ADER - BACSU - GREMLIN Contacts

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ADER - Transcriptional activator AdeR

UniProt:	P71073	Sequences: MSKRNQARKVGRFMTMPNDPFKYSFDRLEDVADHISDVLRCPITIEDVNHKLLAYSTHSDCTDPARTSTIIGRRVPEKVINKLWKDGTIPALLKTDQPIRVKQIDEVGLSNRVAISIWKNKQVLGFIWALEIQKTLSDEDLLTLQMAAKAVKNKLLKLQIRKTKNEERSQEFFWKMLTGHIHQEDDMADGFHKLGMAAPSEFSVMIIRINGELTEKIEQQLQYLQETTQQVYVLLATVDSNELIILTSPKTDHPFQDLKQFALSTQKQLKERYKIEDVSIAFGGIYNSISFVSRSYQEALSVLKTKERFAEETKHLFSFSELGIYQYLDVLNEKRKQAGHYNYSLSKLEQYDRDHQSNMVETLERFIEADSNVNTASKLLNIHVNTLNYRLKRISQIAEIDLKNVNQKFTIYLDIKLRHMDL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	422 (360)
Sequences:	5592 (4662)
Seq/√Len:	245.7

ECOLI - CDAR
BACSU - ADER YCGP PUCR YSFB YXKF

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
283_G	295_S	7.363	1.00
369_A	379_L	6.270	1.00
395_S	401_D	3.836	1.00
358_N	361_E	3.803	1.00
382_I	386_T	3.642	1.00
404_N	407_Q	3.349	1.00
352_D	357_S	3.078	1.00
281_A	302_V	3.049	1.00
376_A	387_L	2.917	1.00
382_I	387_L	2.862	1.00
369_A	376_A	2.848	1.00
361_E	365_R	2.838	1.00
368_E	379_L	2.767	1.00
281_A	299_A	2.703	1.00
406_N	416_K	2.693	1.00
363_L	394_I	2.676	1.00
284_G	298_E	2.653	1.00
242_E	300_L	2.599	1.00
365_R	369_A	2.563	1.00
206_I	299_A	2.497	1.00
384_V	388_N	2.466	1.00
32_A	45_I	2.459	1.00
352_D	355_H	2.449	1.00
395_S	402_L	2.313	1.00
400_I	407_Q	2.303	1.00
208_R	307_E	2.288	1.00
288_S	291_F	2.250	1.00
204_V	295_S	2.223	1.00
207_I	280_I	2.205	1.00
365_R	376_A	2.201	1.00
364_E	368_E	2.188	1.00
362_T	376_A	2.151	1.00
47_D	51_K	2.139	1.00
375_T	378_K	2.109	1.00
349_E	418_R	2.049	1.00
175_K	190_G	2.044	1.00
306_K	317_F	2.013	1.00
29_E	33_D	2.010	1.00
383_H	386_T	1.982	1.00
400_I	410_T	1.925	1.00
244_I	296_Y	1.910	1.00
137_S	140_D	1.888	1.00
318_S	321_E	1.867	1.00
205_M	282_F	1.864	1.00
392_K	395_S	1.841	1.00
117_I	125_G	1.830	1.00
370_D	404_N	1.829	1.00
296_Y	300_L	1.828	1.00
362_T	387_L	1.822	1.00
286_Y	298_E	1.822	1.00
373_V	388_N	1.796	1.00
348_L	394_I	1.776	1.00
392_K	396_Q	1.769	1.00
174_W	239_D	1.763	1.00
408_K	412_Y	1.752	1.00
371_S	408_K	1.743	1.00
35_I	147_A	1.737	1.00
144_L	148_A	1.734	1.00
374_N	388_N	1.728	1.00
362_T	394_I	1.722	1.00
365_R	379_L	1.694	1.00
337_Q	417_L	1.688	1.00
393_R	396_Q	1.678	1.00
362_T	390_R	1.675	1.00
367_I	408_K	1.637	1.00
