YCGI - BACSU - GREMLIN Contacts

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YCGI - Uncharacterized protein YcgI

UniProt:	O31473	Sequences: MTQQYIVEPKKGLGLKLKKGQILKVVDVEGQQVADFVAYHAKDFYEHLDQGATIDANHSIHVKVNDHLYSNLYKPMLTLIEDTVGKHDLLLPACRPDMNRLLYGKQKDEFQDTCYDNMNRALEQFGVPKPHMHYPFAIFMNTVLDEKGNLSVETPLSNAGDYVRLRAEMDLIVAFSSCPIEKGKCNGDSVTSIRVEVS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	198 (189)
Sequences:	1491 (776)
Seq/√Len:	56.4

BACSU - YCGI

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
78_T	168_E	4.528	1.00
24_K	164_R	3.414	1.00
76_M	169_M	3.316	1.00
78_T	166_R	3.140	1.00
42_K	170_D	2.958	1.00
36_F	138_I	2.957	1.00
38_A	77_L	2.807	1.00
113_T	116_D	2.793	1.00
22_I	80_I	2.760	1.00
40_H	169_M	2.703	1.00
34_A	193_I	2.516	1.00
145_D	149_N	2.484	1.00
16_K	41_A	2.408	1.00
18_K	21_Q	2.400	1.00
158_N	161_D	2.375	1.00
27_D	30_G	2.362	1.00
62_V	79_L	2.239	1.00
22_I	164_R	2.204	1.00
64_V	81_E	2.188	1.00
46_E	70_S	2.183	1.00
70_S	76_M	2.160	1.00
83_T	162_Y	2.045	1.00
59_S	66_D	2.041	1.00
96_P	113_T	2.006	1.00
67_H	75_P	1.957	1.00
23_L	173_V	1.952	1.00
25_V	138_I	1.919	1.00
74_K	169_M	1.881	1.00
22_I	166_R	1.878	1.00
27_D	157_S	1.865	1.00
46_E	74_K	1.845	0.99
8_E	11_K	1.838	0.99
24_K	162_Y	1.763	0.99
14_G	121_A	1.708	0.99
14_G	124_Q	1.699	0.99
28_V	34_A	1.687	0.99
81_E	164_R	1.672	0.99
6_I	194_R	1.635	0.99
7_V	195_V	1.629	0.99
23_L	165_L	1.604	0.98
40_H	46_E	1.595	0.98
138_I	163_V	1.562	0.98
127_V	131_H	1.537	0.98
48_L	89_L	1.521	0.98
176_S	179_P	1.507	0.98
61_H	86_K	1.447	0.97
46_E	71_N	1.444	0.97
70_S	171_L	1.430	0.97
23_L	195_V	1.395	0.96
95_R	98_M	1.389	0.96
175_F	195_V	1.379	0.96
84_V	156_L	1.367	0.96
39_Y	174_A	1.364	0.96
12_G	117_N	1.343	0.95
8_E	13_L	1.332	0.95
60_I	90_L	1.304	0.95
56_A	69_Y	1.299	0.95
46_E	169_M	1.289	0.94
112_D	120_R	1.285	0.94
121_A	124_Q	1.280	0.94
77_L	171_L	1.273	0.94
94_C	99_N	1.268	0.94
82_D	85_G	1.255	0.93
19_K	170_D	1.234	0.93
77_L	165_L	1.226	0.93
44_F	172_I	1.193	0.92
34_A	175_F	1.186	0.91
117_N	176_S	1.183	0.91
93_A	114_C	1.179	0.91
84_V	87_H	1.174	0.91
118_M	176_S	1.157	0.90
67_H	78_T	1.157	0.90
60_I	144_L	1.154	0.90
117_N	167_A	1.151	0.90
28_V	194_R	1.133	0.89
104_G	109_E	1.131	0.89
52_A	73_Y	1.121	0.89
7_V	13_L	1.121	0.89
41_A	172_I	1.115	0.89
122_L	174_A	1.096	0.88
32_Q	35_D	1.094	0.88
35_D	94_C	1.085	0.87
81_E	162_Y	1.065	0.86
94_C	178_C	1.055	0.86
167_A	171_L	1.045	0.85
96_P	116_D	1.039	0.85
49_D	52_A	1.033	0.84
