GAD - SULSO - GREMLIN Contacts

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GAD - D-gluconate/D-galactonate dehydratase

UniProt:	Q97U27	Sequences: MRIREIEPIVLTSKEKGSATWASIMIVTRVITENGEVGYGEAVPTLRVISVYNAIKQVSKAYIGKEVEEVEKNYHEWYKQDFYLARSFESATAVSAIDIASWDIIGKELGAPIHKLLGGKTRDRVPVYANGWYQDCVTPEEFAEKAKDVVKMGYKALKFDPFGPYYDWIDERGLREAEERVKAVREAVGDNVDILIEHHGRFNANSAIMIAKRLEKYNPGFMEEPVHHEDVIGLRKYKASTHLRVALGERLISEKETAFYVEEGLVNILQPDLTNIGGVTVGRSVIKIAEANDVEVAFHNAFGSIQNAVEIQLSAVTQNLYLLENFYDWFPQWKRDLVYNETPVEGGHVKVPYKPGLGVSINEKIIEQLRAEPIPLDVIEEPVWVVKGTWKNYGV	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	395 (341)
Sequences:	11662 (6651)
Seq/√Len:	360.2

ECOLI - GUDD GUDX RSPA DGOD RHMD AEEP MENC
BACSU - GUDD YITF 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
65_K	76_E	3.527	1.00
124_R	348_H	3.327	1.00
238_K	267_N	3.194	1.00
259_F	263_E	3.052	1.00
203_N	206_S	2.948	1.00
235_R	239_A	2.908	1.00
69_E	72_K	2.740	1.00
230_D	233_G	2.692	1.00
28_T	96_A	2.682	1.00
36_E	104_I	2.641	1.00
258_A	262_E	2.564	1.00
52_Y	56_K	2.514	1.00
7_E	29_R	2.434	1.00
31_I	37_V	2.430	1.00
5_E	31_I	2.375	1.00
32_T	104_I	2.354	1.00
236_K	239_A	2.327	1.00
29_R	37_V	2.315	1.00
7_E	31_I	2.291	1.00
212_K	215_E	2.246	1.00
147_K	187_A	2.246	1.00
71_E	284_S	2.163	1.00
32_T	36_E	2.105	1.00
254_E	281_V	2.100	1.00
261_V	294_V	2.094	1.00
339_Y	360_S	2.090	1.00
211_A	222_M	2.088	1.00
212_K	240_S	2.074	1.00
235_R	263_E	2.055	1.00
98_D	280_T	2.026	1.00
236_K	240_S	2.018	1.00
232_I	263_E	1.972	1.00
211_A	241_T	1.955	1.00
9_I	29_R	1.950	1.00
5_E	59_S	1.944	1.00
147_K	151_K	1.942	1.00
276_I	285_V	1.929	1.00
179_E	182_K	1.924	1.00
36_E	108_E	1.922	1.00
11_L	41_E	1.894	1.00
106_G	113_I	1.890	1.00
126_P	155_K	1.867	1.00
139_P	143_A	1.862	1.00
208_I	240_S	1.853	1.00
29_R	39_Y	1.837	1.00
268_I	295_E	1.832	1.00
34_N	108_E	1.831	1.00
148_D	152_M	1.793	1.00
210_I	214_L	1.791	1.00
257_T	285_V	1.775	1.00
213_R	216_K	1.746	1.00
345_E	350_K	1.741	1.00
193_D	220_G	1.734	1.00
4_R	31_I	1.734	1.00
182_K	217_Y	1.730	1.00
138_T	141_E	1.721	1.00
73_N	101_S	1.713	1.00
65_K	72_K	1.707	1.00
262_E	292_N	1.704	1.00
42_A	96_A	1.690	1.00
226_V	237_Y	1.689	1.00
6_I	30_V	1.650	1.00
30_V	101_S	1.650	1.00
84_L	255_K	1.606	1.00
215_E	242_H	1.598	1.00
260_Y	266_V	1.591	1.00
150_V	192_V	1.590	1.00
112_P	115_K	1.581	1.00
288_I	292_N	1.572	1.00
36_E	107_K	1.561	1.00
287_K	290_E	1.553	1.00
111_A	115_K	1.552	1.00
145_K	148_D	1.537	1.00
261_V	288_I	1.526	1.00
204_A	236_K	1.513	1.00
205_N	236_K	1.512	1.00
182_K	186_E	1.508	1.00
143_A	187_A	1.507	1.00
315_A	351_V	1.490	1.00
53_N	57_Q	1.489	1.00
