BMRR - BACSU - GREMLIN Contacts

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BMRR - Multidrug-efflux transporter 1 regulator

UniProt:	P39075	Sequences: MKESYYSIGEVSKLANVSIKALRYYDKIDLFKPAYVDPDTSYRYYTDSQLIHLDLIKSLKYIGTPLEEMKKAQDLEMEELFAFYTEQERQIREKLDFLSALEQTISLVKKRMKRQMEYPALGEVFVLDEEEIRIIQTEAEGIGPENVLNASYSKLKKFIESADGFTNNSYGATFSFQPYTSIDEMTYRHIFTPVLTNKQISSITPDMEITTIPKGRYACIAYNFSPEHYFLNLQKLIKYIADRQLTVVSDVYELIIPIHYSPKKQEEYRVEMKIRIAE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	278 (259)
Sequences:	2408 (2064)
Seq/√Len:	128.2

BACSU - BMRR YDFL BLTR MTA

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
88_E	106_S	4.415	1.00
92_R	102_E	4.161	1.00
87_Q	90_Q	3.905	1.00
60_K	66_L	3.112	1.00
95_L	99_S	3.039	1.00
218_A	240_I	2.922	1.00
24_Y	28_I	2.710	1.00
26_D	32_K	2.701	1.00
127_L	271_E	2.687	1.00
37_D	40_T	2.607	1.00
19_I	23_R	2.570	1.00
94_K	97_F	2.559	1.00
222_Y	232_N	2.518	1.00
239_Y	243_R	2.452	1.00
238_K	242_D	2.413	1.00
128_D	216_R	2.361	1.00
88_E	102_E	2.308	1.00
171_G	191_F	2.287	1.00
28_I	66_L	2.238	1.00
240_I	247_V	2.196	1.00
131_E	211_T	2.195	1.00
131_E	214_K	2.167	1.00
264_K	267_E	2.146	1.00
94_K	98_L	2.132	1.00
218_A	239_Y	2.116	1.00
126_V	276_I	2.094	1.00
91_I	98_L	2.068	1.00
88_E	109_K	2.065	1.00
85_T	109_K	2.062	1.00
8_I	23_R	2.056	1.00
24_Y	66_L	2.048	1.00
233_L	253_E	2.043	1.00
7_S	10_E	2.031	1.00
34_A	49_Q	2.012	1.00
128_D	214_K	2.012	1.00
84_Y	105_I	1.987	1.00
53_L	57_K	1.982	1.00
20_K	27_K	1.946	1.00
29_D	32_K	1.942	1.00
239_Y	245_L	1.869	1.00
98_L	102_E	1.859	1.00
95_L	98_L	1.859	1.00
11_V	53_L	1.790	1.00
81_F	109_K	1.780	1.00
17_V	53_L	1.773	1.00
89_R	93_E	1.773	1.00
224_F	270_V	1.733	1.00
31_F	56_I	1.703	1.00
144_P	147_V	1.684	1.00
15_A	50_L	1.671	1.00
34_A	48_S	1.669	1.00
6_Y	47_D	1.656	1.00
95_L	102_E	1.646	1.00
91_I	101_L	1.640	1.00
91_I	102_E	1.614	1.00
15_A	53_L	1.609	1.00
34_A	46_T	1.606	1.00
76_E	79_E	1.595	1.00
21_A	24_Y	1.576	1.00
90_Q	94_K	1.537	1.00
57_K	60_K	1.533	1.00
35_Y	44_Y	1.520	1.00
85_T	113_K	1.511	1.00
220_I	232_N	1.425	1.00
255_I	270_V	1.420	1.00
37_D	44_Y	1.416	1.00
257_P	262_P	1.408	1.00
30_L	56_I	1.404	1.00
96_D	99_S	1.401	1.00
63_G	94_K	1.385	1.00
220_I	236_L	1.364	1.00
11_V	15_A	1.325	1.00
216_R	245_L	1.324	1.00
19_I	40_T	1.321	1.00
9_G	19_I	1.316	1.00
68_E	86_E	1.304	1.00
22_L	26_D	1.295	1.00
148_L	152_Y	1.292	1.00
24_Y	27_K	1.286	1.00
11_V	49_Q	1.278	1.00
22_L	28_I	1.276	1.00
176_F	180_T	1.257	1.00
138_E	187_Y	1.249	1.00
