HEXR - ECOLI - GREMLIN Contacts

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HEXR - HTH-type transcriptional regulator HexR

UniProt:	P46118	Sequences: MNMLEKIQSQLEHLSKSERKVAEVILASPDNAIHSSIAAMALEANVSEPTVNRFCRSMDTRGFPDFKLHLAQSLANGTPYVNRNVNEDDSVESYTGKIFESAMATLDHVRHSLDKSAINRAVDLLTQAKKIAFFGLGSSAAVAHDAMNKFFRFNVPVVYSDDIVLQRMSCMNCSDGDVVVLISHTGRTKNLVELAQLARENDAMVIALTSAGTPLAREATLAITLDVPEDTDIYMPMVSRLAQLTVIDVLATGFTLRRGAKFRDNLKRVKEALKESRFDKQLLNLSDDR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12860
Length:	289 (258)
Sequences:	9118 (6366)
Seq/√Len:	396.3

ECOLI - HEXR YFHH RPIR MURR
BACSU - YBBH GLVR

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
129_K	176_G	4.509	1.00
207_A	219_A	3.703	1.00
196_Q	218_E	2.953	1.00
181_L	195_A	2.726	1.00
124_L	204_M	2.718	1.00
11_L	23_E	2.695	1.00
133_F	143_A	2.658	1.00
187_R	214_P	2.642	1.00
129_K	174_S	2.414	1.00
38_A	57_S	2.397	1.00
121_A	206_I	2.323	1.00
104_A	108_H	2.307	1.00
199_R	220_T	2.287	1.00
121_A	221_L	2.271	1.00
195_A	205_V	2.260	1.00
130_K	156_P	2.248	1.00
60_T	69_H	2.221	1.00
10_Q	13_H	2.126	1.00
129_K	177_D	2.113	1.00
28_S	31_N	2.077	1.00
122_V	253_G	2.055	1.00
146_A	150_F	2.046	1.00
236_P	239_S	2.037	1.00
179_V	198_A	2.034	1.00
123_D	257_R	1.973	1.00
197_L	200_E	1.961	1.00
173_C	203_A	1.955	1.00
103_M	107_D	1.933	1.00
174_S	177_D	1.914	1.00
23_E	27_A	1.882	1.00
24_V	28_S	1.839	1.00
182_I	247_I	1.807	1.00
114_D	117_A	1.793	1.00
130_K	158_V	1.793	1.00
126_T	257_R	1.790	1.00
204_M	220_T	1.785	1.00
143_A	182_I	1.758	1.00
178_V	206_I	1.755	1.00
133_F	146_A	1.747	1.00
195_A	215_L	1.719	1.00
181_L	191_L	1.719	1.00
124_L	221_L	1.716	1.00
182_I	208_L	1.695	1.00
128_A	178_V	1.692	1.00
150_F	254_F	1.641	1.00
198_A	203_A	1.637	1.00
133_F	180_V	1.620	1.00
18_E	57_S	1.595	1.00
22_A	54_F	1.577	1.00
204_M	221_L	1.564	1.00
65_D	68_L	1.564	1.00
40_M	53_R	1.547	1.00
183_S	215_L	1.533	1.00
35_S	43_E	1.532	1.00
68_L	71_A	1.512	1.00
123_D	127_Q	1.507	1.00
160_S	169_S	1.504	1.00
117_A	120_R	1.498	1.00
223_I	246_V	1.473	1.00
146_A	247_I	1.462	1.00
142_V	247_I	1.453	1.00
55_C	66_F	1.444	1.00
207_A	215_L	1.438	1.00
120_R	221_L	1.424	1.00
179_V	203_A	1.413	1.00
147_M	158_V	1.413	1.00
21_V	54_F	1.412	1.00
55_C	73_S	1.408	1.00
253_G	257_R	1.404	1.00
124_L	178_V	1.383	1.00
207_A	222_A	1.382	1.00
99_F	106_L	1.374	1.00
11_L	19_R	1.369	1.00
40_M	56_R	1.369	1.00
205_V	219_A	1.366	1.00
180_V	208_L	1.366	1.00
40_M	57_S	1.355	1.00
106_L	245_T	1.354	1.00
109_V	226_D	1.345	1.00
216_A	222_A	1.340	1.00