204_A	237_Y	1.486	1.00
124_R	350_K	1.475	1.00
283_R	287_K	1.468	1.00
183_A	186_E	1.462	1.00
59_S	63_I	1.459	1.00
4_R	33_E	1.455	1.00
178_E	213_R	1.448	1.00
107_K	360_S	1.445	1.00
176_E	179_E	1.442	1.00
113_I	357_L	1.409	1.00
173_G	176_E	1.368	1.00
68_E	108_E	1.364	1.00
98_D	102_W	1.363	1.00
6_I	59_S	1.363	1.00
208_I	236_K	1.351	1.00
65_K	73_N	1.344	1.00
153_G	192_V	1.341	1.00
286_I	317_T	1.337	1.00
57_Q	88_F	1.333	1.00
132_W	177_A	1.327	1.00
120_K	123_D	1.323	1.00
259_F	262_E	1.314	1.00
27_V	39_Y	1.312	1.00
157_L	192_V	1.309	1.00
147_K	150_V	1.308	1.00
226_V	233_G	1.304	1.00
261_V	292_N	1.301	1.00
111_A	116_L	1.274	1.00
182_K	216_K	1.274	1.00
12_T	22_A	1.273	1.00
195_L	221_F	1.269	1.00
103_D	107_K	1.257	1.00
77_W	94_V	1.247	1.00
188_V	194_I	1.245	1.00
282_G	313_L	1.238	1.00
209_M	212_K	1.237	1.00
72_K	76_E	1.234	1.00
105_I	109_L	1.233	1.00
179_E	183_A	1.233	1.00
195_L	220_G	1.231	1.00
75_H	79_K	1.231	1.00
32_T	108_E	1.224	1.00
99_I	279_V	1.223	1.00
208_I	237_Y	1.216	1.00
258_A	288_I	1.209	1.00
257_T	269_L	1.207	1.00
281_V	284_S	1.201	1.00
185_R	189_G	1.200	1.00
340_N	354_K	1.197	1.00
56_K	59_S	1.194	1.00
209_M	213_R	1.194	1.00
146_A	157_L	1.192	1.00
103_D	309_V	1.190	1.00
126_P	348_H	1.184	1.00
204_A	233_G	1.181	1.00
141_E	144_E	1.179	1.00
287_K	291_A	1.171	1.00
229_E	256_E	1.165	1.00
246_A	268_I	1.156	1.00
196_I	219_P	1.151	1.00
106_G	116_L	1.146	1.00
215_E	243_L	1.146	1.00
238_K	264_G	1.138	1.00
283_R	317_T	1.136	1.00
99_I	309_V	1.127	1.00
137_V	141_E	1.116	1.00
235_R	265_L	1.115	1.00
160_D	199_H	1.114	1.00
144_E	147_K	1.110	1.00
256_E	259_F	1.103	1.00
198_H	222_M	1.100	1.00
254_E	288_I	1.097	1.00
68_E	105_I	1.097	1.00
225_P	237_Y	1.091	1.00
225_P	245_V	1.090	1.00
237_Y	245_V	1.089	1.00
212_K	242_H	1.085	1.00
206_S	209_M	1.084	1.00
66_E	69_E	1.084	1.00
284_S	290_E	1.075	1.00
71_E	283_R	1.073	1.00
65_K	69_E	1.066	1.00
68_E	109_L	1.064	1.00
56_K	60_K	1.063	1.00
269_L	289_A	1.062	1.00
159_F	184_V	1.062	1.00
150_V	157_L	1.053	1.00
146_A	188_V	1.051	1.00
175_R	179_E	1.047	1.00
148_D	151_K	1.045	1.00
6_I	62_Y	1.043	1.00
247_L	260_Y	1.042	1.00
264_G	294_V	1.039	1.00
273_L	282_G	1.037	1.00
202_F	207_A	1.036	1.00
284_S	287_K	1.035	1.00
178_E	217_Y	1.031	1.00
207_A	211_A	1.028	1.00
187_A	190_D	1.024	1.00
244_R	321_Y	1.023	1.00
102_W	280_T	1.015	1.00
33_E	67_V	1.015	1.00
8_P	56_K	1.008	1.00
27_V	305_I	0.986	1.00
9_I	39_Y	0.986	1.00
246_A	270_Q	0.986	1.00
115_K	353_Y	0.984	1.00
61_A	76_E	0.976	1.00
185_R	194_I	0.972	1.00
144_E	148_D	0.972	1.00
224_E	270_Q	0.966	1.00
272_D	299_H	0.964	1.00
276_I	282_G	0.964	1.00
