YVGT - BACSU - GREMLIN Contacts

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YVGT - UPF0126 membrane protein YvgT

UniProt:	O32216	Sequences: MAWELLSVIGIIAFAVSGAIVAMEEEYDILGVYILGIVTAFGGGAIRNLLIGVPVSALWEQGAYFQIALLSITIVFLFPKLLLKHWNKWGNLSDAIGLAAFAIQGALYAVKMGHPLSAVIVAAVLTGSGGGIIRDLLAGRKPLVLKAEIYAVWAALGGLIVGLGWLGNSFGLYVLFFVLVVCRVCSYMFNWKLPNRSFRLDN	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	202 (193)
Sequences:	2507 (1714)
Seq/√Len:	123.4

ECOLI - YADS YICG
BACSU - YVGT
HALSA - Q9HSC6
SULSO - Q981D4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
102_A	154_A	3.892	1.00
25_E	140_R	3.562	1.00
53_V	108_Y	3.346	1.00
35_L	138_A	3.277	1.00
36_G	72_I	3.251	1.00
160_I	178_V	3.109	1.00
12_I	71_S	3.055	1.00
185_C	189_F	2.934	1.00
157_G	179_L	2.785	1.00
99_A	180_V	2.673	1.00
38_V	137_L	2.663	1.00
45_A	58_L	2.647	1.00
96_I	180_V	2.475	1.00
106_A	158_G	2.455	1.00
180_V	184_V	2.404	1.00
98_L	127_G	2.296	1.00
110_V	119_V	2.215	1.00
27_Y	138_A	2.176	1.00
124_V	155_A	2.112	1.00
91_N	187_Y	2.083	1.00
53_V	112_M	2.057	1.00
185_C	191_W	2.002	1.00
92_L	184_V	1.956	1.00
21_V	138_A	1.944	1.00
149_I	153_W	1.916	1.00
173_Y	177_F	1.889	1.00
98_L	154_A	1.809	1.00
4_E	8_V	1.793	1.00
40_A	68_A	1.653	1.00
51_I	114_H	1.604	1.00
140_R	146_K	1.576	1.00
14_F	97_G	1.575	1.00
153_W	182_C	1.561	1.00
106_A	119_V	1.558	1.00
37_I	68_A	1.528	1.00
119_V	162_G	1.501	1.00
156_L	182_C	1.481	1.00
106_A	162_G	1.480	1.00
120_I	162_G	1.477	1.00
109_A	122_A	1.465	1.00
16_V	75_V	1.447	1.00
114_H	118_A	1.447	1.00
186_S	191_W	1.436	1.00
62_G	66_Q	1.420	1.00
128_S	144_V	1.395	1.00
10_G	14_F	1.384	1.00
41_F	68_A	1.383	1.00
29_I	76_F	1.370	1.00
7_S	64_Y	1.363	1.00
26_E	195_N	1.355	1.00
42_G	133_I	1.342	1.00
137_L	145_L	1.335	1.00
46_I	125_L	1.324	1.00
50_L	59_W	1.319	1.00
122_A	126_T	1.319	1.00
36_G	68_A	1.314	1.00
120_I	159_L	1.306	1.00
172_L	176_F	1.302	1.00
177_F	181_V	1.301	1.00
33_Y	69_L	1.300	1.00
46_I	129_G	1.297	1.00
30_L	151_A	1.270	1.00
71_S	75_V	1.254	1.00
66_Q	70_L	1.252	1.00
4_E	61_Q	1.232	0.99
171_G	175_L	1.214	0.99
99_A	176_F	1.203	0.99
33_Y	72_I	1.192	0.99
108_Y	112_M	1.188	0.99
38_V	133_I	1.181	0.99
132_I	144_V	1.180	0.99
116_L	162_G	1.177	0.99
4_E	63_A	1.173	0.99
12_I	67_I	1.160	0.99
102_A	106_A	1.158	0.99
95_A	184_V	1.140	0.99
51_I	112_M	1.131	0.99
32_V	76_F	1.130	0.99
116_L	120_I	1.125	0.99
95_A	180_V	1.107	0.99
103_I	179_L	1.105	0.99
99_A	157_G	1.092	0.99
45_A	129_G	1.091	0.99
19_A	32_V	1.058	0.98
102_A	179_L	1.053	0.98
99_A	103_I	1.049	0.98
159_L	163_L	1.047	0.98