80_I	164_R	1.007	0.83
41_A	76_M	1.000	0.82
37_V	135_P	0.993	0.82
18_K	170_D	0.987	0.82
27_D	159_A	0.987	0.82
17_L	23_L	0.987	0.82
99_N	113_T	0.979	0.81
29_E	192_S	0.971	0.81
111_Q	122_L	0.965	0.80
40_H	74_K	0.965	0.80
86_K	156_L	0.955	0.79
30_G	157_S	0.939	0.78
37_V	118_M	0.929	0.78
143_V	151_S	0.925	0.77
18_K	41_A	0.922	0.77
82_D	87_H	0.908	0.76
89_L	135_P	0.904	0.76
46_E	72_L	0.901	0.75
53_T	139_F	0.898	0.75
23_L	36_F	0.895	0.75
117_N	178_C	0.892	0.75
7_V	104_G	0.879	0.74
98_M	185_C	0.878	0.73
91_L	182_K	0.866	0.72
93_A	178_C	0.863	0.72
136_F	163_V	0.862	0.72
29_E	191_T	0.855	0.71
48_L	68_L	0.850	0.71
94_C	114_C	0.850	0.71
100_R	105_K	0.849	0.71
47_H	131_H	0.842	0.70
83_T	161_D	0.841	0.70
35_D	93_A	0.840	0.70
17_L	21_Q	0.838	0.70
93_A	118_M	0.825	0.69
114_C	117_N	0.805	0.67
40_H	43_D	0.798	0.66
16_K	42_K	0.798	0.66
76_M	171_L	0.794	0.66
120_R	124_Q	0.777	0.64
36_F	48_L	0.766	0.63
17_L	77_L	0.764	0.63
44_F	127_V	0.761	0.62
27_D	31_Q	0.758	0.62
180_I	183_G	0.758	0.62
57_N	131_H	0.755	0.62
32_Q	114_C	0.753	0.62
7_V	34_A	0.753	0.62
45_Y	131_H	0.752	0.62
79_L	163_V	0.752	0.62
90_L	144_L	0.751	0.61
59_S	63_K	0.750	0.61
104_G	110_F	0.750	0.61
67_H	166_R	0.746	0.61
37_V	133_H	0.746	0.61
10_K	112_D	0.743	0.61
24_K	81_E	0.742	0.60
35_D	178_C	0.741	0.60
55_D	58_H	0.737	0.60
167_A	178_C	0.735	0.60
152_V	184_K	0.734	0.60
57_N	69_Y	0.727	0.59
35_D	114_C	0.727	0.59
97_D	101_L	0.726	0.59
15_L	171_L	0.724	0.59
16_K	172_I	0.723	0.59
40_H	70_S	0.722	0.58
105_K	109_E	0.719	0.58
37_V	174_A	0.713	0.57
106_Q	153_E	0.709	0.57
33_V	140_M	0.707	0.57
53_T	62_V	0.704	0.56
58_H	66_D	0.703	0.56
12_G	167_A	0.701	0.56
91_L	152_V	0.701	0.56
55_D	180_I	0.700	0.56
106_Q	109_E	0.700	0.56
118_M	135_P	0.698	0.56
157_S	161_D	0.697	0.56
42_K	74_K	0.696	0.56
35_D	176_S	0.687	0.55
93_A	176_S	0.684	0.54
73_Y	180_I	0.683	0.54
140_M	152_V	0.682	0.54
102_L	184_K	0.680	0.54
47_H	52_A	0.680	0.54
122_L	132_M	0.678	0.54
36_F	175_F	0.676	0.53
68_L	77_L	0.674	0.53
57_N	67_H	0.673	0.53
55_D	73_Y	0.670	0.53
132_M	174_A	0.669	0.53
99_N	177_S	0.667	0.52
32_Q	94_C	0.667	0.52
62_V	68_L	0.656	0.51
52_A	69_Y	0.652	0.51
93_A	135_P	0.652	0.51
83_T	163_V	0.649	0.51
57_N	66_D	0.647	0.50
106_Q	111_Q	0.646	0.50
51_G	134_Y	0.643	0.50
79_L	151_S	0.642	0.50
31_Q	192_S	0.640	0.50
53_T	57_N	0.636	0.49
61_H	144_L	0.634	0.49
35_D	135_P	0.633	0.49
26_V	162_Y	0.633	0.49
9_P	140_M	0.632	0.49
74_K	127_V	0.630	0.48
52_A	70_S	0.629	0.48
63_K	66_D	0.628	0.48
