YABS - BACSU - GREMLIN Contacts

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YABS - Uncharacterized protein YabS

UniProt:	P37561	Sequences: MNNGHLNQILLITDGCSNHGEDPLAMAAFAKEQGITVNVIGIMEENQIDPEAMKEVEGIALAGGGVHQVVYASQLSQTVQMVTKKAMTQTLQGVVNQELKQILGKNVEMEELSPEKRGEVMEVVDELGETVHLQVLVLVDTSASMAPKLPTVKEALIDLSVSLNSRIGNNEFAMCIFPGKKQEVELVLNWTPKLQSLSTLFAKLSTGGITPTGPAIREATLQFEKIRSRRGMLADDERRFDEFGM	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	245 (195)
Sequences:	3275 (1918)
Seq/√Len:	137.4

BACSU - YABS

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
157_I	201_F	4.546	1.00
144_S	210_T	3.488	1.00
141_T	176_I	3.337	1.00
139_V	156_L	2.813	1.00
174_M	185_E	2.740	1.00
30_A	35_I	2.724	1.00
173_A	187_V	2.603	1.00
185_E	190_W	2.580	1.00
28_A	32_E	2.548	1.00
161_V	197_L	2.384	1.00
176_I	184_V	2.187	1.00
39_V	60_A	2.152	1.00
217_R	221_L	2.099	1.00
139_V	152_V	2.030	1.00
148_K	205_S	1.999	1.00
31_K	61_L	1.944	1.00
17_S	55_E	1.930	1.00
61_L	65_G	1.910	1.00
160_S	200_L	1.808	1.00
137_V	156_L	1.802	1.00
117_R	120_V	1.751	1.00
137_V	159_L	1.749	1.00
23_P	27_A	1.745	1.00
141_T	149_L	1.739	1.00
150_P	153_K	1.699	1.00
198_S	202_A	1.697	1.00
24_L	58_G	1.686	1.00
118_G	121_M	1.682	1.00
190_W	199_T	1.677	1.00
120_V	123_V	1.676	1.00
47_Q	57_E	1.673	1.00
39_V	56_V	1.662	1.00
192_P	195_Q	1.651	1.00
118_G	123_V	1.633	1.00
160_S	196_S	1.616	1.00
218_E	222_Q	1.607	1.00
136_L	173_A	1.584	1.00
138_L	219_A	1.582	1.00
116_K	121_M	1.566	1.00
181_K	218_E	1.537	1.00
177_F	212_T	1.522	1.00
146_A	205_S	1.491	1.00
179_G	209_I	1.490	1.00
224_E	229_R	1.487	1.00
116_K	119_E	1.471	1.00
11_L	39_V	1.464	1.00
121_M	124_V	1.461	1.00
141_T	206_T	1.460	1.00
71_Y	74_Q	1.458	1.00
185_E	196_S	1.439	1.00
160_S	172_F	1.429	1.00
190_W	195_Q	1.411	1.00
183_E	186_L	1.392	1.00
41_G	75_L	1.391	1.00
136_L	187_V	1.362	1.00
9_I	37_V	1.356	1.00
181_K	214_P	1.352	1.00
186_L	189_N	1.348	1.00
116_K	120_V	1.338	1.00
9_I	35_I	1.330	1.00
60_A	66_V	1.287	1.00
61_L	64_G	1.280	1.00
196_S	200_L	1.269	1.00
138_L	175_C	1.267	1.00
156_L	200_L	1.261	1.00
193_K	197_L	1.246	1.00
117_R	121_M	1.239	1.00
117_R	124_V	1.226	1.00
175_C	219_A	1.221	1.00
9_I	30_A	1.195	1.00
74_Q	77_Q	1.190	1.00
140_D	144_S	1.186	1.00
119_E	123_V	1.147	0.99
164_N	193_K	1.139	0.99
7_N	229_R	1.135	0.99
122_E	125_D	1.131	0.99
11_L	59_I	1.126	0.99
116_K	122_E	1.114	0.99
69_V	78_T	1.112	0.99
75_L	87_M	1.111	0.99
205_S	212_T	1.109	0.99
116_K	124_V	1.105	0.99
164_N	169_N	1.103	0.99
157_I	197_L	1.101	0.99
67_H	85_K	1.100	0.99
24_L	28_A	1.094	0.99
136_L	219_A	1.079	0.99
23_P	26_M	1.063	0.99