395_S	403_K	1.634	1.00
409_F	412_Y	1.612	1.00
374_N	378_K	1.611	1.00
172_F	191_F	1.610	1.00
286_Y	295_S	1.550	1.00
394_I	398_A	1.534	1.00
175_K	180_H	1.522	1.00
293_S	297_Q	1.521	1.00
348_L	360_V	1.515	1.00
99_I	102_K	1.496	1.00
369_A	375_T	1.494	1.00
286_Y	291_F	1.489	1.00
398_A	407_Q	1.488	1.00
366_F	371_S	1.473	1.00
208_R	242_E	1.468	1.00
206_I	300_L	1.447	1.00
302_V	306_K	1.445	1.00
204_V	299_A	1.441	1.00
350_Q	354_D	1.434	1.00
204_V	283_G	1.422	1.00
281_A	303_L	1.422	1.00
295_S	299_A	1.417	1.00
154_K	157_K	1.413	1.00
291_F	294_R	1.410	1.00
36_S	56_S	1.389	1.00
344_S	347_K	1.379	1.00
203_S	249_P	1.366	1.00
208_R	279_S	1.354	1.00
375_T	379_L	1.353	1.00
374_N	384_V	1.344	1.00
359_M	394_I	1.329	1.00
365_R	380_L	1.328	1.00
208_R	303_L	1.313	1.00
114_A	126_F	1.311	1.00
393_R	397_I	1.299	1.00
368_E	412_Y	1.292	1.00
283_G	286_Y	1.289	1.00
371_S	376_A	1.289	1.00
282_F	318_S	1.285	1.00
367_I	371_S	1.279	1.00
174_W	178_T	1.277	1.00
385_N	388_N	1.262	1.00
366_F	373_V	1.258	1.00
27_R	154_K	1.258	1.00
323_G	326_Q	1.251	1.00
325_Y	406_N	1.250	1.00
372_N	387_L	1.240	1.00
359_M	362_T	1.237	1.00
202_F	292_V	1.236	1.00
391_L	395_S	1.235	1.00
362_T	382_I	1.231	1.00
284_G	320_S	1.225	1.00
99_I	103_Q	1.220	1.00
349_E	360_V	1.215	1.00
281_A	306_K	1.210	1.00
364_E	418_R	1.199	1.00
346_S	350_Q	1.199	1.00
359_M	397_I	1.184	1.00
79_V	82_K	1.178	1.00
373_V	391_L	1.175	1.00
82_K	86_D	1.153	1.00
164_K	167_E	1.151	1.00
46_E	128_W	1.148	1.00
389_Y	393_R	1.145	1.00
412_Y	416_K	1.142	1.00
372_N	384_V	1.135	1.00
360_V	364_E	1.133	1.00
136_L	140_D	1.125	1.00
118_W	123_V	1.124	1.00
372_N	375_T	1.123	1.00
76_P	79_V	1.117	1.00
96_D	99_I	1.115	1.00
266_Q	270_K	1.115	1.00
227_T	230_Q	1.113	1.00
369_A	387_L	1.109	1.00
35_I	39_L	1.108	1.00
205_M	245_I	1.106	1.00
163_T	167_E	1.105	1.00
112_R	128_W	1.100	1.00
83_L	86_D	1.095	1.00
125_G	130_L	1.082	1.00
236_A	245_I	1.082	1.00
373_V	385_N	1.075	1.00
32_A	43_I	1.074	1.00
406_N	409_F	1.068	1.00
246_L	292_V	1.065	1.00
380_L	387_L	1.065	1.00
203_S	285_I	1.059	1.00
163_T	166_E	1.059	1.00
347_K	397_I	1.056	1.00
203_S	320_S	1.054	1.00
228_T	231_V	1.047	1.00
222_Q	226_E	1.038	1.00
263_L	267_K	1.032	1.00
45_I	127_I	1.030	1.00
391_L	394_I	1.027	1.00
224_L	227_T	1.021	1.00
34_H	37_D	1.018	1.00
148_A	152_K	1.006	1.00