258_R	261_K	1.337	1.00
181_L	205_V	1.336	1.00
126_T	254_F	1.329	1.00
265_N	268_R	1.291	1.00
134_F	179_V	1.288	1.00
90_S	93_S	1.287	1.00
130_K	177_D	1.265	1.00
89_D	97_K	1.264	1.00
121_A	124_L	1.251	1.00
189_K	193_E	1.244	1.00
67_K	71_A	1.243	1.00
199_R	218_E	1.235	1.00
51_V	77_G	1.234	1.00
60_T	63_F	1.216	1.00
126_T	258_R	1.212	1.00
19_R	23_E	1.209	1.00
125_L	178_V	1.208	1.00
17_S	20_K	1.205	1.00
58_M	76_N	1.201	1.00
225_L	243_Q	1.196	1.00
17_S	50_T	1.180	1.00
193_E	196_Q	1.180	1.00
181_L	198_A	1.165	1.00
125_L	128_A	1.151	1.00
256_L	266_L	1.146	1.00
140_A	144_H	1.131	1.00
144_H	161_D	1.117	1.00
66_F	70_L	1.112	1.00
37_I	52_N	1.105	1.00
147_M	157_V	1.086	1.00
105_T	242_A	1.082	1.00
120_R	124_L	1.081	1.00
149_K	248_D	1.080	1.00
31_N	43_E	1.068	1.00
61_R	65_D	1.061	1.00
115_K	119_N	1.059	1.00
150_F	157_V	1.057	1.00
138_S	236_P	1.056	1.00
133_F	150_F	1.040	1.00
24_V	44_A	1.036	1.00
253_G	256_L	1.035	1.00
262_F	265_N	1.026	1.00
252_T	269_V	1.024	1.00
117_A	221_L	1.022	1.00
177_D	203_A	1.020	1.00
31_N	35_S	1.018	1.00
146_A	180_V	1.017	1.00
122_V	257_R	1.011	1.00
173_C	177_D	1.009	1.00
132_A	177_D	1.006	1.00
150_F	251_A	1.006	1.00
35_S	39_A	1.000	1.00
127_Q	204_M	0.995	1.00
11_L	22_A	0.992	1.00
21_V	44_A	0.982	1.00
69_H	72_Q	0.981	1.00
14_L	40_M	0.975	1.00
197_L	201_N	0.974	1.00
37_I	41_A	0.973	1.00
29_P	33_I	0.968	1.00
265_N	269_V	0.968	1.00
132_A	173_C	0.967	1.00
141_A	144_H	0.964	1.00
263_R	267_K	0.961	1.00
63_F	67_K	0.960	1.00
92_E	96_G	0.947	1.00
96_G	110_R	0.946	1.00
147_M	151_F	0.934	1.00
72_Q	75_A	0.934	1.00
216_A	224_T	0.932	1.00
125_L	254_F	0.931	1.00
125_L	180_V	0.930	1.00
109_V	225_L	0.927	1.00
20_K	52_N	0.925	1.00
132_A	158_V	0.921	1.00
131_I	178_V	0.917	1.00
124_L	127_Q	0.912	1.00
25_I	66_F	0.909	1.00
173_C	179_V	0.904	1.00
107_D	111_H	0.904	1.00
96_G	100_E	0.900	1.00
122_V	126_T	0.897	1.00
120_R	123_D	0.897	1.00
24_V	43_E	0.895	1.00
52_N	62_G	0.894	1.00
18_E	66_F	0.891	1.00
24_V	35_S	0.891	1.00
145_D	149_K	0.890	1.00
83_R	86_N	0.887	1.00
156_P	160_S	0.887	1.00
196_Q	200_E	0.882	1.00
192_V	214_P	0.880	1.00
103_M	106_L	0.877	1.00
123_D	126_T	0.874	1.00
119_N	257_R	0.874	1.00
59_D	62_G	0.868	1.00
152_R	170_C	0.861	1.00
104_A	107_D	0.860	1.00
40_M	63_F	0.859	1.00
264_D	267_K	0.859	1.00
125_L	131_I	0.859	1.00
198_A	205_V	0.856	1.00
133_F	147_M	0.855	1.00
68_L	72_Q	0.850	1.00
121_A	223_I	0.847	1.00
32_A	70_L	0.843	1.00
147_M	159_Y	0.839	1.00
167_R	193_E	0.839	1.00
15_S	18_E	0.838	1.00
140_A	159_Y	0.837	1.00