27_A	31_K	1.056	0.99
167_I	171_E	1.045	0.99
175_C	181_K	1.045	0.99
27_A	34_G	1.038	0.99
118_G	124_V	1.034	0.99
171_E	229_R	1.029	0.99
119_E	124_V	1.024	0.99
153_K	157_I	1.016	0.98
201_F	204_L	1.013	0.98
136_L	175_C	1.013	0.98
224_E	228_S	1.011	0.98
174_M	203_K	1.008	0.98
183_E	218_E	1.006	0.98
41_G	56_V	0.995	0.98
154_E	201_F	0.993	0.98
196_S	204_L	0.985	0.98
12_I	39_V	0.985	0.98
17_S	23_P	0.982	0.98
155_A	159_L	0.978	0.98
9_I	61_L	0.964	0.98
57_E	61_L	0.958	0.98
200_L	204_L	0.957	0.98
180_K	214_P	0.956	0.98
143_A	208_G	0.956	0.98
15_G	56_V	0.955	0.98
10_L	86_A	0.954	0.98
154_E	157_I	0.948	0.98
118_G	122_E	0.947	0.98
82_V	87_M	0.939	0.97
182_Q	206_T	0.935	0.97
74_Q	78_T	0.926	0.97
120_V	124_V	0.925	0.97
165_S	212_T	0.914	0.97
13_T	41_G	0.912	0.97
72_A	75_L	0.909	0.97
177_F	210_T	0.907	0.97
137_V	173_A	0.907	0.97
14_D	210_T	0.901	0.97
139_V	174_M	0.896	0.97
117_R	122_E	0.894	0.97
138_L	213_G	0.888	0.96
71_Y	87_M	0.887	0.96
119_E	122_E	0.886	0.96
19_H	23_P	0.877	0.96
178_P	210_T	0.870	0.96
217_R	220_T	0.863	0.96
41_G	45_E	0.862	0.96
206_T	220_T	0.862	0.96
14_D	18_N	0.859	0.96
160_S	163_L	0.851	0.95
148_K	151_T	0.841	0.95
171_E	188_L	0.836	0.95
139_V	203_K	0.833	0.95
73_S	76_S	0.831	0.95
16_C	46_N	0.831	0.95
163_L	175_C	0.831	0.95
26_M	29_F	0.825	0.95
143_A	210_T	0.824	0.95
117_R	123_V	0.819	0.94
134_Q	171_E	0.819	0.94
41_G	60_A	0.819	0.94
144_S	209_I	0.815	0.94
65_G	68_Q	0.815	0.94
197_L	201_F	0.814	0.94
153_K	204_L	0.809	0.94
185_E	199_T	0.809	0.94
47_Q	82_V	0.803	0.94
145_M	152_V	0.802	0.94
29_F	67_H	0.799	0.94
46_N	54_K	0.792	0.93
27_A	37_V	0.782	0.93
57_E	63_G	0.780	0.93
40_I	58_G	0.779	0.93
56_V	60_A	0.778	0.93
145_M	151_T	0.770	0.92
42_I	72_A	0.765	0.92
213_G	218_E	0.764	0.92
200_L	203_K	0.762	0.92
224_E	227_R	0.759	0.92
76_S	82_V	0.759	0.92
27_A	59_I	0.758	0.92
152_V	156_L	0.757	0.92
72_A	78_T	0.757	0.92
54_K	57_E	0.756	0.92
153_K	200_L	0.750	0.91
145_M	210_T	0.749	0.91
29_F	32_E	0.744	0.91
196_S	201_F	0.740	0.91
140_D	210_T	0.738	0.91
67_H	71_Y	0.735	0.91
142_S	210_T	0.734	0.91
138_L	215_A	0.724	0.90
225_K	228_S	0.723	0.90
138_L	177_F	0.722	0.90
7_N	34_G	0.722	0.90
7_N	30_A	0.721	0.90
176_I	206_T	0.714	0.89
138_L	141_T	0.709	0.89
85_K	88_T	0.709	0.89
146_A	207_G	0.708	0.89
4_G	7_N	0.707	0.89
19_H	26_M	0.706	0.89
149_L	205_S	0.705	0.89
188_L	228_S	0.703	0.89
32_E	62_A	0.699	0.88
41_G	59_I	0.694	0.88
145_M	149_L	0.693	0.88
180_K	206_T	0.693	0.88
42_I	71_Y	0.692	0.88
43_M	69_V	0.692	0.88
10_L	87_M	0.689	0.88
67_H	78_T	0.687	0.87
41_G	72_A	0.685	0.87
196_S	199_T	0.680	0.87
