EUTR - ECOLI - GREMLIN Contacts

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EUTR - HTH-type transcriptional regulator eutR

UniProt:	P36547	Sequences: MKKTRTANLHHLYHEPLPENLKLTPKVEVDNVHQRQTTDVYEHALTITAWQQIYDQLHPGKFHGEFTEILLDDIQVFREYTGLALRQSCLVWPNSFWFGIPATRGEQGFIGSQCLGSAEIATRPGGTEFELSTPDDYTILGVVLSEDVITRQANFLHNPDRVLHMLRNQSALEVKEQHKAALWGFVQQALATFCENPENLHQPAVRKVLGDNLLMAMGAMLEEAQPMVTAESISHQSYRRLLSRAREYVLENMSEPVTVLDLCNQLHVSRRTLQNAFHAILGIGPNAWLKRIRLNAVRRELISPWSQSMTVKDAAMQWGFWHLGQFATDYQQLFSEKPSLTLHQRMREWG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12190
Length:	350 (274)
Sequences:	10372 (8451)
Seq/√Len:	510.5

ECOLI - EUTR FEAR YDIP RHAR YPDC RHAS YQHC RCLR CHBR YIJO ARAC MELR YBCM GADW ENVY YIDL APPY ADIY GADX YDEO YEAM
BACSU - YFIF YDEC YISR YBFI BTR YOBQ

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
252_N	255_E	4.198	1.00
294_L	334_F	3.972	1.00
250_L	292_I	3.496	1.00
291_R	333_L	3.327	1.00
248_Y	252_N	3.232	1.00
300_E	318_W	3.062	1.00
260_L	270_R	3.017	1.00
309_M	317_Q	3.001	1.00
296_A	299_R	2.922	1.00
249_V	289_L	2.782	1.00
255_E	261_D	2.654	1.00
300_E	317_Q	2.640	1.00
283_I	291_R	2.600	1.00
330_Y	341_T	2.550	1.00
298_R	334_F	2.549	1.00
268_V	273_L	2.492	1.00
277_F	288_W	2.409	1.00
248_Y	265_Q	2.402	1.00
268_V	272_T	2.275	1.00
298_R	341_T	2.226	1.00
247_E	251_E	2.193	1.00
258_T	261_D	2.182	1.00
336_E	344_Q	2.097	1.00
245_A	266_L	2.080	1.00
248_Y	257_V	2.072	1.00
272_T	275_N	2.049	1.00
249_V	292_I	1.955	1.00
296_A	300_E	1.946	1.00
312_K	323_L	1.923	1.00
245_A	273_L	1.911	1.00
253_M	292_I	1.906	1.00
309_M	313_D	1.878	1.00
301_L	311_V	1.852	1.00
259_V	274_Q	1.842	1.00
262_L	285_P	1.842	1.00
270_R	274_Q	1.816	1.00
272_T	276_A	1.801	1.00
296_A	318_W	1.800	1.00
310_T	313_D	1.789	1.00
313_D	317_Q	1.784	1.00
297_V	318_W	1.783	1.00
294_L	333_L	1.757	1.00
297_V	326_F	1.753	1.00
298_R	302_I	1.718	1.00
300_E	309_M	1.711	1.00
250_L	288_W	1.709	1.00
299_R	303_S	1.701	1.00
285_P	289_L	1.650	1.00
78_R	138_T	1.641	1.00
284_G	287_A	1.634	1.00
260_L	264_N	1.626	1.00
245_A	265_Q	1.619	1.00
105_G	114_C	1.616	1.00
271_R	275_N	1.606	1.00
283_I	287_A	1.595	1.00
245_A	262_L	1.563	1.00
325_Q	329_D	1.555	1.00
246_R	250_L	1.517	1.00
246_R	288_W	1.517	1.00
312_K	316_M	1.511	1.00
257_V	262_L	1.502	1.00
290_K	329_D	1.492	1.00
292_I	295_N	1.478	1.00
309_M	314_A	1.469	1.00
261_D	265_Q	1.468	1.00
103_T	138_T	1.455	1.00
248_Y	266_L	1.450	1.00
304_P	314_A	1.435	1.00
287_A	290_K	1.426	1.00
327_A	337_K	1.418	1.00
241_L	268_V	1.416	1.00
170_S	174_V	1.416	1.00
339_S	343_H	1.413	1.00
291_R	295_N	1.392	1.00
304_P	342_L	1.385	1.00
107_Q	114_C	1.384	1.00
208_V	211_D	1.377	1.00
288_W	292_I	1.359	1.00
323_L	327_A	1.346	1.00
295_N	333_L	1.337	1.00
313_D	316_M	1.335	1.00