106_S	110_K	1.244	1.00
88_E	92_R	1.221	0.99
8_I	19_I	1.217	0.99
88_E	105_I	1.211	0.99
175_S	189_H	1.208	0.99
26_D	43_R	1.192	0.99
245_L	276_I	1.184	0.99
175_S	187_Y	1.176	0.99
12_S	15_A	1.167	0.99
56_I	69_M	1.164	0.99
46_T	49_Q	1.150	0.99
132_I	212_I	1.147	0.99
222_Y	228_H	1.131	0.99
6_Y	49_Q	1.118	0.99
32_K	36_V	1.116	0.99
84_Y	109_K	1.115	0.99
93_E	97_F	1.111	0.99
189_H	210_T	1.105	0.99
262_P	267_E	1.101	0.99
147_V	150_A	1.100	0.99
91_I	105_I	1.099	0.99
133_R	211_T	1.092	0.99
180_T	183_D	1.091	0.99
28_I	60_K	1.087	0.99
134_I	210_T	1.082	0.99
248_V	275_R	1.081	0.99
124_V	218_A	1.079	0.99
68_E	71_K	1.074	0.99
126_V	216_R	1.070	0.99
12_S	18_S	1.066	0.99
143_G	147_V	1.064	0.99
15_A	20_K	1.060	0.99
233_L	272_M	1.056	0.99
10_E	13_K	1.052	0.98
18_S	24_Y	1.046	0.98
6_Y	9_G	1.024	0.98
149_N	153_S	1.009	0.98
64_T	83_F	1.003	0.98
81_F	113_K	1.001	0.98
140_E	154_K	1.000	0.98
8_I	43_R	0.986	0.98
64_T	87_Q	0.985	0.98
253_E	270_V	0.984	0.98
8_I	12_S	0.978	0.98
171_G	174_F	0.974	0.97
109_K	113_K	0.972	0.97
92_R	95_L	0.970	0.97
8_I	40_T	0.969	0.97
60_K	63_G	0.968	0.97
12_S	19_I	0.968	0.97
130_E	214_K	0.960	0.97
17_V	21_A	0.959	0.97
98_L	101_L	0.954	0.97
189_H	192_T	0.953	0.97
79_E	82_A	0.950	0.97
218_A	245_L	0.950	0.97
7_S	44_Y	0.947	0.97
233_L	251_V	0.946	0.97
234_Q	238_K	0.944	0.97
188_R	191_F	0.942	0.97
22_L	31_F	0.939	0.97
20_K	24_Y	0.933	0.97
218_A	236_L	0.928	0.97
88_E	91_I	0.924	0.97
11_V	50_L	0.924	0.97
154_K	157_K	0.922	0.97
89_R	92_R	0.922	0.97
15_A	31_F	0.919	0.96
30_L	66_L	0.919	0.96
133_R	137_T	0.916	0.96
241_A	244_Q	0.914	0.96
18_S	21_A	0.910	0.96
219_C	273_K	0.908	0.96
151_S	154_K	0.903	0.96
22_L	45_Y	0.901	0.96
187_Y	192_T	0.900	0.96
132_I	193_P	0.892	0.96
132_I	273_K	0.889	0.96
188_R	193_P	0.884	0.96
236_L	274_I	0.880	0.95
247_V	274_I	0.880	0.95
36_V	49_Q	0.878	0.95
22_L	49_Q	0.877	0.95
226_P	270_V	0.873	0.95
64_T	72_A	0.871	0.95
174_F	188_R	0.870	0.95
90_Q	93_E	0.864	0.95
44_Y	49_Q	0.863	0.95
52_H	55_L	0.857	0.95
157_K	161_S	0.856	0.95
240_I	274_I	0.855	0.95
254_L	271_E	0.854	0.95
230_F	234_Q	0.846	0.94
60_K	69_M	0.845	0.94
20_K	23_R	0.845	0.94
103_Q	106_S	0.843	0.94
78_E	116_M	0.841	0.94
70_K	73_Q	0.841	0.94
86_E	89_R	0.840	0.94
65_P	68_E	0.840	0.94
9_G	23_R	0.834	0.94
171_G	175_S	0.829	0.94
68_E	87_Q	0.828	0.94
155_L	159_I	0.825	0.94
252_Y	273_K	0.823	0.94
238_K	241_A	0.821	0.93
61_Y	101_L	0.818	0.93
82_A	86_E	0.818	0.93
97_F	101_L	0.812	0.93
15_A	26_D	0.808	0.93