370_D	405_V	1.002	1.00
79_V	83_L	1.000	1.00
343_Y	347_K	0.999	1.00
282_F	316_L	0.998	1.00
172_F	190_G	0.986	1.00
27_R	30_D	0.985	1.00
34_H	38_V	0.985	1.00
191_F	198_A	0.983	1.00
80_I	84_W	0.982	1.00
81_N	84_W	0.982	1.00
360_V	415_I	0.981	1.00
321_E	324_I	0.972	1.00
206_I	303_L	0.970	1.00
57_T	61_C	0.968	1.00
350_Q	353_R	0.964	1.00
264_S	267_K	0.960	1.00
384_V	392_K	0.959	1.00
328_L	413_L	0.950	1.00
299_A	302_V	0.948	1.00
165_N	169_S	0.946	1.00
42_P	130_L	0.944	1.00
354_D	357_S	0.944	1.00
132_I	135_T	0.938	1.00
389_Y	396_Q	0.937	1.00
381_N	389_Y	0.935	1.00
407_Q	410_T	0.932	1.00
188_A	191_F	0.930	1.00
395_S	399_E	0.926	1.00
173_F	246_L	0.925	1.00
281_A	298_E	0.923	1.00
204_V	246_L	0.923	1.00
402_L	407_Q	0.920	1.00
28_L	151_V	0.918	1.00
340_H	344_S	0.916	1.00
325_Y	416_K	0.916	1.00
143_T	147_A	0.916	1.00
286_Y	294_R	0.915	1.00
197_A	200_S	0.915	1.00
145_Q	148_A	0.914	1.00
362_T	380_L	0.907	1.00
365_R	368_E	0.905	1.00
30_D	34_H	0.899	1.00
322_L	326_Q	0.896	1.00
409_F	416_K	0.890	1.00
364_E	416_K	0.890	1.00
144_L	147_A	0.889	1.00
279_S	307_E	0.888	1.00
405_V	412_Y	0.887	1.00
368_E	406_N	0.885	1.00
344_S	410_T	0.885	1.00
298_E	339_G	0.882	1.00
398_A	411_I	0.880	1.00
366_F	391_L	0.880	1.00
326_Q	343_Y	0.879	1.00
409_F	413_L	0.878	1.00
98_P	101_V	0.876	0.99
294_R	298_E	0.876	0.99
363_L	367_I	0.874	0.99
342_N	350_Q	0.871	0.99
204_V	296_Y	0.871	0.99
196_M	202_F	0.870	0.99
43_I	129_A	0.870	0.99
47_D	53_L	0.870	0.99
362_T	389_Y	0.868	0.99
206_I	281_A	0.867	0.99
141_L	145_Q	0.864	0.99
96_D	100_R	0.860	0.99
402_L	408_K	0.860	0.99
324_I	413_L	0.859	0.99
405_V	408_K	0.854	0.99
141_L	147_A	0.852	0.99
83_L	88_T	0.850	0.99
39_L	42_P	0.848	0.99
289_I	292_V	0.847	0.99
117_I	151_V	0.844	0.99
225_Q	229_Q	0.842	0.99
302_V	322_L	0.840	0.99
191_F	194_L	0.837	0.99
210_N	279_S	0.837	0.99
244_I	300_L	0.837	0.99
206_I	244_I	0.836	0.99
43_I	127_I	0.836	0.99
32_A	54_A	0.835	0.99
225_Q	228_T	0.830	0.99
206_I	242_E	0.826	0.99
223_Y	226_E	0.826	0.99
370_D	408_K	0.826	0.99
360_V	418_R	0.819	0.99
32_A	36_S	0.815	0.99
403_K	408_K	0.814	0.99
83_L	87_G	0.813	0.99
41_C	140_D	0.811	0.99
81_N	85_K	0.809	0.99
342_N	346_S	0.808	0.99
372_N	388_N	0.804	0.99
342_N	414_D	0.804	0.99
52_L	56_S	0.802	0.99
94_K	97_Q	0.801	0.99
39_L	143_T	0.800	0.99
