YHGN - ECOLI - GREMLIN Contacts

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YHGN - UPF0056 inner membrane protein YhgN

UniProt:	P67143	Sequences: MNEIISAAVLLILIMDPLGNLPIFMSVLKHTEPKRRRAIMVRELLIALLVMLVFLFAGEKILAFLSLRAETVSISGGIILFLIAIKMIFPSASGNSSGLPAGEEPFIVPLAIPLVAGPTILATLMLLSHQYPNQMGHLVIALLLAWGGTFVILLQSSLFLRLLGEKGVNALERLMGLILVMMATQMFLDGIRMWMKG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12941
Length:	197 (191)
Sequences:	2479 (1654)
Seq/√Len:	119.7

ECOLI - YHGN YCHE MARC
BACSU - YVBG
SULSO - Q7LXS5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
188_L	194_W	4.130	1.00
32_E	35_R	3.403	1.00
48_L	146_W	3.325	1.00
74_I	188_L	3.185	1.00
51_M	120_I	3.133	1.00
82_L	85_I	2.894	1.00
71_T	185_Q	2.870	1.00
150_F	154_L	2.690	1.00
41_V	150_F	2.587	1.00
8_A	144_L	2.487	1.00
70_E	193_M	2.483	1.00
46_I	107_I	2.473	1.00
48_L	143_L	2.459	1.00
185_Q	189_D	2.369	1.00
50_V	112_I	2.267	1.00
164_G	167_G	2.098	1.00
59_E	63_A	2.098	1.00
81_F	187_F	2.075	1.00
45_L	49_L	2.051	1.00
44_L	146_W	2.022	1.00
4_I	141_A	2.018	1.00
7_A	141_A	1.945	1.00
24_F	28_L	1.931	1.00
56_F	139_V	1.888	1.00
4_I	140_I	1.877	1.00
84_A	180_V	1.840	1.00
52_L	139_V	1.808	1.00
8_A	148_G	1.807	1.00
47_A	146_W	1.794	1.00
37_R	154_L	1.760	1.00
48_L	52_L	1.744	1.00
158_L	161_R	1.730	1.00
86_K	91_S	1.720	1.00
46_I	111_A	1.696	1.00
70_E	73_S	1.681	1.00
78_I	81_F	1.667	1.00
16_D	19_G	1.655	1.00
15_M	145_A	1.651	1.00
192_R	195_M	1.628	1.00
24_F	40_M	1.527	1.00
51_M	116_A	1.518	1.00
78_I	187_F	1.502	1.00
74_I	194_W	1.480	1.00
7_A	127_L	1.477	1.00
73_S	189_D	1.475	1.00
11_L	124_L	1.474	1.00
50_V	116_A	1.472	1.00
115_V	149_T	1.406	1.00
51_M	124_L	1.398	1.00
147_G	151_V	1.393	1.00
52_L	143_L	1.383	1.00
81_F	183_A	1.359	1.00
155_Q	158_L	1.330	1.00
24_F	110_L	1.318	1.00
4_I	144_L	1.295	1.00
55_L	124_L	1.292	1.00
41_V	154_L	1.290	1.00
44_L	149_T	1.286	1.00
36_R	157_S	1.260	0.99
71_T	188_L	1.257	0.99
106_F	111_A	1.246	0.99
124_L	142_L	1.241	0.99
128_S	138_L	1.236	0.99
55_L	139_V	1.228	0.99
74_I	191_I	1.226	0.99
31_T	35_R	1.223	0.99
19_G	22_P	1.214	0.99
44_L	150_F	1.207	0.99
77_G	187_F	1.188	0.99
55_L	128_S	1.184	0.99
87_M	176_G	1.178	0.99
33_P	37_R	1.170	0.99
15_M	146_W	1.169	0.99
28_L	36_R	1.165	0.99
43_E	47_A	1.164	0.99
188_L	191_I	1.163	0.99
31_T	39_I	1.160	0.99
87_M	175_M	1.158	0.99
11_L	142_L	1.151	0.99
4_I	8_A	1.146	0.99
20_N	153_L	1.140	0.99
73_S	193_M	1.138	0.99
42_R	104_E	1.134	0.99
163_L	167_G	1.128	0.99
49_L	53_V	1.122	0.99
38_A	42_R	1.121	0.99
