BACS2 - HALSA - GREMLIN Contacts

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BACS2 - Sensory rhodopsin-2

UniProt:	P71411	Sequences: MALTTWFWVGAVGMLAGTVLPIRDCIRHPSHRRYDLVLAGITGLAAIAYTTMGLGITATTVGDRTVYLARYIDWLVTTPLIVLYLAMLARPGHRTSAWLLAADVFVIAAGIAAALTTGVQRWLFFAVGAAGYAALLYGLLGTLPRALGDDPRVRSLFVTLRNITVVLWTLYPVVWLLSPAGIGILQTEMYTIVVVYLDFISKVAFVAFAVLGADAVSRLVAADAAAPATAEPTPDGD	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	237 (213)
Sequences:	715 (509)
Seq/√Len:	34.9

HALSA - BACS2 BACR BACH BACS1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
44_L	76_V	7.156	1.00
78_T	103_D	3.953	1.00
13_G	199_F	3.543	1.00
15_L	46_A	3.449	1.00
51_T	124_F	3.378	1.00
73_D	77_T	3.236	1.00
18_T	42_T	3.160	1.00
68_L	72_I	3.158	1.00
73_D	202_K	3.150	1.00
8_W	53_G	2.999	1.00
167_L	200_I	2.734	1.00
109_A	128_G	2.607	1.00
125_F	129_A	2.572	1.00
105_F	131_G	2.501	1.00
21_P	206_V	2.409	1.00
106_V	110_G	2.407	1.00
22_I	39_A	2.406	1.00
42_T	206_V	2.237	0.99
17_G	203_V	2.093	0.99
78_T	106_V	2.010	0.98
37_V	80_L	1.959	0.98
38_L	206_V	1.905	0.98
102_A	134_A	1.902	0.98
103_D	106_V	1.898	0.97
77_T	202_K	1.858	0.97
78_T	202_K	1.855	0.97
38_L	84_Y	1.854	0.97
59_T	115_L	1.700	0.95
48_A	52_M	1.638	0.94
7_F	191_T	1.622	0.94
74_W	110_G	1.615	0.94
45_A	52_M	1.605	0.93
50_T	116_T	1.603	0.93
110_G	202_K	1.601	0.93
170_L	174_V	1.592	0.93
168_W	202_K	1.571	0.93
17_G	207_A	1.539	0.92
174_V	193_V	1.527	0.92
20_L	24_D	1.522	0.91
113_A	175_W	1.514	0.91
11_A	46_A	1.512	0.91
14_M	45_A	1.511	0.91
83_L	100_L	1.510	0.91
18_T	43_G	1.503	0.91
45_A	172_P	1.496	0.91
137_Y	141_G	1.494	0.91
109_A	201_S	1.463	0.90
109_A	124_F	1.457	0.90
82_V	103_D	1.410	0.88
90_R	122_W	1.408	0.88
45_A	77_T	1.407	0.88
132_Y	136_L	1.383	0.87
175_W	190_Y	1.378	0.87
15_L	43_G	1.374	0.87
77_T	80_L	1.341	0.85
75_L	104_V	1.321	0.84
106_V	135_L	1.313	0.84
144_P	161_R	1.299	0.83
78_T	110_G	1.299	0.83
125_F	169_T	1.297	0.83
10_G	195_V	1.295	0.83
17_G	21_P	1.278	0.82
45_A	202_K	1.276	0.82
73_D	78_T	1.270	0.82
192_I	196_Y	1.263	0.81
10_G	14_M	1.246	0.81
46_A	50_T	1.243	0.80
177_L	193_V	1.234	0.80
74_W	172_P	1.222	0.79
15_L	157_F	1.195	0.78
176_L	182_I	1.166	0.76
38_L	100_L	1.158	0.75
18_T	46_A	1.154	0.75
65_T	178_S	1.144	0.74
61_V	117_T	1.138	0.74
180_A	190_Y	1.133	0.74
45_A	106_V	1.128	0.73
72_I	140_L	1.125	0.73
71_Y	74_W	1.124	0.73
134_A	138_G	1.112	0.72
43_G	200_I	1.112	0.72
121_R	126_A	1.096	0.71
127_V	177_L	1.088	0.71
77_T	103_D	1.083	0.70
16_A	133_A	1.079	0.70
122_W	176_L	1.076	0.70
80_L	113_A	1.073	0.70
48_A	114_A	1.070	0.69
21_P	42_T	1.069	0.69
19_V	22_I	1.052	0.68
170_L	193_V	1.048	0.68
109_A	127_V	1.047	0.68
77_T	110_G	1.041	0.67
45_A	81_I	1.036	0.67
136_L	140_L	1.033	0.67
105_F	127_V	1.017	0.65
123_L	189_M	1.016	0.65
69_A	112_A	1.009	0.65