183_W	187_Q	1.335	1.00
314_A	318_W	1.328	1.00
243_S	247_E	1.292	1.00
336_E	340_L	1.282	1.00
336_E	341_T	1.277	1.00
340_L	344_Q	1.261	1.00
337_K	340_L	1.260	1.00
105_G	116_G	1.249	1.00
241_L	266_L	1.238	1.00
246_R	281_L	1.226	1.00
294_L	326_F	1.189	1.00
245_A	277_F	1.188	1.00
252_N	265_Q	1.181	1.00
322_H	325_Q	1.180	1.00
109_F	130_E	1.178	1.00
111_G	127_T	1.176	1.00
304_P	309_M	1.174	1.00
269_S	272_T	1.172	1.00
249_V	257_V	1.170	1.00
249_V	262_L	1.169	1.00
294_L	320_F	1.152	1.00
253_M	296_A	1.148	1.00
249_V	288_W	1.148	1.00
311_V	314_A	1.141	1.00
286_N	290_K	1.138	1.00
102_A	140_L	1.132	1.00
304_P	308_S	1.129	1.00
295_N	298_R	1.127	1.00
298_R	336_E	1.126	1.00
110_I	113_Q	1.122	1.00
297_V	314_A	1.121	1.00
212_N	216_A	1.118	1.00
311_V	339_S	1.114	1.00
239_R	280_I	1.085	1.00
203_P	207_K	1.085	1.00
244_R	265_Q	1.080	1.00
242_L	276_A	1.076	1.00
329_D	332_Q	1.073	1.00
209_L	212_N	1.072	1.00
324_G	327_A	1.065	1.00
238_Y	279_A	1.064	1.00
292_I	296_A	1.062	1.00
320_F	329_D	1.059	1.00
262_L	265_Q	1.058	1.00
115_L	121_A	1.055	1.00
300_E	314_A	1.054	1.00
208_V	212_N	1.041	1.00
261_D	264_N	1.039	1.00
242_L	245_A	1.037	1.00
253_M	257_V	1.035	1.00
107_Q	132_S	1.034	1.00
116_G	119_E	1.034	1.00
215_M	219_A	1.029	1.00
187_Q	191_A	1.026	1.00
263_C	270_R	1.021	1.00
320_F	325_Q	1.020	1.00
259_V	270_R	1.016	1.00
254_S	296_A	1.016	1.00
273_L	285_P	1.010	1.00
314_A	342_L	1.007	1.00
163_L	167_R	0.996	1.00
295_N	334_F	0.988	1.00
327_A	339_S	0.983	1.00
145_S	148_V	0.981	1.00
101_P	106_E	0.978	1.00
257_V	261_D	0.976	1.00
328_T	332_Q	0.973	1.00
100_I	120_I	0.968	1.00
167_R	170_S	0.964	1.00
242_L	281_L	0.963	1.00
223_E	226_P	0.962	1.00
171_A	175_K	0.960	1.00
146_E	150_T	0.958	1.00
259_V	285_P	0.957	1.00
254_S	317_Q	0.955	1.00
124_P	127_T	0.954	1.00
239_R	243_S	0.950	1.00
274_Q	285_P	0.949	1.00
208_V	215_M	0.942	1.00
222_E	226_P	0.942	1.00
246_R	280_I	0.940	1.00
320_F	326_F	0.937	1.00
331_Q	337_K	0.933	1.00
184_G	188_Q	0.929	1.00
271_R	274_Q	0.926	1.00
144_L	147_D	0.920	1.00
287_A	291_R	0.920	1.00
286_N	289_L	0.913	1.00
181_A	185_F	0.908	1.00
252_N	257_V	0.896	1.00
276_A	279_A	0.883	1.00
101_P	123_R	0.882	1.00
293_R	318_W	0.882	1.00
171_A	174_V	0.882	1.00
302_I	345_R	0.877	1.00
277_F	285_P	0.869	1.00
325_Q	328_T	0.866	1.00
188_Q	192_T	0.865	1.00
297_V	300_E	0.860	1.00
170_S	173_E	0.856	1.00
184_G	187_Q	0.849	1.00
268_V	276_A	0.845	1.00
80_Y	138_T	0.839	1.00
315_A	323_L	0.837	1.00
334_F	341_T	0.834	1.00
278_H	284_G	0.834	1.00
295_N	299_R	0.834	1.00
150_T	153_A	0.829	1.00
300_E	303_S	0.829	1.00
289_L	293_R	0.826	1.00
173_E	176_E	0.825	1.00
301_L	314_A	0.824	1.00
172_L	176_E	0.824	1.00
298_R	330_Y	0.818	1.00
242_L	246_R	0.815	1.00
323_L	326_F	0.814	1.00
130_E	133_T	0.813	1.00