221_A	271_E	0.801	0.93
60_K	65_P	0.798	0.92
223_N	267_E	0.787	0.92
154_K	158_F	0.784	0.92
149_N	152_Y	0.782	0.92
222_Y	270_V	0.780	0.92
84_Y	88_E	0.779	0.92
87_Q	94_K	0.776	0.91
22_L	66_L	0.773	0.91
132_I	252_Y	0.766	0.91
251_V	274_I	0.765	0.91
159_I	192_T	0.759	0.90
70_K	74_D	0.752	0.90
151_S	155_L	0.749	0.90
141_G	145_E	0.746	0.90
25_Y	53_L	0.745	0.90
6_Y	64_T	0.742	0.89
7_S	26_D	0.742	0.89
85_T	89_R	0.741	0.89
11_V	17_V	0.738	0.89
26_D	60_K	0.738	0.89
136_Q	189_H	0.738	0.89
158_F	162_A	0.736	0.89
108_V	258_I	0.736	0.89
258_I	262_P	0.731	0.89
228_H	231_L	0.723	0.88
45_Y	69_M	0.719	0.88
257_P	269_R	0.718	0.88
259_H	268_Y	0.718	0.88
178_P	183_D	0.715	0.88
212_I	252_Y	0.710	0.87
174_F	179_Y	0.708	0.87
31_F	49_Q	0.701	0.87
40_T	49_Q	0.701	0.87
9_G	12_S	0.696	0.86
23_R	31_F	0.695	0.86
226_P	255_I	0.694	0.86
131_E	213_P	0.694	0.86
255_I	259_H	0.689	0.86
53_L	60_K	0.688	0.86
229_Y	233_L	0.685	0.85
99_S	102_E	0.684	0.85
8_I	108_V	0.682	0.85
127_L	219_C	0.681	0.85
218_A	276_I	0.669	0.84
143_G	186_T	0.668	0.84
15_A	24_Y	0.667	0.84
67_E	71_K	0.664	0.84
251_V	272_M	0.663	0.83
31_F	53_L	0.663	0.83
174_F	181_S	0.663	0.83
257_P	268_Y	0.661	0.83
63_G	87_Q	0.660	0.83
40_T	213_P	0.660	0.83
127_L	132_I	0.660	0.83
92_R	106_S	0.656	0.83
122_G	235_K	0.655	0.83
6_Y	11_V	0.648	0.82
92_R	96_D	0.648	0.82
92_R	99_S	0.647	0.82
175_S	183_D	0.647	0.82
156_K	192_T	0.647	0.82
106_S	235_K	0.641	0.81
96_D	100_A	0.639	0.81
178_P	181_S	0.637	0.81
125_F	219_C	0.635	0.81
26_D	31_F	0.635	0.81
110_K	114_R	0.631	0.80
87_Q	101_L	0.628	0.80
93_E	96_D	0.628	0.80
93_E	100_A	0.626	0.80
264_K	268_Y	0.626	0.80
58_S	170_Y	0.625	0.80
6_Y	50_L	0.625	0.80
179_Y	182_I	0.624	0.80
129_E	132_I	0.623	0.79
55_L	58_S	0.620	0.79
262_P	265_Q	0.620	0.79
225_S	270_V	0.617	0.79
19_I	24_Y	0.616	0.79
218_A	243_R	0.615	0.79
24_Y	60_K	0.615	0.79
258_I	268_Y	0.612	0.78
247_V	250_D	0.611	0.78
162_A	194_V	0.611	0.78
128_D	131_E	0.611	0.78
129_E	252_Y	0.606	0.78
53_L	273_K	0.605	0.77
126_V	239_Y	0.604	0.77
189_H	226_P	0.604	0.77
137_T	190_I	0.603	0.77
262_P	268_Y	0.602	0.77
18_S	66_L	0.601	0.77
15_A	54_D	0.601	0.77
30_L	59_L	0.600	0.77
259_H	262_P	0.600	0.77
149_N	156_K	0.597	0.77
192_T	195_L	0.596	0.76
133_R	209_I	0.596	0.76
52_H	74_D	0.595	0.76
220_I	235_K	0.595	0.76
255_I	258_I	0.591	0.76
237_I	274_I	0.588	0.75
82_A	238_K	0.586	0.75
19_I	26_D	0.584	0.75
9_G	13_K	0.584	0.75
23_R	40_T	0.583	0.75
10_E	190_I	0.583	0.75
26_D	36_V	0.582	0.75