178_E	182_K	0.962	1.00
261_V	269_L	0.957	1.00
202_F	210_I	0.953	1.00
219_P	243_L	0.953	1.00
309_V	357_L	0.951	1.00
290_E	318_Q	0.949	1.00
70_V	105_I	0.949	1.00
58_V	97_I	0.947	1.00
9_I	27_V	0.942	1.00
143_A	188_V	0.939	1.00
140_E	144_E	0.937	1.00
73_N	76_E	0.926	1.00
232_I	259_F	0.923	1.00
109_L	116_L	0.921	1.00
41_E	305_I	0.916	1.00
266_V	269_L	0.916	1.00
183_A	187_A	0.910	1.00
178_E	216_K	0.908	1.00
139_P	179_E	0.907	1.00
149_V	152_M	0.902	1.00
283_R	316_V	0.900	1.00
52_Y	55_I	0.899	1.00
184_V	188_V	0.894	1.00
273_L	310_E	0.886	1.00
226_V	234_L	0.885	1.00
154_Y	326_F	0.884	1.00
253_S	256_E	0.881	1.00
113_I	279_V	0.881	1.00
105_I	116_L	0.878	1.00
139_P	183_A	0.878	1.00
354_K	360_S	0.878	1.00
252_I	256_E	0.876	1.00
174_L	210_I	0.873	1.00
181_V	196_I	0.871	1.00
74_Y	98_D	0.870	1.00
102_W	279_V	0.868	1.00
174_L	178_E	0.867	1.00
181_V	217_Y	0.866	1.00
55_I	59_S	0.859	1.00
215_E	241_T	0.858	1.00
8_P	55_I	0.856	1.00
185_R	191_N	0.855	1.00
154_Y	328_D	0.851	1.00
231_V	265_L	0.851	1.00
251_L	257_T	0.848	1.00
156_A	195_L	0.847	1.00
73_N	77_W	0.846	1.00
207_A	226_V	0.836	1.00
279_V	309_V	0.833	1.00
288_I	291_A	0.833	1.00
234_L	247_L	0.832	1.00
181_V	214_L	0.832	1.00
295_E	321_Y	0.831	1.00
130_N	150_V	0.830	1.00
114_H	312_Q	0.830	1.00
239_A	264_G	0.829	1.00
205_N	209_M	0.828	1.00
258_A	292_N	0.823	1.00
58_V	77_W	0.820	1.00
188_V	192_V	0.812	1.00
298_F	314_S	0.810	1.00
67_V	105_I	0.809	1.00
190_D	218_N	0.808	1.00
67_V	101_S	0.807	1.00
114_H	351_V	0.806	1.00
286_I	296_V	0.806	1.00
74_Y	78_Y	0.805	1.00
163_G	177_A	0.803	1.00
238_K	245_V	0.803	1.00
231_V	260_Y	0.800	1.00
74_Y	280_T	0.799	1.00
143_A	186_E	0.799	1.00
248_G	272_D	0.798	1.00
78_Y	281_V	0.795	1.00
198_H	202_F	0.794	1.00
279_V	283_R	0.792	1.00
298_F	319_N	0.790	1.00
85_A	88_F	0.789	1.00
350_K	353_Y	0.788	1.00
117_L	283_R	0.788	1.00
286_I	298_F	0.785	1.00
202_F	222_M	0.785	1.00
271_P	282_G	0.784	1.00
30_V	62_Y	0.782	1.00
143_A	147_K	0.779	1.00
286_I	290_E	0.779	1.00
30_V	38_G	0.775	1.00
204_A	226_V	0.772	1.00
234_L	245_V	0.770	1.00
110_G	355_P	0.765	1.00
140_E	143_A	0.765	1.00
198_H	211_A	0.763	1.00
39_Y	305_I	0.758	1.00
54_A	93_A	0.758	1.00
109_L	112_P	0.756	1.00
254_E	284_S	0.756	1.00
251_L	256_E	0.753	1.00
232_I	235_R	0.751	1.00
247_L	266_V	0.748	1.00
50_S	53_N	0.746	1.00
204_A	208_I	0.745	1.00
208_I	241_T	0.743	1.00
175_R	213_R	0.742	1.00
231_V	259_F	0.741	1.00
237_Y	241_T	0.741	1.00
49_I	53_N	0.738	1.00
76_E	79_K	0.736	1.00
120_K	353_Y	0.734	1.00
75_H	284_S	0.734	1.00
273_L	313_L	0.734	1.00
345_E	348_H	0.733	1.00
51_V	55_I	0.732	1.00
57_Q	60_K	0.732	1.00