108_H	111_H	0.835	1.00
24_V	31_N	0.834	1.00
140_A	161_D	0.831	1.00
14_L	56_R	0.828	1.00
142_V	182_I	0.821	1.00
109_V	242_A	0.817	1.00
145_D	240_R	0.815	1.00
36_S	39_A	0.813	1.00
10_Q	14_L	0.812	1.00
116_S	119_N	0.810	1.00
33_I	36_S	0.809	1.00
208_L	247_I	0.806	1.00
60_T	66_F	0.802	1.00
209_T	216_A	0.800	1.00
14_L	57_S	0.800	1.00
117_A	121_A	0.799	1.00
201_N	268_R	0.796	1.00
38_A	48_E	0.794	1.00
30_D	34_H	0.791	1.00
211_A	224_T	0.788	1.00
55_C	62_G	0.785	1.00
20_K	45_N	0.785	1.00
178_V	204_M	0.785	1.00
130_K	174_S	0.780	1.00
49_P	52_N	0.778	1.00
221_L	224_T	0.775	1.00
133_F	157_V	0.774	1.00
55_C	70_L	0.773	1.00
17_S	56_R	0.772	1.00
95_T	115_K	0.769	1.00
50_T	53_R	0.763	1.00
192_V	196_Q	0.762	1.00
40_M	51_V	0.761	1.00
261_K	266_L	0.760	1.00
183_S	186_G	0.758	1.00
53_R	57_S	0.758	1.00
128_A	177_D	0.756	1.00
149_K	251_A	0.753	1.00
164_V	190_N	0.751	1.00
240_R	243_Q	0.743	1.00
91_V	100_E	0.742	1.00
34_H	37_I	0.739	1.00
74_L	77_G	0.737	1.00
124_L	128_A	0.736	1.00
33_I	71_A	0.736	1.00
69_H	73_S	0.735	1.00
132_A	179_V	0.734	1.00
131_I	180_V	0.732	1.00
15_S	57_S	0.731	1.00
129_K	156_P	0.730	1.00
180_V	206_I	0.728	1.00
264_D	268_R	0.720	1.00
181_L	194_L	0.720	1.00
127_Q	176_G	0.720	1.00
259_G	262_F	0.715	1.00
155_V	258_R	0.708	1.00
92_E	115_K	0.705	1.00
21_V	51_V	0.704	1.00
119_N	253_G	0.704	1.00
21_V	50_T	0.704	1.00
65_D	69_H	0.696	1.00
153_F	251_A	0.693	1.00
237_M	240_R	0.692	1.00
146_A	149_K	0.691	1.00
121_A	250_L	0.690	1.00
150_F	250_L	0.689	1.00
102_A	245_T	0.689	1.00
167_R	197_L	0.686	0.99
176_G	204_M	0.684	0.99
99_F	245_T	0.680	0.99
252_T	266_L	0.680	0.99
32_A	35_S	0.679	0.99
225_L	246_V	0.678	0.99
136_L	188_T	0.675	0.99
39_A	42_L	0.675	0.99
155_V	159_Y	0.675	0.99
54_F	58_M	0.674	0.99
144_H	147_M	0.673	0.99
135_G	139_S	0.671	0.99
93_S	96_G	0.663	0.99
192_V	215_L	0.662	0.99
195_A	218_E	0.662	0.99
25_I	54_F	0.654	0.99
187_R	210_S	0.650	0.99
261_K	265_N	0.644	0.99
263_R	266_L	0.642	0.99
157_V	160_S	0.642	0.99
251_A	255_T	0.641	0.99
58_M	72_Q	0.639	0.99
245_T	248_D	0.639	0.99
151_F	169_S	0.638	0.99
170_C	201_N	0.636	0.99
256_L	263_R	0.635	0.99
36_S	41_A	0.635	0.99
64_P	67_K	0.634	0.99
53_R	56_R	0.633	0.99
142_V	243_Q	0.627	0.99
108_H	112_S	0.625	0.99
112_S	226_D	0.623	0.99
142_V	244_L	0.620	0.99
48_E	52_N	0.614	0.99
136_L	190_N	0.614	0.99
131_I	155_V	0.613	0.99
213_T	216_A	0.612	0.99
207_A	213_T	0.611	0.99
225_L	242_A	0.611	0.99
209_T	222_A	0.611	0.99
242_A	245_T	0.610	0.99
209_T	213_T	0.610	0.99
135_G	140_A	0.609	0.99