72_A	83_F	0.582	0.75
96_D	167_N	0.578	0.74
144_P	148_L	0.577	0.74
40_T	44_Y	0.571	0.73
165_F	168_N	0.568	0.73
173_T	177_Q	0.568	0.73
262_P	269_R	0.568	0.73
260_Y	271_E	0.567	0.73
160_E	195_L	0.567	0.73
67_E	73_Q	0.566	0.73
66_L	87_Q	0.563	0.72
256_I	269_R	0.563	0.72
120_A	123_E	0.562	0.72
20_K	256_I	0.561	0.72
56_I	124_V	0.558	0.72
67_E	70_K	0.556	0.71
240_I	276_I	0.555	0.71
203_I	209_I	0.554	0.71
18_S	68_E	0.554	0.71
122_G	183_D	0.552	0.71
212_I	215_G	0.551	0.71
49_Q	56_I	0.551	0.71
49_Q	64_T	0.547	0.70
71_K	74_D	0.547	0.70
205_P	208_E	0.547	0.70
12_S	41_S	0.547	0.70
188_R	194_V	0.546	0.70
21_A	31_F	0.544	0.70
26_D	49_Q	0.543	0.70
111_R	169_S	0.543	0.70
226_P	268_Y	0.543	0.70
135_I	207_M	0.542	0.69
29_D	74_D	0.542	0.69
254_L	273_K	0.541	0.69
122_G	232_N	0.540	0.69
107_L	111_R	0.539	0.69
222_Y	253_E	0.538	0.69
252_Y	258_I	0.537	0.69
11_V	31_F	0.537	0.69
21_A	53_L	0.537	0.69
12_S	17_V	0.536	0.69
35_Y	71_K	0.535	0.68
41_S	45_Y	0.535	0.68
260_Y	267_E	0.534	0.68
6_Y	10_E	0.533	0.68
243_R	247_V	0.533	0.68
6_Y	44_Y	0.533	0.68
65_P	87_Q	0.530	0.68
129_E	134_I	0.529	0.68
19_I	31_F	0.526	0.67
121_L	140_E	0.526	0.67
149_N	276_I	0.525	0.67
33_P	49_Q	0.523	0.67
113_K	116_M	0.521	0.66
124_V	220_I	0.521	0.66
116_M	166_T	0.520	0.66
186_T	190_I	0.519	0.66
66_L	69_M	0.518	0.66
129_E	273_K	0.517	0.66
94_K	99_S	0.517	0.66
129_E	217_Y	0.515	0.66
82_A	113_K	0.515	0.66
75_L	79_E	0.513	0.65
142_I	148_L	0.512	0.65
173_T	240_I	0.510	0.65
222_Y	225_S	0.509	0.65
9_G	24_Y	0.509	0.65
250_D	276_I	0.508	0.65
203_I	206_D	0.506	0.64
249_S	276_I	0.506	0.64
138_E	189_H	0.505	0.64
249_S	275_R	0.505	0.64
14_L	191_F	0.505	0.64
21_A	207_M	0.505	0.64
54_D	217_Y	0.504	0.64
181_S	186_T	0.504	0.64
156_K	160_E	0.504	0.64
234_Q	248_V	0.504	0.64
122_G	229_Y	0.503	0.64
8_I	37_D	0.502	0.64
131_E	241_A	0.502	0.64
5_Y	46_T	0.502	0.64
69_M	138_E	0.502	0.64
207_M	211_T	0.501	0.63
16_N	41_S	0.500	0.63
178_P	186_T	0.500	0.63

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
1r8eA	2	0.9892	100	0.239	Contact Map
3gpvA	2	0.3957	99.9	0.542	Contact Map
3qaoA	2	0.5	99.9	0.544	Contact Map
1r8dA	2	0.3921	99.9	0.559	Contact Map
2vz4A	2	0.3597	99.9	0.563	Contact Map
3gp4A	4	0.4532	99.9	0.564	Contact Map
2zhgA	2	0.4281	99.9	0.567	Contact Map
3hh0A	4	0.4712	99.9	0.568	Contact Map
1q06A	2	0.4353	99.9	0.576	Contact Map
4ua1A	2	0.4281	99.9	0.59	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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