YCHE - ECOLI - GREMLIN Contacts

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YCHE - UPF0056 membrane protein YhcE

UniProt:	P25743	Sequences: MIQTFFDFPVYFKFFIGLFALVNPVGIIPVFISMTSYQTAAARNKTNLTANLSVAIILWISLFLGDTILQLFGISIDSFRIAGGILVVTIAMSMISGKLGEDKQNKQEKSETAVRESIGVVPLALPLMAGPGAISSTIVWGTRYHSISYLFGFFVAIALFALCCWGLFRMAPWLVRVLRQTGINVITRIMGLLLMALGIEFIVTGIKGIFPGLLN	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11342
Length:	215 (195)
Sequences:	2519 (1678)
Seq/√Len:	120.2

ECOLI - YCHE MARC YHGN
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
203_V	209_I	4.260	1.00
39_T	42_A	3.445	1.00
55_A	161_A	3.287	1.00
81_I	203_V	3.253	1.00
58_L	133_A	3.207	1.00
89_T	92_M	2.977	1.00
78_S	200_E	2.875	1.00
165_W	169_R	2.740	1.00
77_D	208_G	2.597	1.00
48_L	165_W	2.574	1.00
15_F	159_L	2.563	1.00
53_S	120_V	2.398	1.00
200_E	204_T	2.380	1.00
57_I	125_L	2.354	1.00
55_A	158_A	2.231	1.00
11_Y	156_A	2.166	1.00
66_D	70_Q	2.138	1.00
179_R	182_G	2.111	1.00
52_L	56_I	2.005	1.00
88_V	202_I	2.001	1.00
51_N	161_A	1.992	1.00
14_F	156_A	1.975	1.00
31_F	35_T	1.941	1.00
15_F	163_C	1.861	1.00
63_F	154_F	1.858	1.00
11_Y	155_V	1.806	1.00
59_W	154_F	1.774	1.00
44_N	169_R	1.774	1.00
54_V	161_A	1.750	1.00
91_A	195_M	1.715	1.00
77_D	80_R	1.712	1.00
93_S	98_K	1.704	1.00
207_K	210_F	1.694	1.00
55_A	59_W	1.690	1.00
22_V	160_F	1.677	1.00
53_S	124_A	1.643	1.00
173_W	176_R	1.615	1.00
85_I	88_V	1.605	1.00
23_N	26_G	1.601	1.00
141_G	150_L	1.562	1.00
58_L	129_A	1.525	1.00
80_R	204_T	1.508	1.00
18_L	137_T	1.500	1.00
81_I	209_I	1.496	1.00
57_I	129_A	1.480	1.00
14_F	140_W	1.474	1.00
85_I	202_I	1.471	1.00
31_F	47_N	1.444	1.00
88_V	198_G	1.402	1.00
58_L	137_T	1.399	1.00
141_G	153_F	1.372	1.00
48_L	169_R	1.359	1.00
59_W	158_A	1.340	1.00
40_A	44_N	1.313	1.00
78_S	203_V	1.313	1.00
31_F	123_L	1.311	1.00
62_L	137_T	1.305	1.00
51_N	164_C	1.304	1.00
94_M	191_G	1.278	1.00
11_Y	159_L	1.269	1.00
170_M	173_W	1.238	0.99
43_R	172_P	1.232	0.99
45_K	49_T	1.230	0.99
38_Q	42_A	1.222	0.99
148_S	151_F	1.221	0.99
119_G	124_A	1.217	0.99
128_M	164_C	1.208	0.99
84_G	202_I	1.201	0.99
162_L	166_G	1.201	0.99
137_T	157_I	1.197	0.99
51_N	165_W	1.186	0.99
26_G	29_P	1.179	0.99
38_Q	46_T	1.179	0.99
62_L	154_F	1.176	0.99
11_Y	15_F	1.176	0.99
81_I	206_I	1.164	0.99
203_V	206_I	1.156	0.99
18_L	157_I	1.152	0.99
64_L	68_I	1.145	0.99
80_R	208_G	1.133	0.99
49_T	117_S	1.126	0.99
50_A	54_V	1.125	0.99
22_V	161_A	1.121	0.99
84_G	205_G	1.120	0.99
40_A	43_R	1.119	0.99
20_A	72_F	1.114	0.99
173_W	177_V	1.105	0.99
75_S	200_E	1.105	0.99