239_R	276_A	0.812	1.00
322_H	332_Q	0.808	1.00
125_G	128_E	0.804	1.00
192_T	219_A	0.796	1.00
144_L	151_R	0.785	1.00
144_L	149_I	0.783	1.00
248_Y	261_D	0.779	1.00
302_I	341_T	0.776	1.00
240_R	244_R	0.774	1.00
97_W	129_F	0.774	1.00
341_T	345_R	0.774	1.00
275_N	279_A	0.772	1.00
98_F	102_A	0.768	1.00
178_H	181_A	0.767	1.00
253_M	318_W	0.767	1.00
243_S	246_R	0.765	1.00
204_A	208_V	0.765	1.00
241_L	244_R	0.762	1.00
225_Q	229_T	0.761	1.00
249_V	285_P	0.756	1.00
99_G	125_G	0.756	1.00
191_A	195_E	0.755	1.00
192_T	196_N	0.753	1.00
253_M	289_L	0.753	1.00
245_A	248_Y	0.752	1.00
226_P	229_T	0.751	1.00
147_D	151_R	0.740	1.00
250_L	296_A	0.739	1.00
167_R	171_A	0.739	1.00
248_Y	262_L	0.736	1.00
150_T	154_N	0.733	1.00
219_A	222_E	0.733	1.00
245_A	249_V	0.728	1.00
244_R	266_L	0.727	1.00
259_V	263_C	0.727	1.00
245_A	268_V	0.726	1.00
276_A	280_I	0.720	1.00
192_T	195_E	0.719	1.00
241_L	276_A	0.718	1.00
244_R	247_E	0.717	1.00
290_K	325_Q	0.715	1.00
297_V	320_F	0.713	1.00
212_N	219_A	0.713	1.00
278_H	281_L	0.710	1.00
137_Y	143_V	0.704	1.00
327_A	331_Q	0.701	1.00
207_K	211_D	0.700	1.00
181_A	184_G	0.695	1.00
83_L	88_S	0.691	1.00
246_R	277_F	0.690	1.00
315_A	320_F	0.689	1.00
286_N	325_Q	0.681	1.00
232_S	235_H	0.679	1.00
185_F	189_A	0.678	1.00
290_K	332_Q	0.677	1.00
202_Q	206_R	0.676	1.00
184_G	191_A	0.675	1.00
311_V	323_L	0.674	1.00
262_L	266_L	0.673	1.00
257_V	289_L	0.671	1.00
132_S	135_D	0.669	1.00
169_Q	172_L	0.669	1.00
340_L	343_H	0.669	1.00
205_V	212_N	0.665	1.00
211_D	215_M	0.665	1.00
274_Q	284_G	0.664	1.00
153_A	156_L	0.662	1.00
150_T	155_F	0.661	1.00
108_G	121_A	0.661	1.00
216_A	221_L	0.661	1.00
91_V	129_F	0.657	1.00
316_M	323_L	0.657	1.00
242_L	268_V	0.656	1.00
152_Q	156_L	0.656	1.00
124_P	128_E	0.655	1.00
321_W	325_Q	0.654	1.00
242_L	266_L	0.651	1.00
97_W	101_P	0.650	1.00
181_A	191_A	0.649	1.00
281_L	288_W	0.648	1.00
152_Q	157_H	0.648	1.00
98_F	122_T	0.647	1.00
212_N	215_M	0.646	1.00
256_P	261_D	0.645	1.00
205_V	209_L	0.645	1.00
151_R	154_N	0.644	1.00
168_N	172_L	0.641	1.00
221_L	224_A	0.640	1.00
259_V	286_N	0.639	1.00
177_Q	181_A	0.639	1.00
131_L	134_P	0.638	1.00
181_A	188_Q	0.638	1.00
119_E	173_E	0.635	1.00
103_T	117_S	0.635	1.00
96_F	101_P	0.634	1.00
274_Q	278_H	0.633	1.00
274_Q	286_N	0.633	1.00
283_I	288_W	0.633	1.00
240_R	243_S	0.630	1.00
301_L	342_L	0.629	1.00
242_L	280_I	0.628	1.00
206_R	209_L	0.628	1.00
287_A	333_L	0.625	1.00
316_M	321_W	0.624	1.00
216_A	220_M	0.624	1.00
65_E	80_Y	0.623	1.00
153_A	157_H	0.622	1.00
266_L	273_L	0.622	1.00
210_G	217_M	0.622	1.00
96_F	102_A	0.621	1.00
330_Y	336_E	0.619	1.00
236_Q	239_R	0.618	1.00
321_W	326_F	0.617	1.00
322_H	328_T	0.617	1.00
138_T	141_G	0.616	1.00
109_F	112_S	0.615	1.00
326_F	330_Y	0.612	1.00