110_S	114_A	0.793	0.99
145_Q	149_K	0.792	0.99
40_R	43_I	0.790	0.99
114_A	117_I	0.790	0.99
46_E	112_R	0.787	0.99
78_K	87_G	0.785	0.99
264_S	268_Q	0.785	0.99
36_S	42_P	0.784	0.99
353_R	357_S	0.784	0.99
352_D	356_Q	0.783	0.99
367_I	412_Y	0.782	0.99
95_T	100_R	0.781	0.99
115_I	145_Q	0.778	0.99
203_S	283_G	0.776	0.99
79_V	87_G	0.774	0.99
77_E	81_N	0.772	0.99
327_Y	340_H	0.770	0.99
344_S	414_D	0.767	0.99
42_P	46_E	0.767	0.99
366_F	395_S	0.767	0.99
57_T	60_D	0.766	0.99
320_S	343_Y	0.764	0.99
302_V	319_F	0.760	0.99
401_D	404_N	0.758	0.99
286_Y	292_V	0.753	0.98
319_F	326_Q	0.752	0.98
38_V	42_P	0.751	0.98
114_A	128_W	0.750	0.98
28_L	53_L	0.748	0.98
179_G	293_S	0.745	0.98
174_W	237_T	0.745	0.98
323_G	340_H	0.744	0.98
395_S	398_A	0.743	0.98
349_E	352_D	0.743	0.98
50_H	126_F	0.741	0.98
187_M	190_G	0.740	0.98
381_N	386_T	0.740	0.98
364_E	415_I	0.740	0.98
53_L	56_S	0.736	0.98
206_I	296_Y	0.735	0.98
44_T	50_H	0.734	0.98
45_I	117_I	0.732	0.98
324_I	409_F	0.731	0.98
263_L	266_Q	0.730	0.98
80_I	86_D	0.726	0.98
344_S	400_I	0.720	0.98
384_V	412_Y	0.717	0.98
135_T	139_E	0.715	0.98
108_G	113_V	0.714	0.98
334_K	337_Q	0.714	0.98
36_S	44_T	0.713	0.98
201_E	285_I	0.712	0.98
95_T	98_P	0.711	0.98
41_C	129_A	0.710	0.98
371_S	405_V	0.710	0.98
323_G	410_T	0.709	0.98
342_N	347_K	0.708	0.98
139_E	143_T	0.704	0.98
355_H	393_R	0.703	0.98
80_I	83_L	0.695	0.97
149_K	152_K	0.693	0.97
205_M	280_I	0.693	0.97
167_E	171_E	0.692	0.97
283_G	299_A	0.692	0.97
281_A	319_F	0.690	0.97
373_V	383_H	0.690	0.97
126_F	129_A	0.689	0.97
45_I	151_V	0.688	0.97
219_Q	223_Y	0.687	0.97
112_R	117_I	0.685	0.97
146_M	149_K	0.685	0.97
395_S	400_I	0.685	0.97
115_I	119_K	0.684	0.97
223_Y	227_T	0.681	0.97
267_K	271_E	0.681	0.97
340_H	346_S	0.680	0.97
161_R	164_K	0.679	0.97
56_S	59_S	0.678	0.97
333_E	336_K	0.678	0.97
410_T	415_I	0.678	0.97
340_H	414_D	0.677	0.97
173_F	178_T	0.677	0.97
43_I	46_E	0.676	0.97
44_T	52_L	0.676	0.97
366_F	376_A	0.675	0.97
100_R	103_Q	0.673	0.97
170_Q	174_W	0.673	0.97
284_G	343_Y	0.670	0.97
76_P	80_I	0.669	0.97
280_I	316_L	0.668	0.97
381_N	384_V	0.667	0.97
297_Q	301_S	0.666	0.97
189_D	193_K	0.665	0.97
186_D	189_D	0.665	0.97
50_H	55_Y	0.662	0.97
143_T	153_N	0.661	0.97
359_M	390_R	0.661	0.97
368_E	416_K	0.659	0.96
141_L	148_A	0.658	0.96
126_F	130_L	0.658	0.96