182_C	191_W	1.047	0.98
167_G	170_F	1.046	0.98
11_I	14_F	1.036	0.98
37_I	65_F	1.028	0.98
46_I	133_I	1.018	0.98
164_G	171_G	1.016	0.98
106_A	161_V	1.009	0.98
184_V	188_M	1.002	0.98
34_I	151_A	1.001	0.98
147_A	192_K	0.998	0.98
34_I	145_L	0.988	0.97
58_L	129_G	0.988	0.97
152_V	193_L	0.987	0.97
107_L	111_K	0.981	0.97
156_L	178_V	0.977	0.97
106_A	123_A	0.974	0.97
6_L	100_A	0.971	0.97
153_W	157_G	0.970	0.97
102_A	158_G	0.966	0.97
142_P	145_L	0.960	0.97
91_N	95_A	0.960	0.97
69_L	73_T	0.960	0.97
17_S	93_S	0.958	0.97
100_A	176_F	0.952	0.97
23_M	32_V	0.950	0.97
58_L	118_A	0.950	0.97
16_V	93_S	0.928	0.96
161_V	175_L	0.920	0.96
100_A	104_Q	0.912	0.96
124_V	128_S	0.908	0.96
166_L	171_G	0.907	0.96
166_L	170_F	0.902	0.96
45_A	57_A	0.891	0.95
97_G	101_F	0.886	0.95
11_I	15_A	0.886	0.95
186_S	190_N	0.881	0.95
11_I	41_F	0.881	0.95
192_K	195_N	0.873	0.95
157_G	175_L	0.869	0.95
30_L	128_S	0.861	0.94
13_A	97_G	0.857	0.94
14_F	17_S	0.855	0.94
12_I	16_V	0.855	0.94
178_V	182_C	0.852	0.94
10_G	101_F	0.847	0.94
103_I	175_L	0.847	0.94
52_G	55_V	0.839	0.93
22_A	32_V	0.836	0.93
49_L	54_P	0.829	0.93
27_Y	141_K	0.828	0.93
127_G	179_L	0.817	0.93
99_A	179_L	0.817	0.93
149_I	182_C	0.815	0.92
124_V	151_A	0.809	0.92
118_A	122_A	0.807	0.92
8_V	67_I	0.804	0.92
96_I	100_A	0.802	0.92
9_I	191_W	0.799	0.92
149_I	193_L	0.797	0.92
120_I	155_A	0.796	0.92
90_G	93_S	0.784	0.91
123_A	175_L	0.784	0.91
16_V	71_S	0.776	0.91
23_M	79_P	0.776	0.91
30_L	34_I	0.773	0.90
70_L	74_I	0.770	0.90
51_I	109_A	0.766	0.90
107_L	161_V	0.758	0.90
103_I	161_V	0.756	0.89
68_A	72_I	0.754	0.89
86_W	89_W	0.750	0.89
7_S	21_V	0.736	0.88
141_K	144_V	0.735	0.88
28_D	142_P	0.728	0.88
119_V	123_A	0.723	0.87
51_I	54_P	0.721	0.87
99_A	123_A	0.721	0.87
101_F	127_G	0.720	0.87
35_L	133_I	0.716	0.87
160_I	175_L	0.715	0.87
65_F	121_V	0.713	0.86
132_I	137_L	0.710	0.86
6_L	176_F	0.710	0.86
25_E	106_A	0.705	0.86
58_L	161_V	0.705	0.86
160_I	174_V	0.693	0.85
170_F	174_V	0.690	0.85
45_A	56_S	0.683	0.84
132_I	143_L	0.681	0.84
3_W	100_A	0.679	0.84
45_A	50_L	0.675	0.83
114_H	119_V	0.675	0.83
7_S	14_F	0.674	0.83
171_G	179_L	0.672	0.83
104_Q	175_L	0.666	0.82
59_W	118_A	0.660	0.82
168_N	171_G	0.659	0.82
50_L	125_L	0.657	0.82
98_L	179_L	0.654	0.81
132_I	145_L	0.653	0.81
155_A	158_G	0.650	0.81
66_Q	117_S	0.646	0.81
147_A	179_L	0.645	0.80
8_V	12_I	0.641	0.80
72_I	76_F	0.641	0.80
14_F	18_G	0.639	0.80
74_I	163_L	0.638	0.80
9_I	13_A	0.638	0.80
115_P	122_A	0.637	0.80
41_F	65_F	0.637	0.80
76_F	196_R	0.636	0.80
23_M	196_R	0.636	0.80