56_I	60_I	1.101	0.99
194_L	198_G	1.098	0.99
27_I	168_F	1.085	0.98
62_L	141_G	1.085	0.98
35_T	43_R	1.068	0.98
178_L	182_G	1.065	0.98
94_M	190_M	1.052	0.98
44_N	48_L	1.049	0.98
94_M	187_T	1.049	0.98
20_A	23_N	1.039	0.98
86_L	195_M	1.037	0.98
48_L	52_L	1.034	0.98
57_I	124_A	1.031	0.98
133_A	137_T	1.029	0.98
81_I	202_I	1.023	0.98
29_P	32_I	1.022	0.98
22_V	133_A	1.015	0.98
32_I	175_V	1.000	0.97
85_I	92_M	0.995	0.97
69_L	196_A	0.987	0.97
21_L	132_G	0.975	0.97
86_L	90_I	0.971	0.97
23_N	87_V	0.968	0.97
21_L	136_S	0.959	0.97
54_V	124_A	0.953	0.96
88_V	195_M	0.950	0.96
88_V	92_M	0.950	0.96
195_M	198_G	0.948	0.96
58_L	134_I	0.945	0.96
60_I	64_L	0.928	0.96
62_L	150_L	0.927	0.96
150_L	154_F	0.900	0.95
81_I	205_G	0.899	0.95
151_F	155_V	0.897	0.95
134_I	138_I	0.882	0.95
99_L	102_D	0.875	0.94
166_G	170_M	0.869	0.94
26_G	30_V	0.865	0.94
152_G	155_V	0.857	0.94
162_L	173_W	0.855	0.94
53_S	119_G	0.854	0.94
68_I	134_I	0.850	0.93
40_A	172_P	0.845	0.93
19_F	163_C	0.843	0.93
31_F	43_R	0.837	0.93
188_R	199_I	0.831	0.93
160_F	163_C	0.824	0.92
82_A	199_I	0.818	0.92
111_E	115_R	0.816	0.92
50_A	118_I	0.809	0.92
31_F	171_A	0.783	0.90
87_V	139_V	0.781	0.90
19_F	167_L	0.772	0.90
31_F	131_P	0.768	0.89
51_N	54_V	0.764	0.89
129_A	157_I	0.763	0.89
79_F	135_S	0.756	0.89
79_F	161_A	0.753	0.89
112_T	115_R	0.752	0.88
67_T	70_Q	0.751	0.88
26_G	164_C	0.749	0.88
75_S	78_S	0.746	0.88
17_G	136_S	0.745	0.88
70_Q	151_F	0.744	0.88
81_I	199_I	0.741	0.88
56_I	147_I	0.739	0.88
27_I	127_L	0.739	0.88
86_L	183_I	0.737	0.87
95_I	191_G	0.734	0.87
23_N	190_M	0.734	0.87
56_I	113_A	0.731	0.87
69_L	138_I	0.730	0.87
79_F	136_S	0.725	0.87
44_N	165_W	0.725	0.87
10_V	144_Y	0.724	0.87
120_V	181_T	0.724	0.87
49_T	53_S	0.723	0.86
124_A	129_A	0.718	0.86
156_A	160_F	0.717	0.86
19_F	160_F	0.716	0.86
27_I	128_M	0.715	0.86
99_L	104_Q	0.713	0.86
42_A	46_T	0.711	0.86
61_S	138_I	0.708	0.85
64_L	67_T	0.708	0.85
49_T	119_G	0.707	0.85
28_I	167_L	0.704	0.85
23_N	29_P	0.704	0.85
58_L	157_I	0.700	0.85
100_G	103_K	0.699	0.85
93_S	96_S	0.692	0.84
91_A	198_G	0.686	0.83
24_P	160_F	0.685	0.83
28_I	168_F	0.683	0.83
23_N	61_S	0.682	0.83
78_S	82_A	0.680	0.83
28_I	32_I	0.674	0.82
45_K	206_I	0.673	0.82
24_P	131_P	0.671	0.82
23_N	133_A	0.671	0.82
181_T	185_V	0.670	0.82
97_G	188_R	0.666	0.82
129_A	191_G	0.665	0.82
83_G	135_S	0.663	0.81
97_G	191_G	0.662	0.81
91_A	184_N	0.658	0.81
20_A	192_L	0.658	0.81
132_G	188_R	0.657	0.81
112_T	180_Q	0.646	0.80
18_L	58_L	0.645	0.80
31_F	75_S	0.642	0.79
189_I	193_L	0.639	0.79
133_A	157_I	0.635	0.78