62_Y	65_K	0.730	1.00
67_V	108_E	0.725	1.00
185_R	218_N	0.724	1.00
236_K	264_G	0.723	1.00
271_P	286_I	0.722	0.99
38_G	107_K	0.722	0.99
233_G	236_K	0.721	0.99
311_I	351_V	0.718	0.99
255_K	258_A	0.718	0.99
8_P	52_Y	0.715	0.99
31_I	39_Y	0.712	0.99
61_A	65_K	0.710	0.99
344_V	349_V	0.710	0.99
208_I	226_V	0.708	0.99
146_A	184_V	0.706	0.99
257_T	289_A	0.703	0.99
129_A	149_V	0.700	0.99
290_E	319_N	0.699	0.99
143_A	183_A	0.697	0.99
254_E	285_V	0.697	0.99
55_I	60_K	0.696	0.99
4_R	34_N	0.696	0.99
124_R	346_G	0.696	0.99
49_I	57_Q	0.693	0.99
49_I	52_Y	0.688	0.99
314_S	323_L	0.688	0.99
207_A	237_Y	0.684	0.99
145_K	149_V	0.684	0.99
157_L	188_V	0.684	0.99
127_V	130_N	0.683	0.99
269_L	294_V	0.682	0.99
129_A	154_Y	0.681	0.99
327_Y	330_F	0.680	0.99
231_V	263_E	0.678	0.99
117_L	279_V	0.677	0.99
146_A	150_V	0.677	0.99
117_L	316_V	0.677	0.99
178_E	188_V	0.676	0.99
177_A	202_F	0.676	0.99
311_I	349_V	0.674	0.99
69_E	115_K	0.673	0.99
12_T	24_I	0.670	0.99
71_E	280_T	0.670	0.99
10_V	52_Y	0.666	0.99
143_A	146_A	0.665	0.99
156_A	193_D	0.664	0.99
113_I	117_L	0.664	0.99
271_P	296_V	0.662	0.99
37_V	107_K	0.661	0.99
315_A	352_P	0.661	0.99
122_R	125_V	0.661	0.99
10_V	24_I	0.660	0.99
31_I	35_G	0.659	0.99
53_N	56_K	0.658	0.99
74_Y	77_W	0.658	0.99
289_A	294_V	0.658	0.99
37_V	360_S	0.656	0.99
181_V	188_V	0.654	0.99
211_A	243_L	0.654	0.99
38_G	103_D	0.651	0.99
176_E	180_R	0.650	0.99
257_T	294_V	0.649	0.99
102_W	113_I	0.649	0.99
38_G	100_A	0.647	0.99
234_L	237_Y	0.647	0.99
32_T	67_V	0.645	0.99
115_K	120_K	0.645	0.99
343_P	350_K	0.645	0.99
106_G	355_P	0.644	0.99
255_K	259_F	0.640	0.99
340_N	360_S	0.638	0.99
67_V	104_I	0.638	0.99
113_I	116_L	0.637	0.99
257_T	271_P	0.636	0.99
105_I	108_E	0.636	0.99
182_K	187_A	0.635	0.99
102_W	117_L	0.634	0.99
251_L	260_Y	0.631	0.99
106_G	111_A	0.630	0.99
73_N	97_I	0.626	0.99
266_V	294_V	0.625	0.99
61_A	80_Q	0.624	0.99
71_E	75_H	0.623	0.99
161_P	202_F	0.623	0.99
161_P	196_I	0.622	0.99
3_I	30_V	0.620	0.98
283_R	313_L	0.620	0.98
62_Y	73_N	0.620	0.98
270_Q	299_H	0.620	0.98
66_E	115_K	0.620	0.98
78_Y	94_V	0.618	0.98
104_I	108_E	0.617	0.98
94_V	278_G	0.616	0.98
55_I	97_I	0.613	0.98
4_R	32_T	0.612	0.98
161_P	198_H	0.612	0.98
181_V	194_I	0.611	0.98
300_N	307_N	0.611	0.98
155_K	346_G	0.608	0.98
329_W	332_Q	0.606	0.98
50_S	57_Q	0.605	0.98
101_S	105_I	0.602	0.98
221_F	297_A	0.600	0.98
289_A	296_V	0.599	0.98
40_G	96_A	0.599	0.98
254_E	258_A	0.598	0.98
70_V	280_T	0.598	0.98
106_G	109_L	0.597	0.98
279_V	313_L	0.597	0.98
34_N	67_V	0.596	0.98
209_M	240_S	0.595	0.98
6_I	97_I	0.594	0.98
224_E	250_R	0.587	0.98
50_S	54_A	0.586	0.98
60_K	63_I	0.583	0.98