33_P	36_R	1.116	0.99
120_I	124_L	1.105	0.99
158_L	162_L	1.103	0.99
57_A	61_I	1.102	0.99
77_G	190_G	1.098	0.99
50_V	111_A	1.098	0.99
179_L	183_A	1.088	0.98
13_L	16_D	1.085	0.98
87_M	172_E	1.080	0.98
68_R	185_Q	1.076	0.98
41_V	45_L	1.063	0.98
78_I	85_I	1.057	0.98
79_I	83_I	1.043	0.98
74_I	187_F	1.033	0.98
180_V	183_A	1.031	0.98
22_P	25_M	1.030	0.98
81_F	180_V	1.007	0.97
13_L	65_L	0.988	0.97
79_I	180_V	0.985	0.97
151_V	155_Q	0.968	0.97
37_R	41_V	0.967	0.97
24_F	36_R	0.965	0.97
62_L	181_M	0.960	0.97
12_I	148_G	0.958	0.97
15_M	120_I	0.956	0.97
16_D	80_L	0.953	0.96
14_I	119_T	0.947	0.96
33_P	157_S	0.946	0.96
81_F	85_I	0.936	0.96
46_I	106_F	0.935	0.96
14_I	123_T	0.933	0.96
99_L	102_G	0.890	0.95
74_I	190_G	0.876	0.94
19_G	23_I	0.875	0.94
53_V	57_A	0.871	0.94
25_M	160_L	0.869	0.94
80_L	126_L	0.864	0.94
92_A	95_N	0.858	0.94
147_G	158_L	0.846	0.93
51_M	121_L	0.836	0.93
19_G	149_T	0.833	0.93
47_A	111_A	0.829	0.93
60_K	63_A	0.825	0.92
121_L	125_M	0.819	0.92
43_E	105_P	0.818	0.92
75_S	184_T	0.817	0.92
133_N	136_G	0.809	0.92
141_A	145_A	0.803	0.91
44_L	47_A	0.802	0.91
74_I	184_T	0.794	0.91
49_L	100_P	0.791	0.91
79_I	168_V	0.791	0.91
12_I	152_I	0.787	0.90
72_V	122_A	0.784	0.90
116_A	142_L	0.784	0.90
42_R	46_I	0.770	0.89
61_I	121_L	0.768	0.89
24_F	156_S	0.766	0.89
68_R	71_T	0.759	0.89
17_P	145_A	0.756	0.89
24_F	118_P	0.753	0.88
10_L	123_T	0.746	0.88
62_L	125_M	0.745	0.88
51_M	142_L	0.738	0.87
16_D	22_P	0.732	0.87
173_R	184_T	0.731	0.87
86_K	89_F	0.725	0.86
21_L	25_M	0.721	0.86
90_P	176_G	0.719	0.86
21_L	153_L	0.716	0.86
116_A	176_G	0.716	0.86
16_D	175_M	0.713	0.86
145_A	148_G	0.713	0.86
57_A	60_K	0.711	0.85
21_L	152_I	0.706	0.85
90_P	173_R	0.701	0.85
111_A	116_A	0.697	0.84
35_R	39_I	0.696	0.84
20_N	115_V	0.693	0.84
132_P	136_G	0.691	0.84
54_F	125_M	0.691	0.84
107_I	166_K	0.688	0.84
49_L	136_G	0.687	0.83
20_N	114_L	0.684	0.83
88_I	176_G	0.684	0.83
112_I	177_L	0.681	0.83
70_E	188_L	0.679	0.83
166_K	170_A	0.676	0.82
71_T	75_S	0.672	0.82
12_I	145_A	0.672	0.82
17_P	118_P	0.672	0.82
16_D	54_F	0.668	0.82
16_D	120_I	0.668	0.82
76_G	122_A	0.666	0.81
8_A	12_I	0.661	0.81
13_L	177_L	0.661	0.81
79_I	124_L	0.657	0.81
84_A	88_I	0.655	0.80
144_L	162_L	0.651	0.80
72_V	195_M	0.651	0.80
65_L	126_L	0.651	0.80
79_I	114_L	0.650	0.80
72_V	123_T	0.640	0.79
136_G	140_I	0.638	0.79
100_P	103_E	0.637	0.79
72_V	146_W	0.635	0.78
14_I	182_M	0.634	0.78
10_L	177_L	0.633	0.78
20_N	79_I	0.632	0.78
119_T	173_R	0.627	0.77
84_A	169_N	0.627	0.77
42_R	106_F	0.624	0.77