172_F	194_L	0.657	0.96
341_Y	417_L	0.656	0.96
267_K	270_K	0.655	0.96
44_T	55_Y	0.654	0.96
146_M	153_N	0.653	0.96
123_V	126_F	0.653	0.96
42_P	56_S	0.652	0.96
376_A	382_I	0.649	0.96
226_E	230_Q	0.647	0.96
160_I	164_K	0.641	0.96
121_K	125_G	0.639	0.96
352_D	360_V	0.638	0.96
47_D	50_H	0.637	0.96
95_T	102_K	0.637	0.96
324_I	410_T	0.635	0.96
229_Q	232_Y	0.634	0.96
358_N	393_R	0.631	0.95
373_V	387_L	0.631	0.95
198_A	289_I	0.630	0.95
36_S	41_C	0.628	0.95
116_S	126_F	0.628	0.95
274_K	277_D	0.628	0.95
141_L	144_L	0.626	0.95
97_Q	101_V	0.625	0.95
385_N	409_F	0.625	0.95
294_R	297_Q	0.624	0.95
400_I	411_I	0.623	0.95
31_V	154_K	0.623	0.95
223_Y	228_T	0.623	0.95
46_E	52_L	0.621	0.95
79_V	86_D	0.619	0.95
406_N	410_T	0.618	0.95
94_K	99_I	0.618	0.95
339_G	342_N	0.616	0.95
182_H	186_D	0.616	0.95
151_V	155_L	0.616	0.95
112_R	116_S	0.616	0.95
78_K	82_K	0.614	0.95
334_K	338_A	0.614	0.95
328_L	409_F	0.612	0.95
31_V	36_S	0.611	0.95
87_G	96_D	0.610	0.95
159_Q	162_K	0.607	0.94
117_I	120_N	0.607	0.94
106_E	109_L	0.606	0.94
76_P	82_K	0.605	0.94
371_S	388_N	0.605	0.94
52_L	55_Y	0.604	0.94
45_I	54_A	0.601	0.94
338_A	342_N	0.601	0.94
348_L	397_I	0.601	0.94
177_L	296_Y	0.599	0.94
402_L	411_I	0.595	0.94
373_V	384_V	0.593	0.94
35_I	43_I	0.591	0.94
383_H	389_Y	0.590	0.94
43_I	112_R	0.588	0.93
35_I	143_T	0.588	0.93
46_E	51_K	0.585	0.93
42_P	54_A	0.584	0.93
115_I	148_A	0.584	0.93
35_I	38_V	0.583	0.93
283_G	302_V	0.583	0.93
323_G	343_Y	0.582	0.93
298_E	319_F	0.582	0.93
305_T	325_Y	0.581	0.93
413_L	416_K	0.581	0.93
84_W	87_G	0.580	0.93
42_P	45_I	0.578	0.93
296_Y	303_L	0.578	0.93
326_Q	336_K	0.576	0.93
169_S	194_L	0.575	0.93
108_G	198_A	0.574	0.93
222_Q	225_Q	0.573	0.93
109_L	398_A	0.573	0.93
362_T	386_T	0.572	0.93
50_H	54_A	0.571	0.92
115_I	144_L	0.571	0.92
161_R	165_N	0.571	0.92
96_D	102_K	0.570	0.92
52_L	58_H	0.569	0.92
405_V	409_F	0.569	0.92
383_H	388_N	0.568	0.92
102_K	107_V	0.568	0.92
112_R	124_L	0.563	0.92
205_M	247_T	0.563	0.92
146_M	176_M	0.563	0.92
27_R	42_P	0.563	0.92
50_H	53_L	0.562	0.92
164_K	168_R	0.562	0.92
297_Q	350_Q	0.562	0.92
279_S	314_K	0.562	0.92
172_F	176_M	0.560	0.92
117_I	127_I	0.559	0.92
147_A	151_V	0.558	0.92
215_E	320_S	0.557	0.92
167_E	170_Q	0.557	0.92
145_Q	153_N	0.556	0.91
151_V	154_K	0.555	0.91
143_T	146_M	0.555	0.91
50_H	60_D	0.554	0.91