103_T	123_R	0.611	1.00
185_F	188_Q	0.607	1.00
73_D	210_G	0.607	1.00
326_F	334_F	0.605	1.00
210_G	215_M	0.605	1.00
142_V	145_S	0.602	0.99
273_L	281_L	0.599	0.99
262_L	289_L	0.599	0.99
246_R	292_I	0.595	0.99
85_L	193_F	0.595	0.99
120_I	124_P	0.593	0.99
324_G	328_T	0.591	0.99
124_P	146_E	0.591	0.99
259_V	289_L	0.590	0.99
301_L	304_P	0.590	0.99
311_V	326_F	0.587	0.99
256_P	321_W	0.584	0.99
244_R	248_Y	0.584	0.99
176_E	179_K	0.582	0.99
229_T	233_I	0.582	0.99
310_T	314_A	0.580	0.99
184_G	192_T	0.578	0.99
98_F	101_P	0.577	0.99
294_L	298_R	0.574	0.99
111_G	130_E	0.572	0.99
180_A	183_W	0.570	0.99
172_L	175_K	0.569	0.99
278_H	287_A	0.568	0.99
96_F	99_G	0.567	0.99
106_E	131_L	0.565	0.99
149_I	153_A	0.564	0.99
169_Q	173_E	0.564	0.99
90_L	94_N	0.563	0.99
96_F	100_I	0.562	0.99
242_L	288_W	0.562	0.99
182_L	185_F	0.561	0.99
84_A	88_S	0.561	0.99
125_G	129_F	0.560	0.99
180_A	184_G	0.556	0.99
84_A	87_Q	0.554	0.99
93_P	129_F	0.550	0.99
146_E	153_A	0.550	0.99
197_P	223_E	0.548	0.99
251_E	265_Q	0.546	0.99
94_N	146_E	0.545	0.99
149_I	152_Q	0.545	0.99
301_L	341_T	0.544	0.99
178_H	184_G	0.543	0.99
152_Q	155_F	0.543	0.99
102_A	105_G	0.542	0.99
281_L	284_G	0.540	0.99
188_Q	196_N	0.539	0.99
219_A	223_E	0.538	0.99
64_G	68_E	0.537	0.99
207_K	210_G	0.537	0.99
225_Q	230_A	0.536	0.99
253_M	262_L	0.535	0.99
109_F	132_S	0.534	0.99
181_A	193_F	0.532	0.99
121_A	125_G	0.530	0.99
181_A	196_N	0.528	0.99
275_N	278_H	0.528	0.99
182_L	213_L	0.527	0.99
290_K	333_L	0.523	0.99
101_P	115_L	0.522	0.99
121_A	124_P	0.522	0.99
84_A	89_C	0.520	0.99
173_E	179_K	0.520	0.99
171_A	176_E	0.520	0.99
218_G	221_L	0.519	0.98
236_Q	240_R	0.518	0.98
263_C	266_L	0.517	0.98
148_V	153_A	0.516	0.98
151_R	156_L	0.516	0.98
271_R	278_H	0.516	0.98
177_Q	180_A	0.516	0.98
163_L	166_L	0.515	0.98
247_E	250_L	0.515	0.98
105_G	134_P	0.515	0.98
181_A	190_L	0.515	0.98
146_E	149_I	0.514	0.98
176_E	181_A	0.512	0.98
99_G	123_R	0.512	0.98
140_L	143_V	0.511	0.98
141_G	144_L	0.511	0.98
145_S	149_I	0.511	0.98
123_R	131_L	0.508	0.98
67_T	78_R	0.508	0.98
134_P	137_Y	0.506	0.98
73_D	145_S	0.506	0.98
168_N	171_A	0.506	0.98
81_T	85_L	0.506	0.98
257_V	265_Q	0.504	0.98
308_S	342_L	0.503	0.98
123_R	137_Y	0.500	0.98
304_P	317_Q	0.500	0.98

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
3gbgA	1	0.7143	100	0.403	Contact Map
3oioA	1	0.32	100	0.557	Contact Map
1bl0A	1	0.3143	100	0.558	Contact Map
3oouA	1	0.3	100	0.56	Contact Map
3mn2A	1	0.3029	100	0.562	Contact Map
3w6vA	1	0.3114	100	0.565	Contact Map
3mklA	1	0.3171	100	0.565	Contact Map
2k9sA	1	0.3029	100	0.569	Contact Map
3lsgA	2	0.2914	100	0.576	Contact Map
1d5yA	1	0.3143	99.9	0.581	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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