31_Q	161_D	0.627	0.48
41_A	45_Y	0.622	0.48
77_L	163_V	0.622	0.48
89_L	174_A	0.622	0.48
114_C	178_C	0.620	0.47
143_V	153_E	0.616	0.47
99_N	111_Q	0.614	0.47
15_L	175_F	0.612	0.47
145_D	151_S	0.610	0.46
58_H	86_K	0.609	0.46
52_A	92_P	0.608	0.46
60_I	148_G	0.606	0.46
83_T	164_R	0.600	0.45
163_V	184_K	0.599	0.45
17_L	170_D	0.598	0.45
75_P	168_E	0.598	0.45
158_N	163_V	0.597	0.45
96_P	100_R	0.596	0.45
119_N	132_M	0.594	0.45
136_F	191_T	0.590	0.44
91_L	150_L	0.589	0.44
111_Q	181_E	0.588	0.44
33_V	177_S	0.588	0.44
114_C	140_M	0.586	0.44
20_G	159_A	0.585	0.44
127_V	172_I	0.583	0.43
46_E	52_A	0.583	0.43
92_P	135_P	0.579	0.43
39_Y	93_A	0.577	0.43
50_Q	134_Y	0.577	0.43
155_P	186_N	0.574	0.42
100_R	106_Q	0.574	0.42
52_A	55_D	0.573	0.42
168_E	171_L	0.569	0.42
115_Y	129_K	0.569	0.42
21_Q	167_A	0.568	0.42
83_T	160_G	0.567	0.42
142_T	150_L	0.567	0.42
69_Y	75_P	0.565	0.41
35_D	137_A	0.563	0.41
122_L	127_V	0.562	0.41
29_E	189_S	0.561	0.41
97_D	183_G	0.559	0.41
27_D	37_V	0.558	0.41
55_D	183_G	0.558	0.41
142_T	185_C	0.557	0.41
53_T	118_M	0.555	0.40
31_Q	187_G	0.552	0.40
55_D	59_S	0.551	0.40
81_E	125_F	0.551	0.40
7_V	11_K	0.550	0.40
30_G	192_S	0.550	0.40
37_V	89_L	0.549	0.40
118_M	174_A	0.545	0.39
64_V	146_E	0.544	0.39
165_L	193_I	0.543	0.39
93_A	98_M	0.541	0.39
51_G	70_S	0.541	0.39
51_G	171_L	0.540	0.39
17_L	177_S	0.534	0.38
18_K	189_S	0.532	0.38
140_M	185_C	0.531	0.38
25_V	38_A	0.531	0.38
37_V	53_T	0.530	0.38
144_L	151_S	0.529	0.38
62_V	66_D	0.526	0.37
16_K	125_F	0.525	0.37
70_S	169_M	0.522	0.37
50_Q	54_I	0.521	0.37
39_Y	133_H	0.521	0.37
80_I	159_A	0.515	0.36
64_V	149_N	0.515	0.36
43_D	72_L	0.515	0.36
145_D	148_G	0.514	0.36
17_L	173_V	0.514	0.36
66_D	94_C	0.511	0.36
5_Y	123_E	0.510	0.36
7_V	132_M	0.506	0.35
48_L	136_F	0.505	0.35
25_V	118_M	0.504	0.35
14_G	172_I	0.503	0.35
119_N	173_V	0.502	0.35
139_F	150_L	0.501	0.35
24_K	154_T	0.501	0.35
115_Y	119_N	0.501	0.35
8_E	42_K	0.500	0.35

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
3oruA	2	0.9848	100	0.091	Contact Map
3di4A	2	0.9545	100	0.179	Contact Map
1pmrA	1	0.3889	19.7	0.961	Contact Map
1ytmA	1	0.7626	18	0.962	Contact Map
2olrA	1	0.7525	13.8	0.964	Contact Map
2l9yA	1	0.4697	13.7	0.964	Contact Map
3pg6A	2	0.5051	13.3	0.964	Contact Map
1jdqA	1	0.3283	10.7	0.965	Contact Map
2p4gA	2	0.4141	8.1	0.967	Contact Map
2w47A	1	0.2374	7.7	0.968	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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