54_L	181_G	1.008	0.65
111_I	115_L	1.004	0.64
76_V	134_A	1.003	0.64
69_A	76_V	0.998	0.64
175_W	181_G	0.998	0.64
78_T	168_W	0.990	0.63
115_L	180_A	0.989	0.63
86_A	96_S	0.988	0.63
94_R	98_W	0.984	0.63
74_W	79_P	0.978	0.62
81_I	84_Y	0.975	0.62
58_A	67_Y	0.975	0.62
15_L	199_F	0.965	0.61
14_M	203_V	0.962	0.61
133_A	149_D	0.956	0.61
36_L	92_G	0.954	0.60
185_L	189_M	0.951	0.60
130_A	204_A	0.929	0.58
28_H	32_R	0.928	0.58
185_L	192_I	0.927	0.58
82_V	110_G	0.925	0.58
13_G	203_V	0.919	0.57
82_V	91_P	0.897	0.56
21_P	38_L	0.897	0.56
163_I	167_L	0.896	0.56
182_I	189_M	0.892	0.55
6_W	10_G	0.878	0.54
148_G	196_Y	0.867	0.53
66_V	132_Y	0.866	0.53
167_L	201_S	0.866	0.53
45_A	84_Y	0.864	0.53
11_A	15_L	0.864	0.53
48_A	51_T	0.862	0.53
127_V	144_P	0.858	0.52
126_A	188_E	0.845	0.51
133_A	169_T	0.842	0.51
163_I	208_F	0.839	0.51
157_F	161_R	0.838	0.51
205_F	210_V	0.834	0.50
174_V	197_L	0.830	0.50
66_V	185_L	0.830	0.50
175_W	197_L	0.819	0.49
176_L	193_V	0.815	0.49
71_Y	205_F	0.809	0.48
8_W	11_A	0.808	0.48
56_I	120_Q	0.806	0.48
110_G	172_P	0.804	0.48
50_T	182_I	0.804	0.48
16_A	199_F	0.801	0.47
45_A	73_D	0.801	0.47
186_Q	189_M	0.796	0.47
149_D	153_V	0.796	0.47
132_Y	165_V	0.795	0.47
202_K	206_V	0.792	0.47
75_L	192_I	0.790	0.46
19_V	43_G	0.780	0.46
82_V	96_S	0.778	0.45
111_I	194_V	0.778	0.45
162_N	166_V	0.778	0.45
73_D	80_L	0.776	0.45
25_C	43_G	0.776	0.45
30_S	128_G	0.765	0.44
41_I	80_L	0.764	0.44
24_D	97_A	0.763	0.44
11_A	50_T	0.760	0.44
8_W	111_I	0.760	0.44
110_G	205_F	0.759	0.44
19_V	199_F	0.759	0.44
45_A	168_W	0.759	0.44
5_T	9_V	0.758	0.44
38_L	42_T	0.758	0.44
99_L	138_G	0.757	0.44
212_G	215_A	0.756	0.44
125_F	130_A	0.755	0.44
164_T	201_S	0.755	0.44
12_V	46_A	0.751	0.43
115_L	120_Q	0.749	0.43
14_M	137_Y	0.746	0.43
62_G	166_V	0.743	0.43
103_D	202_K	0.743	0.43
177_L	185_L	0.742	0.42
162_N	167_L	0.742	0.42
90_R	126_A	0.740	0.42
14_M	73_D	0.733	0.42
14_M	110_G	0.726	0.41
43_G	47_I	0.723	0.41
50_T	123_L	0.719	0.41
100_L	104_V	0.716	0.40
135_L	138_G	0.715	0.40
67_Y	191_T	0.712	0.40
146_A	150_D	0.708	0.40
71_Y	79_P	0.708	0.40
21_P	40_G	0.699	0.39
107_I	202_K	0.699	0.39
145_R	152_R	0.698	0.39
17_G	20_L	0.697	0.39
161_R	173_V	0.695	0.39
49_Y	171_Y	0.695	0.39
126_A	130_A	0.695	0.39
110_G	201_S	0.692	0.38
106_V	172_P	0.691	0.38
20_L	99_L	0.691	0.38
66_V	114_A	0.691	0.38
65_T	187_T	0.682	0.37
63_D	186_Q	0.682	0.37
140_L	165_V	0.680	0.37
105_F	125_F	0.678	0.37
88_L	213_A	0.677	0.37
123_L	185_L	0.677	0.37
103_D	201_S	0.676	0.37
106_V	168_W	0.675	0.37
35_D	210_V	0.673	0.37
169_T	172_P	0.673	0.37
47_I	105_F	0.672	0.37
133_A	140_L	0.670	0.37
70_R	202_K	0.669	0.36
38_L	135_L	0.669	0.36
29_P	125_F	0.666	0.36
120_Q	182_I	0.666	0.36
17_G	145_R	0.666	0.36
116_T	120_Q	0.664	0.36
33_R	47_I	0.660	0.36
37_V	42_T	0.656	0.35