203_S	234_L	0.552	0.91
210_N	307_E	0.552	0.91
341_Y	346_S	0.551	0.91
39_L	140_D	0.551	0.91
150_A	153_N	0.550	0.91
93_L	96_D	0.550	0.91
110_S	119_K	0.549	0.91
377_S	387_L	0.549	0.91
371_S	384_V	0.549	0.91
384_V	387_L	0.549	0.91
200_S	248_S	0.548	0.91
85_K	88_T	0.548	0.91
363_L	411_I	0.546	0.91
331_L	334_K	0.545	0.91
148_A	153_N	0.545	0.91
155_L	158_L	0.544	0.91
213_L	216_K	0.541	0.90
239_D	244_I	0.541	0.90
224_L	228_T	0.541	0.90
152_K	156_L	0.540	0.90
188_A	199_P	0.540	0.90
367_I	394_I	0.539	0.90
127_I	322_L	0.538	0.90
305_T	326_Q	0.537	0.90
301_S	332_N	0.535	0.90
189_D	192_H	0.534	0.90
84_W	88_T	0.533	0.90
305_T	309_F	0.533	0.90
205_M	262_A	0.532	0.90
100_R	141_L	0.532	0.90
266_Q	274_K	0.531	0.89
125_G	128_W	0.530	0.89
46_E	50_H	0.530	0.89
208_R	241_N	0.530	0.89
328_L	417_L	0.529	0.89
156_L	159_Q	0.529	0.89
111_N	131_E	0.529	0.89
171_E	408_K	0.528	0.89
132_I	136_L	0.527	0.89
110_S	130_L	0.526	0.89
142_L	385_N	0.526	0.89
265_T	272_R	0.526	0.89
322_L	325_Y	0.525	0.89
119_K	125_G	0.524	0.89
142_L	146_M	0.524	0.89
28_L	32_A	0.523	0.89
303_L	322_L	0.522	0.89
95_T	101_V	0.520	0.89
340_H	343_Y	0.519	0.88
268_Q	271_E	0.518	0.88
231_V	252_D	0.518	0.88
129_A	144_L	0.517	0.88
27_R	43_I	0.517	0.88
366_F	370_D	0.515	0.88
133_Q	140_D	0.515	0.88
139_E	142_L	0.513	0.88
372_N	385_N	0.513	0.88
176_M	187_M	0.513	0.88
78_K	102_K	0.512	0.88
100_R	274_K	0.511	0.88
118_W	145_Q	0.511	0.88
408_K	415_I	0.508	0.87
287_N	291_F	0.508	0.87
28_L	155_L	0.507	0.87
384_V	389_Y	0.507	0.87
265_T	269_L	0.507	0.87
301_S	304_K	0.507	0.87
382_I	390_R	0.506	0.87
400_I	404_N	0.506	0.87
214_T	224_L	0.504	0.87
302_V	317_F	0.504	0.87
176_M	198_A	0.502	0.87
36_S	46_E	0.502	0.87
112_R	115_I	0.501	0.87
176_M	231_V	0.500	0.87
131_E	140_D	0.500	0.87

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
3onqA	5	0.5972	100	0.473	Contact Map
2gx5A	2	0.3744	98.5	0.858	Contact Map
4eu0A	1	0.6161	97.3	0.894	Contact Map
2w1rA	2	0.2773	96.6	0.904	Contact Map
3e0yA	2	0.3412	96.4	0.906	Contact Map
3p01A	2	0.346	96.2	0.908	Contact Map
1mc0A	4	0.3697	96	0.909	Contact Map
3vv4A	2	0.3318	95.9	0.91	Contact Map
3ci6A	2	0.3483	95.8	0.91	Contact Map
2lb5A	1	0.3294	95.8	0.911	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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