LRGB - BACSU - GREMLIN Contacts

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LRGB - Antiholin-like protein LrgB

UniProt:	P94516	Sequences: MESTMSPYFGIVVSLAAFGIGTFLFKKTKGFFLFTPLFVAMVLGIAFLKIGGFSYADYNNGGEIIKFFLEPATIAFAIPLYKQRDKLKKYWWQIMASIIAGSICSVTIVYLLAKGIHLDSAVMKSMLPQAATTAIALPLSKGIGGISDITAFAVIFNAVIVYALGALFLKVFKVKNPISKGLALGTSGHALGVAVGIEMGEVEAAMASIAVVVVGVVTVLVIPVFVQLIGG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	231 (220)
Sequences:	1921 (1343)
Seq/√Len:	90.5

ECOLI - YOHK
BACSU - LRGB YXAC YWBG

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
135_I	215_G	5.560	1.00
136_A	154_V	4.902	1.00
138_P	141_K	4.163	1.00
140_S	150_T	3.662	1.00
128_P	140_S	3.231	1.00
177_P	200_G	3.149	1.00
14_S	58_Y	3.083	1.00
165_G	184_L	3.057	1.00
184_L	196_G	3.054	1.00
161_V	188_G	2.752	1.00
17_A	43_L	2.656	1.00
131_A	139_L	2.489	1.00
193_V	207_A	2.458	1.00
195_V	198_E	2.317	1.00
170_K	180_K	2.285	1.00
113_A	118_L	2.246	1.00
165_G	169_L	2.148	1.00
113_A	123_M	2.050	1.00
17_A	40_A	2.029	1.00
39_V	43_L	1.958	1.00
23_F	27_K	1.917	1.00
21_G	39_V	1.904	1.00
200_G	203_E	1.847	1.00
169_L	184_L	1.842	1.00
180_K	203_E	1.832	1.00
125_S	145_G	1.771	1.00
124_K	143_I	1.771	1.00
59_N	66_K	1.738	1.00
21_G	40_A	1.733	1.00
125_S	146_I	1.724	1.00
102_S	214_V	1.721	1.00
100_A	104_C	1.705	1.00
46_A	50_I	1.679	1.00
20_I	24_L	1.666	1.00
85_D	89_K	1.662	1.00
46_A	49_K	1.661	1.00
90_Y	93_Q	1.627	1.00
17_A	44_G	1.624	1.00
113_A	126_M	1.598	1.00
209_I	215_G	1.597	1.00
10_G	53_F	1.590	1.00
182_L	186_T	1.587	1.00
130_A	157_N	1.555	1.00
167_L	171_V	1.542	1.00
17_A	21_G	1.539	1.00
17_A	47_F	1.522	1.00
99_I	217_V	1.503	1.00
109_V	157_N	1.496	1.00
120_S	124_K	1.483	1.00
110_Y	127_L	1.453	0.99
47_F	51_G	1.404	0.99
111_L	115_G	1.404	0.99
132_T	135_I	1.397	0.99
91_W	95_M	1.377	0.99
59_N	62_G	1.372	0.99
182_L	210_A	1.364	0.99
20_I	43_L	1.354	0.99
102_S	106_V	1.338	0.99
16_A	20_I	1.326	0.99
23_F	28_T	1.324	0.99
182_L	206_M	1.323	0.99
60_N	63_E	1.322	0.99
134_A	138_P	1.308	0.99
42_V	46_A	1.307	0.99
128_P	150_T	1.306	0.99
84_R	88_K	1.306	0.99
106_V	222_I	1.257	0.98
20_I	23_F	1.256	0.98
139_L	218_T	1.254	0.98
59_N	63_E	1.249	0.98
131_A	135_I	1.242	0.98
188_G	207_A	1.237	0.98
111_L	114_K	1.231	0.98
73_T	78_I	1.230	0.98
90_Y	206_M	1.224	0.98
177_P	203_E	1.222	0.98
147_S	151_A	1.216	0.98
133_T	155_I	1.207	0.98
107_T	111_L	1.202	0.98
25_F	34_F	1.194	0.98
129_Q	157_N	1.186	0.98
70_E	134_A	1.176	0.98
155_I	159_V	1.173	0.98
13_V	44_G	1.170	0.98
45_I	49_K	1.166	0.98
149_I	153_A	1.161	0.97
137_L	151_A	1.150	0.97
119_D	122_V	1.119	0.97
48_L	55_Y	1.115	0.97
34_F	39_V	1.064	0.96
169_L	174_V	1.056	0.96
73_T	157_N	1.051	0.95
79_P	208_S	1.049	0.95
106_V	127_L	1.048	0.95
220_L	224_V	1.047	0.95
82_K	201_E	1.045	0.95
196_G	200_G	1.045	0.95
28_T	34_F	1.043	0.95
23_F	26_K	1.035	0.95
157_N	188_G	1.024	0.95
81_Y	84_R	1.020	0.95
