BGLG - ECOLI - GREMLIN Contacts

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BGLG - Cryptic beta-glucoside bgl operon antiterminator

UniProt:	P11989	Sequences: MNMQITKILNNNVVVVIDDQQREKVVMGRGIGFQKRAGERINSSGIEKEYALSSHELNGRLSELLSHIPLEVMATCDRIISLAQERLGKLQDSIYISLTDHCQFAIKRFQQNVLLPNPLLWDIQRLYPKEFQLGEEALTIIDKRLGVQLPKDEVGFIAMHLVSAQMSGNMEDVAGVTQLMREMLQLIKFQFSLNYQEESLSYQRLVTHLKFLSWRILEHASINDSDESLQQAVKQNYPQAWQCAERIAIFIGLQYQRKISPAEIMFLAINIERVRKEH	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10116
Length:	278 (263)
Sequences:	3759 (3231)
Seq/√Len:	199.2

ECOLI - BGLG FRVR CSIE
BACSU - LICT SACT GLCT MANR SACY MTLR LICR

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
142_D	148_Q	4.435	1.00
86_R	136_E	3.901	1.00
230_Q	265_M	2.995	1.00
190_Q	246_R	2.853	1.00
188_K	194_N	2.839	1.00
252_G	258_K	2.838	1.00
40_R	44_S	2.799	1.00
234_K	241_W	2.721	1.00
107_K	111_Q	2.672	1.00
240_A	272_E	2.648	1.00
234_K	261_P	2.642	1.00
182_E	254_Q	2.527	1.00
244_A	268_A	2.450	1.00
78_R	144_R	2.394	1.00
135_E	154_V	2.359	1.00
44_S	47_E	2.274	1.00
9_L	15_V	2.266	1.00
29_R	33_F	2.234	1.00
9_L	17_I	2.131	1.00
42_N	45_G	2.114	1.00
187_I	205_L	2.097	1.00
39_E	43_S	2.079	1.00
16_V	24_K	2.046	1.00
43_S	49_E	2.025	1.00
23_E	35_K	2.002	1.00
215_R	263_E	1.998	1.00
79_I	137_A	1.998	1.00
186_L	250_F	1.991	1.00
40_R	43_S	1.980	1.00
101_H	160_H	1.949	1.00
39_E	45_G	1.923	1.00
22_R	26_V	1.891	1.00
82_L	140_I	1.874	1.00
43_S	47_E	1.832	1.00
219_H	257_R	1.826	1.00
248_A	264_I	1.825	1.00
40_R	45_G	1.808	1.00
245_E	261_P	1.790	1.00
244_A	264_I	1.747	1.00
40_R	47_E	1.742	1.00
240_A	244_A	1.704	1.00
9_L	13_V	1.702	1.00
120_L	155_G	1.697	1.00
82_L	136_E	1.676	1.00
39_E	44_S	1.666	1.00
41_I	44_S	1.634	1.00
181_R	202_Y	1.633	1.00
187_I	271_I	1.623	1.00
240_A	271_I	1.621	1.00
9_L	14_V	1.582	1.00
198_E	274_V	1.581	1.00
249_I	252_G	1.562	1.00
232_A	236_N	1.551	1.00
191_F	243_C	1.540	1.00
135_E	151_K	1.520	1.00
132_Q	135_E	1.510	1.00
227_E	265_M	1.487	1.00
26_V	29_R	1.484	1.00
109_F	149_L	1.483	1.00
12_N	15_V	1.478	1.00
109_F	150_P	1.460	1.00
138_L	142_D	1.455	1.00
10_N	18_D	1.449	1.00
185_Q	189_F	1.437	1.00
244_A	248_A	1.436	1.00
45_G	49_E	1.431	1.00
184_L	202_Y	1.419	1.00
245_E	264_I	1.414	1.00
187_I	243_C	1.402	1.00
83_A	137_A	1.399	1.00
248_A	267_L	1.399	1.00
242_Q	245_E	1.398	1.00
201_S	274_V	1.388	1.00
213_S	217_L	1.381	1.00
183_M	247_I	1.365	1.00
44_S	49_E	1.363	1.00
138_L	154_V	1.338	1.00
97_S	160_H	1.323	1.00
72_V	76_C	1.311	1.00
43_S	46_I	1.306	1.00
134_G	154_V	1.299	1.00
195_Y	271_I	1.290	1.00