206_I	210_F	0.634	0.78
91_A	95_I	0.627	0.78
15_F	19_F	0.625	0.77
113_A	210_F	0.622	0.77
151_F	154_F	0.620	0.77
35_T	38_Q	0.619	0.77
20_A	77_D	0.614	0.76
72_F	139_V	0.612	0.76
27_I	86_L	0.611	0.76
180_Q	184_N	0.611	0.76
117_S	206_I	0.608	0.75
77_D	203_V	0.605	0.75
86_L	137_T	0.604	0.75
15_F	156_A	0.603	0.75
159_L	177_V	0.600	0.74
20_A	195_M	0.599	0.74
83_G	94_M	0.597	0.74
47_N	186_I	0.597	0.74
93_S	102_D	0.595	0.74
155_V	159_L	0.592	0.74
71_L	197_L	0.592	0.74
145_H	152_G	0.590	0.73
17_G	21_L	0.585	0.73
125_L	192_L	0.585	0.73
25_V	186_I	0.582	0.72
69_L	75_S	0.579	0.72
23_N	82_A	0.578	0.72
79_F	192_L	0.575	0.71
46_T	50_A	0.572	0.71
69_L	83_G	0.571	0.71
62_L	189_I	0.570	0.71
21_L	197_L	0.570	0.71
61_S	128_M	0.569	0.71
17_G	192_L	0.565	0.70
97_G	184_N	0.565	0.70
111_E	166_G	0.564	0.70
132_G	194_L	0.563	0.70
19_F	93_S	0.562	0.70
190_M	201_F	0.562	0.70
121_V	194_L	0.561	0.70
127_L	130_G	0.560	0.69
72_F	198_G	0.559	0.69
41_A	44_N	0.557	0.69
50_A	124_A	0.555	0.69
17_G	73_G	0.554	0.69
87_V	197_L	0.553	0.68
186_I	210_F	0.552	0.68
42_A	45_K	0.550	0.68
29_P	128_M	0.550	0.68
95_I	198_G	0.550	0.68
98_K	101_E	0.549	0.68
148_S	177_V	0.545	0.67
74_I	100_G	0.542	0.67
97_G	190_M	0.541	0.67
32_I	186_I	0.540	0.67
174_L	178_L	0.540	0.67
34_M	118_I	0.539	0.66
12_F	64_L	0.539	0.66
152_G	156_A	0.537	0.66
62_L	157_I	0.536	0.66
57_I	170_M	0.536	0.66
86_L	127_L	0.532	0.65
129_A	193_L	0.532	0.65
67_T	189_I	0.531	0.65
53_S	61_S	0.530	0.65
135_S	138_I	0.529	0.65
65_G	130_G	0.528	0.65
97_G	194_L	0.527	0.65
70_Q	176_R	0.526	0.65
54_V	128_M	0.525	0.64
119_G	123_L	0.524	0.64
140_W	153_F	0.523	0.64
41_A	177_V	0.522	0.64
118_I	123_L	0.520	0.64
99_L	103_K	0.520	0.64
69_L	79_F	0.516	0.63
185_V	189_I	0.516	0.63
27_I	123_L	0.516	0.63
32_I	123_L	0.515	0.63
29_P	127_L	0.515	0.63
21_L	57_I	0.512	0.63
78_S	209_I	0.512	0.63
149_Y	152_G	0.511	0.62
177_V	180_Q	0.510	0.62
79_F	210_F	0.508	0.62
65_G	122_P	0.506	0.62
25_V	190_M	0.506	0.62
18_L	178_L	0.503	0.61
148_S	176_R	0.502	0.61
64_L	139_V	0.500	0.61
45_K	166_G	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	0.5209	20.6	0.948	Contact Map
4w6vA	1	0.4698	17.6	0.95	Contact Map
4k0jA	3	0.8512	16.2	0.95	Contact Map
3w9iA	3	0.9256	11.7	0.953	Contact Map
4xnjA	1	0.9442	11.1	0.954	Contact Map
3ne5A	3	0.9395	8.9	0.956	Contact Map
4hw9A	3	0.307	7.5	0.957	Contact Map
1pw4A	1	0.5163	7.5	0.957	Contact Map
4kjrA	3	0.3581	6.9	0.958	Contact Map
4wgvA	2	0.3907	6.7	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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