11_L	51_M	0.621	0.77
132_P	135_M	0.619	0.77
55_L	174_L	0.616	0.76
13_L	180_V	0.614	0.76
175_M	186_M	0.613	0.76
35_R	38_A	0.612	0.76
37_R	150_F	0.609	0.75
28_L	31_T	0.605	0.75
93_S	96_S	0.604	0.75
24_F	68_R	0.602	0.75
10_L	14_I	0.601	0.74
99_L	103_E	0.600	0.74
114_L	117_G	0.599	0.74
97_S	101_A	0.597	0.74
86_K	95_N	0.593	0.73
82_L	89_F	0.592	0.73
105_P	110_L	0.586	0.73
39_I	43_E	0.584	0.72
64_F	182_M	0.583	0.72
91_S	94_G	0.579	0.72
72_V	177_L	0.578	0.72
140_I	144_L	0.577	0.71
13_L	70_E	0.576	0.71
165_E	169_N	0.573	0.71
122_A	125_M	0.573	0.71
128_S	137_H	0.570	0.71
62_L	76_G	0.570	0.71
38_A	191_I	0.569	0.70
127_L	138_L	0.567	0.70
12_I	86_K	0.566	0.70
58_G	117_G	0.565	0.70
76_G	87_M	0.565	0.70
47_A	115_V	0.563	0.70
25_M	171_L	0.562	0.69
119_T	179_L	0.560	0.69
191_I	195_M	0.560	0.69
108_V	179_L	0.559	0.69
134_Q	137_H	0.557	0.69
50_V	155_Q	0.556	0.69
93_S	97_S	0.556	0.69
8_A	141_A	0.554	0.68
62_L	72_V	0.554	0.68
113_P	117_G	0.551	0.68
90_P	169_N	0.546	0.67
18_L	171_L	0.542	0.67
16_D	75_S	0.542	0.67
29_K	165_E	0.541	0.67
34_K	37_R	0.540	0.66
36_R	182_M	0.539	0.66
104_E	191_I	0.538	0.66
11_L	163_L	0.536	0.66
14_I	50_V	0.536	0.66
67_L	93_S	0.535	0.66
63_A	143_L	0.535	0.66
84_A	183_A	0.534	0.66
55_L	142_L	0.533	0.65
100_P	195_M	0.533	0.65
60_K	174_L	0.532	0.65
90_P	175_M	0.531	0.65
34_K	162_L	0.530	0.65
43_E	111_A	0.527	0.65
20_N	110_L	0.526	0.64
101_A	134_Q	0.526	0.64
22_P	114_L	0.526	0.64
117_G	173_R	0.525	0.64
126_L	183_A	0.523	0.64
99_L	151_V	0.522	0.64
65_L	183_A	0.521	0.64
8_A	50_V	0.520	0.64
27_V	105_P	0.520	0.64
174_L	178_I	0.519	0.63
69_A	84_A	0.519	0.63
81_F	184_T	0.517	0.63
170_A	174_L	0.517	0.63
62_L	68_R	0.517	0.63
6_S	168_V	0.516	0.63
80_L	182_M	0.515	0.63
56_F	124_L	0.512	0.62
22_P	115_V	0.512	0.62
13_L	172_E	0.511	0.62
54_F	115_V	0.508	0.62
168_V	177_L	0.506	0.61
10_L	66_S	0.506	0.61
120_I	142_L	0.504	0.61
69_A	138_L	0.503	0.61
6_S	9_V	0.502	0.61
62_L	109_P	0.500	0.61
46_I	54_F	0.500	0.61

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
2cfqA	1	0.533	20.9	0.943	Contact Map
4lz6A	1	0.7665	13.2	0.948	Contact Map
4humA	1	0.8173	10.6	0.95	Contact Map
4wgvA	2	0.4162	6.5	0.954	Contact Map
3w4tA	1	0.7665	6	0.955	Contact Map
3mktA	1	0.8071	5.9	0.955	Contact Map
4hw9A	3	0.3198	5.7	0.956	Contact Map
1pw4A	1	0.5279	5.6	0.956	Contact Map
4k0jA	3	0.8376	4.9	0.957	Contact Map
3qe7A	2	0.6751	4.5	0.958	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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