208_H	270_N	1.274	1.00
22_R	33_F	1.271	1.00
212_L	216_I	1.266	1.00
27_M	33_F	1.234	1.00
233_V	268_A	1.229	1.00
83_A	133_L	1.221	1.00
97_S	101_H	1.201	1.00
223_N	262_A	1.191	1.00
75_T	145_L	1.171	1.00
222_I	266_F	1.169	1.00
48_K	52_L	1.162	1.00
228_S	262_A	1.161	1.00
150_P	153_E	1.160	1.00
22_R	29_R	1.158	1.00
230_Q	261_P	1.158	1.00
39_E	47_E	1.154	1.00
241_W	268_A	1.154	1.00
131_F	154_V	1.144	1.00
212_L	259_I	1.144	1.00
69_P	72_V	1.142	1.00
82_L	86_R	1.141	1.00
106_I	110_Q	1.129	1.00
84_Q	90_L	1.127	1.00
79_I	83_A	1.127	1.00
209_L	212_L	1.125	1.00
245_E	249_I	1.123	1.00
202_Y	206_V	1.108	1.00
80_I	99_T	1.105	1.00
75_T	144_R	1.101	1.00
244_A	247_I	1.088	1.00
93_S	97_S	1.083	1.00
130_E	158_A	1.081	1.00
39_E	49_E	1.078	1.00
231_Q	235_Q	1.077	1.00
131_F	158_A	1.067	1.00
136_E	139_T	1.065	1.00
187_I	244_A	1.061	1.00
241_W	261_P	1.031	1.00
178_Q	254_Q	1.028	1.00
142_D	145_L	1.028	1.00
212_L	260_S	1.018	1.00
180_M	206_V	1.014	1.00
262_A	265_M	0.989	1.00
176_V	213_S	0.977	1.00
14_V	17_I	0.976	0.99
180_M	183_M	0.975	0.99
102_C	157_I	0.975	0.99
134_G	158_A	0.971	0.99
244_A	267_L	0.969	0.99
18_D	22_R	0.968	0.99
244_A	271_I	0.968	0.99
195_Y	274_V	0.967	0.99
248_A	259_I	0.966	0.99
72_V	103_Q	0.964	0.99
87_L	136_E	0.963	0.99
15_V	18_D	0.957	0.99
74_A	77_D	0.955	0.99
102_C	141_I	0.954	0.99
76_C	80_I	0.952	0.99
135_E	139_T	0.950	0.99
139_T	148_Q	0.950	0.99
141_I	149_L	0.946	0.99
30_G	33_F	0.945	0.99
31_I	38_G	0.940	0.99
84_Q	87_L	0.939	0.99
83_A	161_L	0.938	0.99
114_L	150_P	0.937	0.99
251_I	255_Y	0.936	0.99
24_K	29_R	0.936	0.99
230_Q	241_W	0.934	0.99
212_L	215_R	0.934	0.99
75_T	140_I	0.932	0.99
227_E	262_A	0.929	0.99
161_L	165_Q	0.928	0.99
241_W	245_E	0.928	0.99
94_I	164_A	0.925	0.99
131_F	155_G	0.925	0.99
95_Y	99_T	0.924	0.99
30_G	42_N	0.922	0.99
134_G	137_A	0.911	0.99
106_I	149_L	0.908	0.99
205_L	267_L	0.906	0.99
14_V	32_G	0.902	0.99
186_L	189_F	0.895	0.99
247_I	271_I	0.894	0.99
182_E	250_F	0.887	0.99
41_I	45_G	0.887	0.99
76_C	102_C	0.884	0.99
77_D	95_Y	0.882	0.99
77_D	96_I	0.881	0.99
265_M	268_A	0.880	0.99
41_I	47_E	0.878	0.99
26_V	33_F	0.875	0.99
240_A	268_A	0.871	0.99
128_P	131_F	0.870	0.99
74_A	78_R	0.866	0.99
43_S	48_K	0.861	0.99
120_L	156_F	0.853	0.99
186_L	247_I	0.849	0.99
126_L	151_K	0.849	0.99
247_I	250_F	0.843	0.99
79_I	140_I	0.843	0.99
207_T	211_F	0.842	0.99
13_V	17_I	0.841	0.98
250_F	254_Q	0.840	0.98
44_S	48_K	0.839	0.98
28_G	33_F	0.839	0.98
75_T	79_I	0.834	0.98
188_K	195_Y	0.833	0.98
164_A	212_L	0.830	0.98
180_M	209_L	0.830	0.98
103_Q	107_K	0.830	0.98