137_L	147_S	1.019	0.95
150_T	154_V	1.006	0.94
196_G	204_A	1.006	0.94
57_D	62_G	0.993	0.94
10_G	61_G	0.991	0.94
197_I	205_A	0.987	0.94
122_V	125_S	0.984	0.93
24_L	39_V	0.976	0.93
69_L	190_A	0.965	0.93
110_Y	123_M	0.964	0.93
85_D	88_K	0.961	0.93
7_P	61_G	0.954	0.92
102_S	218_T	0.952	0.92
137_L	140_S	0.949	0.92
35_T	39_V	0.944	0.92
208_S	212_V	0.943	0.92
101_G	186_T	0.940	0.92
106_V	221_V	0.934	0.92
186_T	214_V	0.934	0.92
55_Y	74_I	0.919	0.91
162_Y	191_L	0.917	0.91
193_V	204_A	0.914	0.91
22_T	26_K	0.913	0.91
92_W	95_M	0.911	0.91
98_I	214_V	0.909	0.90
159_V	191_L	0.901	0.90
49_K	52_G	0.893	0.90
109_V	129_Q	0.889	0.89
189_H	192_G	0.883	0.89
122_V	146_I	0.882	0.89
161_V	207_A	0.882	0.89
178_I	206_M	0.879	0.89
157_N	160_I	0.871	0.88
127_L	226_V	0.871	0.88
114_K	123_M	0.869	0.88
180_K	199_M	0.869	0.88
37_L	191_L	0.864	0.88
51_G	54_S	0.863	0.88
26_K	29_K	0.859	0.88
34_F	165_G	0.857	0.88
69_L	134_A	0.855	0.88
19_G	23_F	0.854	0.88
190_A	208_S	0.851	0.87
197_I	204_A	0.848	0.87
96_A	100_A	0.848	0.87
125_S	150_T	0.847	0.87
164_L	167_L	0.847	0.87
176_N	179_S	0.836	0.86
10_G	62_G	0.829	0.86
138_P	142_G	0.828	0.86
158_A	161_V	0.824	0.86
54_S	57_D	0.822	0.85
40_A	43_L	0.820	0.85
32_F	35_T	0.815	0.85
143_I	222_I	0.808	0.84
91_W	155_I	0.808	0.84
35_T	38_F	0.800	0.84
140_S	145_G	0.799	0.84
151_A	154_V	0.798	0.84
57_D	60_N	0.795	0.83
207_A	210_A	0.790	0.83
161_V	189_H	0.787	0.83
94_I	182_L	0.779	0.82
202_V	216_V	0.777	0.82
120_S	228_L	0.777	0.82
76_F	129_Q	0.774	0.82
90_Y	178_I	0.774	0.82
98_I	186_T	0.772	0.82
124_K	226_V	0.771	0.82
18_F	22_T	0.768	0.81
183_A	187_S	0.765	0.81
43_L	46_A	0.762	0.81
139_L	222_I	0.761	0.81
206_M	211_V	0.759	0.81
75_A	151_A	0.756	0.80
116_I	216_V	0.752	0.80
160_I	164_L	0.748	0.80
86_K	178_I	0.744	0.79
28_T	32_F	0.741	0.79
52_G	170_K	0.740	0.79
61_G	128_P	0.735	0.78
25_F	134_A	0.735	0.78
200_G	206_M	0.731	0.78
125_S	140_S	0.729	0.78
114_K	228_L	0.728	0.78
109_V	112_L	0.725	0.77
74_I	149_I	0.725	0.77
126_M	153_A	0.724	0.77
25_F	28_T	0.723	0.77
85_D	100_A	0.723	0.77
224_V	227_Q	0.721	0.77
127_L	222_I	0.719	0.77
97_S	206_M	0.719	0.77
129_Q	219_V	0.717	0.77
13_V	47_F	0.717	0.77
105_S	108_I	0.716	0.77
87_L	205_A	0.714	0.76
131_A	218_T	0.712	0.76
224_V	228_L	0.709	0.76
80_L	223_P	0.709	0.76
134_A	147_S	0.709	0.76
133_T	154_V	0.708	0.76
83_Q	202_V	0.704	0.75
78_I	105_S	0.702	0.75
38_F	163_A	0.695	0.74
16_A	52_G	0.694	0.74
112_L	116_I	0.693	0.74
186_T	208_S	0.680	0.73
97_S	105_S	0.680	0.73
189_H	193_V	0.678	0.73
49_K	121_A	0.677	0.73
124_K	145_G	0.676	0.72
102_S	217_V	0.675	0.72
132_T	215_G	0.672	0.72
86_K	202_V	0.670	0.72
59_N	64_I	0.668	0.72
35_T	206_M	0.665	0.71
164_L	168_F	0.657	0.70
106_V	211_V	0.655	0.70
142_G	212_V	0.654	0.70
166_A	170_K	0.649	0.69
219_V	222_I	0.647	0.69
166_A	195_V	0.647	0.69
73_T	218_T	0.644	0.69
28_T	191_L	0.643	0.69
86_K	206_M	0.642	0.68