68_A	71_S	0.636	0.80
156_L	184_V	0.634	0.79
8_V	63_A	0.633	0.79
7_S	16_V	0.633	0.79
21_V	25_E	0.632	0.79
19_A	75_V	0.628	0.79
35_L	139_G	0.624	0.78
106_A	179_L	0.622	0.78
128_S	151_A	0.619	0.78
104_Q	126_T	0.618	0.78
30_L	155_A	0.616	0.77
54_P	59_W	0.612	0.77
30_L	147_A	0.608	0.76
39_T	42_G	0.605	0.76
18_G	144_V	0.604	0.76
68_A	76_F	0.603	0.76
45_A	49_L	0.602	0.76
37_I	40_A	0.598	0.75
132_I	170_F	0.595	0.75
85_H	88_K	0.595	0.75
141_K	146_K	0.594	0.75
37_I	41_F	0.594	0.75
34_I	129_G	0.593	0.75
153_W	186_S	0.592	0.75
31_G	35_L	0.592	0.75
35_L	126_T	0.589	0.74
65_F	117_S	0.588	0.74
17_S	97_G	0.588	0.74
184_V	187_Y	0.588	0.74
69_L	117_S	0.586	0.74
3_W	170_F	0.585	0.74
52_G	56_S	0.585	0.74
136_L	178_V	0.583	0.73
41_F	153_W	0.582	0.73
46_I	50_L	0.579	0.73
51_I	108_Y	0.576	0.73
92_L	180_V	0.576	0.73
174_V	178_V	0.573	0.72
28_D	150_Y	0.573	0.72
24_E	27_Y	0.573	0.72
19_A	72_I	0.572	0.72
32_V	72_I	0.572	0.72
19_A	36_G	0.571	0.72
115_P	118_A	0.569	0.72
102_A	157_G	0.565	0.71
99_A	119_V	0.564	0.71
99_A	187_Y	0.564	0.71
75_V	79_P	0.563	0.71
92_L	96_I	0.562	0.71
113_G	116_L	0.562	0.71
22_A	35_L	0.561	0.71
77_L	81_L	0.558	0.70
27_Y	145_L	0.557	0.70
38_V	42_G	0.556	0.70
23_M	75_V	0.552	0.69
27_Y	31_G	0.552	0.69
92_L	187_Y	0.551	0.69
19_A	23_M	0.550	0.69
13_A	93_S	0.547	0.69
155_A	159_L	0.547	0.69
34_I	121_V	0.544	0.68
3_W	104_Q	0.543	0.68
35_L	65_F	0.541	0.68
146_K	187_Y	0.540	0.68
125_L	133_I	0.539	0.68
9_I	37_I	0.538	0.67
62_G	115_P	0.536	0.67
13_A	67_I	0.535	0.67
101_F	183_R	0.534	0.67
7_S	11_I	0.530	0.66
33_Y	155_A	0.530	0.66
106_A	154_A	0.529	0.66
154_A	161_V	0.524	0.65
52_G	149_I	0.523	0.65
21_V	140_R	0.520	0.65
148_E	190_N	0.520	0.65
170_F	173_Y	0.519	0.65
74_I	177_F	0.518	0.64
61_Q	65_F	0.516	0.64
29_I	188_M	0.516	0.64
10_G	93_S	0.515	0.64
23_M	39_T	0.510	0.63
67_I	71_S	0.510	0.63
139_G	185_C	0.509	0.63
57_A	64_Y	0.508	0.63
56_S	59_W	0.507	0.63
49_L	165_W	0.506	0.63
106_A	109_A	0.506	0.63
7_S	104_Q	0.505	0.63
48_N	108_Y	0.504	0.62
28_D	31_G	0.500	0.62

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
2f2bA	4	0.4059	8.8	0.959	Contact Map
3llqA	3	0.4109	2.7	0.968	Contact Map
2o9gA	3	0.4109	2.7	0.968	Contact Map
3gd8A	4	0.4109	2.3	0.969	Contact Map
4b19A	1	0.1485	1.6	0.972	Contact Map
1s4zC	1	0.1436	1.5	0.972	Contact Map
4qncA	2	0.3812	1.4	0.973	Contact Map
3wfpA	2	0.4505	1.2	0.974	Contact Map
3cn5A	3	0.4257	1.2	0.974	Contact Map
2l9uA	2	0.1931	1.1	0.975	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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