22_A	26_L	0.609	0.99
102_A	248_D	0.605	0.99
113_L	118_I	0.605	0.99
94_Y	97_K	0.603	0.99
240_R	244_L	0.602	0.99
35_S	40_M	0.600	0.99
103_M	110_R	0.600	0.99
134_F	194_L	0.599	0.99
109_V	112_S	0.594	0.99
170_C	197_L	0.591	0.98
192_V	218_E	0.590	0.98
29_P	32_A	0.590	0.98
12_E	19_R	0.589	0.98
214_P	218_E	0.584	0.98
20_K	51_V	0.583	0.98
98_I	102_A	0.579	0.98
25_I	32_A	0.579	0.98
99_F	102_A	0.578	0.98
155_V	254_F	0.578	0.98
118_I	249_V	0.578	0.98
100_E	103_M	0.578	0.98
185_T	188_T	0.577	0.98
73_S	77_G	0.577	0.98
109_V	246_V	0.575	0.98
181_L	207_A	0.575	0.98
39_A	43_E	0.575	0.98
133_F	182_I	0.575	0.98
255_T	266_L	0.574	0.98
193_E	197_L	0.573	0.98
100_E	107_D	0.568	0.98
171_M	197_L	0.564	0.98
21_V	46_V	0.564	0.98
31_N	78_T	0.564	0.98
135_G	190_N	0.562	0.98
132_A	160_S	0.562	0.98
99_F	249_V	0.560	0.98
206_I	221_L	0.559	0.98
219_A	222_A	0.559	0.98
20_K	48_E	0.558	0.98
102_A	241_L	0.556	0.98
43_E	53_R	0.556	0.98
132_A	170_C	0.554	0.98
118_I	250_L	0.552	0.98
38_A	42_L	0.548	0.98
58_M	62_G	0.548	0.98
71_A	75_A	0.548	0.98
175_D	202_D	0.548	0.98
134_F	181_L	0.548	0.98
70_L	73_S	0.547	0.98
216_A	219_A	0.546	0.97
91_V	119_N	0.545	0.97
116_S	120_R	0.545	0.97
118_I	253_G	0.543	0.97
72_Q	76_N	0.542	0.97
146_A	251_A	0.540	0.97
144_H	159_Y	0.539	0.97
44_A	51_V	0.537	0.97
14_L	22_A	0.535	0.97
259_G	263_R	0.534	0.97
98_I	245_T	0.533	0.97
258_R	262_F	0.530	0.97
95_T	249_V	0.528	0.97
131_I	150_F	0.527	0.97
142_V	225_L	0.527	0.97
199_R	205_V	0.524	0.97
252_T	255_T	0.523	0.97
128_A	204_M	0.521	0.97
60_T	65_D	0.520	0.97
114_D	118_I	0.519	0.97
133_F	247_I	0.517	0.97
108_H	226_D	0.516	0.96
122_V	125_L	0.516	0.96
122_V	254_F	0.513	0.96
14_L	53_R	0.512	0.96
260_A	264_D	0.512	0.96
260_A	263_R	0.511	0.96
262_F	266_L	0.510	0.96
55_C	60_T	0.510	0.96
183_S	207_A	0.509	0.96
170_C	173_C	0.508	0.96
93_S	115_K	0.507	0.96
129_K	175_D	0.506	0.96
170_C	203_A	0.506	0.96
243_Q	247_I	0.506	0.96
110_R	245_T	0.506	0.96
18_E	21_V	0.505	0.96
20_K	46_V	0.500	0.96

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
4ivnA	2	0.91	100	0.213	Contact Map
3shoA	4	0.6401	100	0.558	Contact Map
2xhzA	4	0.5882	100	0.574	Contact Map
3fxaA	4	0.654	100	0.583	Contact Map
2pocA	4	0.6851	100	0.587	Contact Map
3etnA	4	0.6505	99.9	0.589	Contact Map
3tbfA	2	0.7024	99.9	0.596	Contact Map
1moqA	2	0.6955	99.9	0.597	Contact Map
1jeoA	4	0.5917	99.9	0.602	Contact Map
1m3sA	4	0.6125	99.9	0.602	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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