82_V	85_K	0.678	0.87
153_K	203_K	0.675	0.86
135_V	157_I	0.672	0.86
16_C	55_E	0.670	0.86
14_D	42_I	0.667	0.86
193_K	198_S	0.659	0.85
198_S	201_F	0.658	0.85
14_D	87_M	0.658	0.85
184_V	203_K	0.658	0.85
145_M	177_F	0.654	0.85
196_S	203_K	0.651	0.84
133_L	170_N	0.650	0.84
14_D	66_V	0.644	0.84
165_S	172_F	0.644	0.84
138_L	155_A	0.643	0.84
142_S	145_M	0.641	0.84
143_A	209_I	0.641	0.84
65_G	70_V	0.640	0.83
138_L	176_I	0.639	0.83
143_A	178_P	0.639	0.83
184_V	199_T	0.634	0.83
176_I	218_E	0.632	0.83
129_E	162_S	0.629	0.82
146_A	152_V	0.628	0.82
36_T	58_G	0.612	0.81
29_F	73_S	0.611	0.81
138_L	149_L	0.610	0.80
141_T	205_S	0.608	0.80
64_G	67_H	0.608	0.80
167_I	170_N	0.603	0.80
116_K	123_V	0.600	0.79
43_M	47_Q	0.598	0.79
179_G	211_P	0.597	0.79
77_Q	85_K	0.595	0.79
171_E	225_K	0.594	0.79
205_S	210_T	0.590	0.78
77_Q	84_K	0.588	0.78
216_I	220_T	0.588	0.78
132_H	177_F	0.586	0.78
9_I	64_G	0.584	0.78
134_Q	230_R	0.582	0.77
211_P	214_P	0.580	0.77
186_L	227_R	0.580	0.77
83_T	87_M	0.577	0.77
143_A	180_K	0.575	0.76
177_F	215_A	0.573	0.76
19_H	45_E	0.573	0.76
151_T	177_F	0.568	0.76
8_Q	82_V	0.566	0.75
25_A	29_F	0.563	0.75
209_I	221_L	0.562	0.75
122_E	126_E	0.559	0.74
196_S	224_E	0.556	0.74
72_A	87_M	0.552	0.74
165_S	185_E	0.551	0.73
85_K	90_T	0.550	0.73
142_S	149_L	0.546	0.73
70_V	88_T	0.545	0.73
25_A	40_I	0.545	0.73
135_V	172_F	0.543	0.72
42_I	75_L	0.543	0.72
158_D	219_A	0.542	0.72
120_V	125_D	0.541	0.72
62_A	67_H	0.539	0.72
172_F	176_I	0.539	0.72
65_G	82_V	0.539	0.72
173_A	209_I	0.538	0.72
31_K	87_M	0.534	0.71
144_S	212_T	0.531	0.71
187_V	228_S	0.531	0.71
194_L	198_S	0.530	0.70
62_A	73_S	0.530	0.70
173_A	188_L	0.530	0.70
166_R	170_N	0.527	0.70
47_Q	68_Q	0.526	0.70
14_D	74_Q	0.526	0.70
161_V	193_K	0.522	0.69
148_K	155_A	0.519	0.69
165_S	193_K	0.517	0.69
18_N	23_P	0.513	0.68
43_M	72_A	0.513	0.68
11_L	60_A	0.510	0.68
85_K	89_Q	0.508	0.67
141_T	183_E	0.506	0.67
165_S	171_E	0.504	0.67
150_P	216_I	0.504	0.67
189_N	199_T	0.504	0.67
198_S	217_R	0.504	0.67
84_K	88_T	0.502	0.66
38_N	85_K	0.500	0.66

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
4cn9A	1	0.8163	100	0.431	Contact Map
3ragA	1	0.9224	100	0.438	Contact Map
3zqkA	1	0.4694	99.8	0.636	Contact Map
4igiA	1	0.4653	99.7	0.643	Contact Map
4bj3A	1	0.4612	99.7	0.643	Contact Map
4okrA	1	0.4939	99.7	0.647	Contact Map
2xggA	2	0.4816	99.7	0.647	Contact Map
1ijbA	1	0.5061	99.7	0.651	Contact Map
1v7pC	1	0.4612	99.7	0.654	Contact Map
1atzA	1	0.4776	99.7	0.655	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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