50_S	55_I	0.583	0.98
308_A	359_V	0.580	0.98
282_G	298_F	0.580	0.98
10_V	49_I	0.578	0.98
146_A	183_A	0.578	0.98
241_T	245_V	0.577	0.98
208_I	212_K	0.575	0.98
70_V	116_L	0.575	0.98
178_E	181_V	0.575	0.98
62_Y	97_I	0.574	0.98
175_R	190_D	0.572	0.97
256_E	265_L	0.570	0.97
144_E	187_A	0.570	0.97
71_E	123_D	0.569	0.97
146_A	187_A	0.568	0.97
189_G	192_V	0.568	0.97
224_E	249_E	0.567	0.97
159_F	181_V	0.566	0.97
70_V	73_N	0.565	0.97
75_H	78_Y	0.564	0.97
26_I	52_Y	0.560	0.97
296_V	319_N	0.560	0.97
62_Y	101_S	0.559	0.97
309_V	313_L	0.559	0.97
113_I	312_Q	0.558	0.97
150_V	188_V	0.555	0.97
114_H	353_Y	0.555	0.97
220_G	244_R	0.554	0.97
124_R	345_E	0.553	0.97
314_S	320_L	0.551	0.97
175_R	182_K	0.550	0.97
304_S	338_V	0.550	0.97
224_E	248_G	0.545	0.97
147_K	188_V	0.544	0.97
273_L	279_V	0.542	0.96
83_Y	88_F	0.542	0.96
269_L	285_V	0.542	0.96
290_E	296_V	0.542	0.96
6_I	28_T	0.541	0.96
107_K	354_K	0.540	0.96
119_G	123_D	0.540	0.96
274_T	301_A	0.540	0.96
20_T	23_S	0.537	0.96
42_A	92_T	0.536	0.96
121_T	318_Q	0.536	0.96
77_W	278_G	0.535	0.96
107_K	110_G	0.533	0.96
126_P	193_D	0.533	0.96
207_A	222_M	0.529	0.96
70_V	101_S	0.529	0.96
58_V	81_D	0.528	0.96
328_D	331_P	0.526	0.96
54_A	89_E	0.525	0.96
200_G	250_R	0.524	0.96
181_V	219_P	0.524	0.96
234_L	265_L	0.523	0.96
98_D	278_G	0.523	0.96
286_I	319_N	0.523	0.96
114_H	120_K	0.522	0.96
82_F	89_E	0.519	0.96
311_I	352_P	0.519	0.96
296_V	317_T	0.519	0.96
120_K	124_R	0.518	0.95
26_I	51_V	0.518	0.95
150_V	187_A	0.518	0.95
127_V	349_V	0.516	0.95
38_G	104_I	0.515	0.95
194_I	219_P	0.515	0.95
84_L	87_S	0.514	0.95
8_P	26_I	0.513	0.95
219_P	222_M	0.513	0.95
122_R	126_P	0.513	0.95
238_K	265_L	0.512	0.95
43_V	274_T	0.511	0.95
155_K	191_N	0.511	0.95
211_A	237_Y	0.510	0.95
57_Q	61_A	0.509	0.95
244_R	268_I	0.508	0.95
139_P	142_F	0.507	0.95
234_L	266_V	0.507	0.95
128_Y	299_H	0.507	0.95
235_R	264_G	0.506	0.95
11_L	25_M	0.506	0.95
265_L	294_V	0.506	0.95
196_I	214_L	0.506	0.95
160_D	163_G	0.505	0.95
51_V	54_A	0.505	0.95
308_A	312_Q	0.504	0.95
211_A	214_L	0.502	0.95
32_T	35_G	0.502	0.95
112_P	116_L	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
3rcyA	5	0.962	100	0.195	Contact Map
3s5sA	2	0.881	100	0.211	Contact Map
3stpA	5	0.9139	100	0.213	Contact Map
3t6cA	5	0.9544	100	0.216	Contact Map
4dwdA	5	0.9316	100	0.218	Contact Map
3vdgA	2	0.957	100	0.219	Contact Map
3bjsA	5	0.9165	100	0.219	Contact Map
3vc5A	2	0.9544	100	0.22	Contact Map
2qdeA	5	0.9038	100	0.22	Contact Map
2qddA	5	0.9114	100	0.221	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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