40_R	46_I	0.829	0.98
138_L	141_I	0.828	0.98
187_I	191_F	0.823	0.98
173_V	177_T	0.816	0.98
170_M	173_V	0.815	0.98
72_V	106_I	0.815	0.98
137_A	140_I	0.808	0.98
186_L	190_Q	0.807	0.98
158_A	162_V	0.805	0.98
35_K	39_E	0.805	0.98
228_S	236_N	0.805	0.98
243_C	247_I	0.805	0.98
232_A	235_Q	0.798	0.98
138_L	157_I	0.793	0.98
11_N	18_D	0.793	0.98
183_M	271_I	0.789	0.98
41_I	49_E	0.789	0.98
190_Q	243_C	0.789	0.98
272_E	275_R	0.787	0.98
12_N	159_M	0.787	0.98
81_S	84_Q	0.782	0.98
131_F	135_E	0.781	0.98
129_K	132_Q	0.778	0.98
13_V	18_D	0.776	0.97
81_S	95_Y	0.772	0.97
270_N	273_R	0.771	0.97
182_E	185_Q	0.764	0.97
239_Q	244_A	0.759	0.97
123_I	155_G	0.754	0.97
216_I	257_R	0.750	0.97
136_E	140_I	0.748	0.97
204_R	273_R	0.747	0.97
39_E	46_I	0.744	0.97
107_K	110_Q	0.736	0.97
71_E	144_R	0.735	0.96
254_Q	257_R	0.734	0.96
77_D	81_S	0.732	0.96
213_S	255_Y	0.731	0.96
110_Q	146_G	0.730	0.96
242_Q	246_R	0.730	0.96
59_G	62_S	0.729	0.96
201_S	205_L	0.728	0.96
211_F	214_W	0.728	0.96
137_A	161_L	0.726	0.96
230_Q	262_A	0.724	0.96
82_L	133_L	0.723	0.96
68_I	103_Q	0.719	0.96
213_S	257_R	0.717	0.96
11_N	15_V	0.715	0.96
153_E	266_F	0.715	0.96
188_K	198_E	0.715	0.96
72_V	75_T	0.714	0.96
142_D	149_L	0.710	0.96
17_I	21_Q	0.709	0.96
239_Q	242_Q	0.709	0.96
101_H	105_A	0.708	0.96
233_V	265_M	0.707	0.96
240_A	275_R	0.703	0.95
249_I	253_L	0.703	0.95
45_G	48_K	0.702	0.95
228_S	232_A	0.700	0.95
41_I	48_K	0.698	0.95
87_L	133_L	0.693	0.95
179_L	183_M	0.692	0.95
45_G	108_R	0.691	0.95
25_V	29_R	0.691	0.95
184_L	201_S	0.687	0.95
141_I	145_L	0.684	0.95
237_Y	272_E	0.683	0.95
85_E	88_G	0.681	0.95
117_N	155_G	0.680	0.95
105_A	109_F	0.679	0.95
87_L	90_L	0.679	0.95
115_L	153_E	0.677	0.94
204_R	274_V	0.674	0.94
183_M	250_F	0.674	0.94
76_C	99_T	0.671	0.94
108_R	156_F	0.666	0.94
208_H	266_F	0.665	0.94
33_F	36_R	0.664	0.94
241_W	244_A	0.664	0.94
27_M	32_G	0.663	0.94
70_L	74_A	0.662	0.94
83_A	140_I	0.662	0.94
210_K	214_W	0.656	0.94
266_F	270_N	0.650	0.93
179_L	255_Y	0.649	0.93
46_I	50_Y	0.648	0.93
215_R	222_I	0.647	0.93
74_A	144_R	0.644	0.93
252_G	255_Y	0.639	0.93
191_F	247_I	0.639	0.93
24_K	33_F	0.639	0.93
233_V	269_I	0.638	0.93
152_D	155_G	0.636	0.92
80_I	137_A	0.636	0.92
109_F	153_E	0.635	0.92
191_F	195_Y	0.628	0.92
204_R	270_N	0.628	0.92
176_V	206_V	0.625	0.92
214_W	218_E	0.624	0.92
185_Q	188_K	0.624	0.92
14_V	26_V	0.623	0.92
87_L	130_E	0.623	0.92
180_M	184_L	0.620	0.91
118_P	159_M	0.620	0.91
245_E	248_A	0.617	0.91
46_I	49_E	0.616	0.91
251_I	257_R	0.615	0.91
230_Q	234_K	0.615	0.91
21_Q	24_K	0.614	0.91
130_E	159_M	0.614	0.91