115_L	126_A	0.652	0.35
93_H	160_L	0.649	0.35
24_D	27_R	0.642	0.34
55_G	67_Y	0.641	0.34
10_G	199_F	0.637	0.34
22_I	27_R	0.636	0.34
85_L	144_P	0.634	0.34
165_V	186_Q	0.633	0.34
101_A	105_F	0.632	0.34
132_Y	169_T	0.632	0.34
22_I	138_G	0.629	0.33
106_V	129_A	0.625	0.33
118_G	123_L	0.625	0.33
7_F	133_A	0.625	0.33
124_F	186_Q	0.623	0.33
113_A	125_F	0.620	0.33
24_D	141_G	0.620	0.33
119_V	123_L	0.619	0.33
97_A	137_Y	0.619	0.33
27_R	91_P	0.614	0.32
107_I	203_V	0.614	0.32
16_A	137_Y	0.612	0.32
178_S	191_T	0.612	0.32
189_M	193_V	0.611	0.32
193_V	196_Y	0.611	0.32
25_C	139_L	0.609	0.32
170_L	173_V	0.606	0.32
122_W	125_F	0.603	0.31
84_Y	209_A	0.599	0.31
10_G	13_G	0.599	0.31
49_Y	80_L	0.598	0.31
59_T	113_A	0.597	0.31
164_T	205_F	0.596	0.31
123_L	176_L	0.595	0.31
6_W	12_V	0.595	0.31
19_V	151_P	0.591	0.31
56_I	116_T	0.590	0.30
155_S	158_V	0.589	0.30
56_I	66_V	0.588	0.30
133_A	162_N	0.584	0.30
130_A	189_M	0.583	0.30
112_A	116_T	0.581	0.30
108_A	158_V	0.580	0.30
126_A	129_A	0.579	0.30
190_Y	194_V	0.573	0.29
52_M	70_R	0.573	0.29
102_A	116_T	0.573	0.29
98_W	138_G	0.570	0.29
41_I	205_F	0.570	0.29
19_V	154_R	0.569	0.29
106_V	128_G	0.567	0.29
156_L	174_V	0.567	0.29
85_L	164_T	0.566	0.29
153_V	196_Y	0.566	0.29
62_G	186_Q	0.564	0.29
140_L	162_N	0.562	0.28
176_L	183_G	0.561	0.28
57_T	64_R	0.559	0.28
21_P	209_A	0.554	0.28
73_D	84_Y	0.553	0.28
164_T	209_A	0.547	0.27
136_L	160_L	0.542	0.27
51_T	216_V	0.539	0.27
25_C	28_H	0.536	0.27
50_T	54_L	0.536	0.27
116_T	119_V	0.535	0.27
18_T	22_I	0.525	0.26
62_G	75_L	0.525	0.26
10_G	47_I	0.525	0.26
73_D	89_A	0.523	0.26
108_A	211_L	0.523	0.26
46_A	153_V	0.523	0.26
100_L	196_Y	0.522	0.26
42_T	72_I	0.521	0.26
119_V	176_L	0.521	0.26
121_R	180_A	0.521	0.26
182_I	195_V	0.520	0.26
77_T	113_A	0.519	0.26
90_R	97_A	0.519	0.26
19_V	91_P	0.519	0.26
124_F	196_Y	0.515	0.25
23_R	27_R	0.514	0.25
78_T	107_I	0.514	0.25
41_I	81_I	0.512	0.25
16_A	178_S	0.512	0.25
64_R	122_W	0.512	0.25
25_C	143_L	0.509	0.25
85_L	163_I	0.507	0.25
41_I	45_A	0.507	0.25
99_L	103_D	0.506	0.25
23_R	83_L	0.505	0.25
95_T	138_G	0.505	0.25
48_A	89_A	0.505	0.25
32_R	58_A	0.504	0.25
94_R	141_G	0.504	0.25
50_T	111_I	0.502	0.24
35_D	192_I	0.501	0.24
106_V	202_K	0.501	0.24
120_Q	185_L	0.500	0.24

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
3qapA	1	0.9114	100	0.166	Contact Map
4qi1A	3	0.9114	100	0.167	Contact Map
3wqjA	3	0.9072	100	0.181	Contact Map
4fbzA	3	0.9451	100	0.181	Contact Map
4l35A	3	0.9536	100	0.183	Contact Map
1m0kA	3	0.8945	100	0.184	Contact Map
1xioA	2	0.8819	100	0.193	Contact Map
3wt9A	1	0.9198	100	0.199	Contact Map
3am6A	3	0.903	100	0.206	Contact Map
3qbgA	3	0.9409	100	0.217	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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