40_A	44_G	0.640	0.68
64_I	103_I	0.639	0.68
99_I	213_V	0.636	0.68
74_I	79_P	0.635	0.68
100_A	111_L	0.635	0.68
41_M	133_T	0.631	0.67
77_A	131_A	0.628	0.67
108_I	112_L	0.627	0.67
169_L	173_K	0.625	0.66
157_N	189_H	0.623	0.66
197_I	208_S	0.621	0.66
158_A	189_H	0.621	0.66
76_F	197_I	0.619	0.66
169_L	183_A	0.619	0.66
65_I	68_F	0.616	0.65
23_F	164_L	0.615	0.65
215_G	219_V	0.613	0.65
161_V	193_V	0.612	0.65
97_S	144_G	0.612	0.65
190_A	193_V	0.611	0.65
35_T	41_M	0.608	0.64
98_I	210_A	0.607	0.64
133_T	137_L	0.606	0.64
103_I	107_T	0.605	0.64
22_T	129_Q	0.605	0.64
207_A	214_V	0.602	0.64
23_F	29_K	0.599	0.63
103_I	112_L	0.596	0.63
14_S	190_A	0.595	0.63
7_P	10_G	0.595	0.63
20_I	47_F	0.594	0.63
188_G	192_G	0.594	0.63
195_V	207_A	0.593	0.62
10_G	97_S	0.590	0.62
195_V	199_M	0.590	0.62
24_L	99_I	0.589	0.62
139_L	219_V	0.585	0.61
105_S	183_A	0.584	0.61
188_G	221_V	0.584	0.61
98_I	125_S	0.583	0.61
104_C	108_I	0.580	0.61
107_T	110_Y	0.576	0.60
42_V	85_D	0.576	0.60
43_L	144_G	0.573	0.60
85_D	175_K	0.573	0.60
8_Y	19_G	0.572	0.60
132_T	166_A	0.572	0.60
70_E	129_Q	0.567	0.59
195_V	201_E	0.566	0.59
102_S	187_S	0.566	0.59
78_I	209_I	0.565	0.59
191_L	194_A	0.565	0.59
133_T	212_V	0.564	0.59
190_A	198_E	0.564	0.59
111_L	121_A	0.559	0.58
87_L	96_A	0.559	0.58
211_V	215_G	0.559	0.58
55_Y	152_F	0.559	0.58
131_A	154_V	0.557	0.58
87_L	206_M	0.556	0.57
61_G	207_A	0.554	0.57
7_P	67_F	0.554	0.57
178_I	210_A	0.552	0.57
52_G	56_A	0.552	0.57
83_Q	137_L	0.552	0.57
18_F	176_N	0.551	0.57
35_T	188_G	0.551	0.57
111_L	228_L	0.550	0.57
103_I	171_V	0.548	0.56
13_V	43_L	0.545	0.56
114_K	120_S	0.545	0.56
99_I	221_V	0.544	0.56
139_L	226_V	0.544	0.56
133_T	150_T	0.543	0.56
57_D	171_V	0.537	0.55
110_Y	226_V	0.533	0.54
184_L	207_A	0.531	0.54
52_G	156_F	0.531	0.54
180_K	213_V	0.531	0.54
25_F	38_F	0.530	0.54
122_V	223_P	0.530	0.54
135_I	139_L	0.528	0.54
166_A	215_G	0.528	0.54
76_F	193_V	0.527	0.54
24_L	34_F	0.525	0.53
109_V	208_S	0.520	0.53
190_A	211_V	0.520	0.53
96_A	226_V	0.518	0.52
9_F	51_G	0.518	0.52
85_D	111_L	0.516	0.52
15_L	19_G	0.515	0.52
162_Y	194_A	0.514	0.52
34_F	94_I	0.513	0.52
162_Y	208_S	0.511	0.51
8_Y	61_G	0.510	0.51
210_A	219_V	0.506	0.51
155_I	191_L	0.505	0.51
199_M	203_E	0.505	0.51
80_L	113_A	0.504	0.50
157_N	214_V	0.504	0.50
13_V	16_A	0.502	0.50
29_K	95_M	0.501	0.50
136_A	151_A	0.500	0.50

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
3zuxA	1	0.7359	94.6	0.916	Contact Map
4n7wA	2	0.71	91.5	0.925	Contact Map
4czbA	2	0.9654	63.9	0.944	Contact Map
4bwzA	2	0.9264	38.5	0.952	Contact Map
4cz8A	2	0.9134	38	0.952	Contact Map
2a65A	2	0.3896	37.7	0.952	Contact Map
2zy9A	2	0.7922	31.2	0.954	Contact Map
3qe7A	2	0.9091	15.3	0.96	Contact Map
4r0cA	3	0.7532	8.4	0.965	Contact Map
4u9nA	2	0.7013	7.6	0.965	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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