241_W	264_I	0.614	0.91
54_S	57_L	0.613	0.91
16_V	26_V	0.611	0.91
177_T	206_V	0.610	0.91
25_V	28_G	0.608	0.91
10_N	13_V	0.607	0.91
184_L	271_I	0.605	0.90
81_S	85_E	0.604	0.90
110_Q	139_T	0.601	0.90
10_N	19_D	0.600	0.90
101_H	153_E	0.600	0.90
93_S	164_A	0.598	0.90
26_V	30_G	0.597	0.90
78_R	82_L	0.591	0.89
90_L	94_I	0.588	0.89
134_G	161_L	0.587	0.89
186_L	246_R	0.586	0.89
140_I	143_K	0.585	0.89
116_P	152_D	0.585	0.89
79_I	82_L	0.583	0.89
179_L	209_L	0.583	0.89
185_Q	196_Q	0.581	0.89
184_L	187_I	0.581	0.89
212_L	270_N	0.580	0.89
178_Q	182_E	0.580	0.89
227_E	233_V	0.578	0.88
227_E	231_Q	0.577	0.88
184_L	188_K	0.577	0.88
25_V	46_I	0.574	0.88
38_G	41_I	0.574	0.88
195_Y	201_S	0.572	0.88
21_Q	26_V	0.571	0.88
128_P	158_A	0.571	0.88
122_D	127_Y	0.570	0.88
222_I	262_A	0.569	0.88
181_R	185_Q	0.569	0.88
104_F	108_R	0.567	0.87
183_M	244_A	0.565	0.87
91_Q	165_Q	0.564	0.87
234_K	268_A	0.561	0.87
90_L	161_L	0.561	0.87
49_E	52_L	0.561	0.87
135_E	148_Q	0.560	0.87
163_S	211_F	0.557	0.87
79_I	141_I	0.552	0.86
131_F	151_K	0.548	0.86
216_I	260_S	0.546	0.85
172_D	175_G	0.545	0.85
200_L	204_R	0.545	0.85
231_Q	234_K	0.544	0.85
232_A	237_Y	0.542	0.85
109_F	114_L	0.542	0.85
191_F	194_N	0.537	0.84
76_C	79_I	0.533	0.84
156_F	228_S	0.532	0.84
117_N	123_I	0.531	0.84
228_S	265_M	0.529	0.84
234_K	237_Y	0.529	0.84
72_V	110_Q	0.528	0.83
108_R	153_E	0.528	0.83
54_S	58_N	0.528	0.83
128_P	162_V	0.528	0.83
86_R	132_Q	0.523	0.83
227_E	264_I	0.522	0.83
125_R	131_F	0.521	0.83
122_D	151_K	0.520	0.83
83_A	136_E	0.520	0.83
23_E	26_V	0.519	0.82
68_I	72_V	0.518	0.82
83_A	87_L	0.517	0.82
106_I	141_I	0.516	0.82
244_A	257_R	0.516	0.82
26_V	31_I	0.516	0.82
203_Q	211_F	0.514	0.82
90_L	93_S	0.513	0.82
157_I	160_H	0.513	0.82
56_E	73_M	0.513	0.82
117_N	120_L	0.512	0.82
154_V	158_A	0.510	0.81
131_F	162_V	0.506	0.81
176_V	180_M	0.506	0.81
207_T	262_A	0.505	0.81
63_E	66_S	0.504	0.81
241_W	272_E	0.503	0.80
141_I	147_V	0.503	0.80
140_I	144_R	0.503	0.80
210_K	257_R	0.501	0.80
243_C	246_R	0.500	0.80

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
4r6iA	2	0.9676	100	0.321	Contact Map
1h99A	2	0.7878	100	0.37	Contact Map
3sqnA	2	0.9317	100	0.434	Contact Map
3rioA	1	0.5971	99.9	0.593	Contact Map
3ufeA	2	0.3849	99.8	0.67	Contact Map
3nufA	2	0.4137	95.5	0.889	Contact Map
1auuA	2	0.1978	74.8	0.924	Contact Map
1l1cA	2	0.1978	72.9	0.925	Contact Map
2l0kA	1	0.2338	16.1	0.95	Contact Map
4h0eA	2	0.1367	14	0.951	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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