I	105_L	0.568	0.98
52_L	63_L	0.567	0.98
227_T	231_L	0.564	0.98
131_G	135_L	0.564	0.98
9_Y	29_W	0.561	0.98
224_A	251_G	0.559	0.98
210_E	236_R	0.557	0.97
10_R	14_R	0.556	0.97
275_A	282_L	0.555	0.97
27_V	96_K	0.552	0.97
324_L	328_K	0.551	0.97
40_T	45_V	0.549	0.97
300_D	309_Q	0.549	0.97
259_L	265_I	0.548	0.97
92_D	294_A	0.547	0.97
30_G	85_G	0.547	0.97
52_L	90_L	0.547	0.97
65_Q	68_Y	0.547	0.97
16_M	41_V	0.546	0.97
276_E	282_L	0.546	0.97
242_D	251_G	0.546	0.97
297_L	340_F	0.544	0.97
103_W	109_L	0.544	0.97
141_D	337_G	0.543	0.97
60_I	266_T	0.542	0.97
3_I	20_I	0.540	0.97
164_V	200_L	0.539	0.97
294_A	298_H	0.538	0.97
268_C	284_P	0.538	0.97
52_L	86_I	0.538	0.97
142_T	179_E	0.537	0.97
96_K	99_N	0.537	0.97
16_M	42_E	0.536	0.97
164_V	167_V	0.536	0.97
48_L	71_G	0.534	0.97
102_V	298_H	0.533	0.97
17_F	325_D	0.533	0.97
108_G	112_D	0.532	0.97
321_A	325_D	0.531	0.97
210_E	235_E	0.530	0.97
24_E	57_P	0.529	0.97
21_E	25_G	0.528	0.97
322_E	327_V	0.528	0.97
141_D	177_Q	0.526	0.96
282_L	305_N	0.526	0.96
116_A	340_F	0.523	0.96
255_L	271_I	0.523	0.96
63_L	86_I	0.523	0.96
113_K	336_V	0.521	0.96
160_V	164_V	0.521	0.96
292_A	321_A	0.521	0.96
265_I	299_I	0.516	0.96
129_I	132_I	0.515	0.96
320_G	323_L	0.515	0.96
119_W	163_A	0.514	0.96
110_V	304_Y	0.514	0.96
60_I	63_L	0.514	0.96
194_K	198_K	0.514	0.96
33_V	37_R	0.513	0.96
56_D	104_Q	0.512	0.96
210_E	234_G	0.511	0.96
184_F	193_A	0.509	0.96
32_P	81_S	0.509	0.96
167_V	205_P	0.506	0.96
67_M	264_G	0.506	0.96
282_L	303_S	0.505	0.96
168_A	199_E	0.505	0.96
308_L	311_Q	0.505	0.96
305_N	310_E	0.503	0.95
165_N	203_Y	0.500	0.95
128_V	166_T	0.500	0.95

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
3rr1A	5	0.9764	100	0.151	Contact Map
3rcyA	5	0.9581	100	0.158	Contact Map
3t6cA	5	0.9817	100	0.164	Contact Map
3tjiA	5	0.9817	100	0.168	Contact Map
3v3wA	5	0.9712	100	0.172	Contact Map
3sbfA	6	0.9817	100	0.175	Contact Map
3vcnA	5	0.9764	100	0.175	Contact Map
4k8gA	5	0.9712	100	0.195	Contact Map
4il2A	5	0.9738	100	0.197	Contact Map
4it1A	3	0.9424	100	0.199	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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