YRRS - BACSU - GREMLIN Contacts

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YRRS - Uncharacterized membrane protein YrrS

UniProt:	O32031	Sequences: MSNNQSRYENRDKRRKANLVLNILIAIVSILIVVVAANLFINSPSSKDVSKDSETAQKQESPASGKTEKKSDEDIKDSKKDTSDSEKDSEKSSDSDSKKDDSSSKKDDSDSDSSSDSAGDGLKDAKVTEGGSSSDVEKTYENPDWKAVGTEQTGEHAATYDSSSQDWAEMLKAISYATGVSTDNMTVLWLGNNGSPQDAKGKILDKATGNKYQVTITWVDEKGWKPTKVEKLK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	233 (210)
Sequences:	140 (116)
Seq/√Len:	8.0

BACSU - YRRS

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
174_I	201_G	6.639	1.00
154_G	220_D	4.827	0.99
188_L	204_L	4.337	0.98
156_H	166_D	3.691	0.96
22_N	28_V	3.375	0.93
158_A	170_M	3.245	0.91
18_N	28_V	2.977	0.87
205_D	209_G	2.577	0.78
33_V	36_A	2.545	0.77
171_L	187_V	2.490	0.75
136_V	228_K	2.482	0.75
24_L	160_Y	2.350	0.71
42_N	188_L	2.338	0.70
213_Q	232_L	2.315	0.69
25_I	32_I	2.252	0.67
179_G	185_M	2.139	0.63
184_N	220_D	2.120	0.62
167_W	190_L	2.081	0.61
18_N	22_N	2.048	0.59
164_S	179_G	2.016	0.58
21_L	25_I	1.991	0.57
21_L	177_A	1.987	0.57
28_V	32_I	1.973	0.56
193_N	216_I	1.888	0.53
136_V	213_Q	1.875	0.53
145_W	226_P	1.867	0.52
67_T	222_K	1.850	0.51
22_N	32_I	1.840	0.51
135_D	211_K	1.830	0.51
167_W	170_M	1.784	0.49
20_V	40_F	1.778	0.49
18_N	32_I	1.705	0.46
157_A	210_N	1.694	0.45
148_V	173_A	1.686	0.45
18_N	21_L	1.667	0.44
15_R	158_A	1.656	0.44
170_M	199_A	1.641	0.43
28_V	36_A	1.638	0.43
149_G	176_Y	1.583	0.41
170_M	229_V	1.576	0.40
155_E	220_D	1.565	0.40
128_T	203_I	1.540	0.39
160_Y	229_V	1.533	0.39
18_N	25_I	1.516	0.38
22_N	25_I	1.505	0.38
18_N	36_A	1.497	0.37
25_I	31_L	1.480	0.37
15_R	170_M	1.415	0.34
160_Y	170_M	1.400	0.34
186_T	208_T	1.389	0.33
167_W	199_A	1.388	0.33
22_N	36_A	1.388	0.33
117_S	120_D	1.370	0.33
170_M	216_I	1.359	0.32
15_R	34_V	1.344	0.32
69_K	72_D	1.318	0.31
184_N	221_E	1.281	0.29
21_L	26_A	1.267	0.29
117_S	183_D	1.259	0.29
39_L	221_E	1.246	0.28
142_N	176_Y	1.245	0.28
166_D	211_K	1.243	0.28
45_S	57_Q	1.219	0.27
33_V	74_D	1.211	0.27
21_L	178_T	1.208	0.27
171_L	182_T	1.203	0.27
155_E	221_E	1.200	0.27
162_S	167_W	1.194	0.27
163_S	168_A	1.192	0.27
149_G	173_A	1.170	0.26
40_F	68_E	1.167	0.26
25_I	28_V	1.153	0.25
16_K	31_L	1.152	0.25
180_V	217_T	1.139	0.25
180_V	208_T	1.138	0.25
142_N	213_Q	1.125	0.24
192_N	204_L	1.116	0.24
133_S	213_Q	1.093	0.23
42_N	204_L	1.091	0.23
150_T	169_E	1.083	0.23
136_V	156_H	1.065	0.23
180_V	193_N	1.062	0.23
189_W	222_K	1.061	0.23
159_T	189_W	1.059	0.22
118_A	212_Y	1.055	0.22
192_N	200_K	1.048	0.22
136_V	166_D	1.047	0.22
96_D	108_D	1.042	0.22
223_G	226_P	1.030	0.22
99_K	111_S	1.028	0.22
151_E	165_Q	1.027	0.22
148_V	195_S	1.015	0.21
200_K	207_A	1.001	0.21
25_I	36_A	0.997	0.21
24_L	230_E	0.996	0.21
202_K	207_A	0.995	0.21
37_A	42_N	0.986	0.20
26_A	183_D	0.981	0.20
158_A	211_K	0.971	0.20
172_K	194_G	0.970	0.20
98_K	108_D	0.970	0.20
127_V	216_I	0.969	0.20
180_V	188_L	0.969	0.20
124_D	183_D	0.968	0.20
26_A	171_L	0.965	0.20
23_I	39_L	0.961	0.20
182_T	187_V	0.954	0.20
171_L	227_T	0.954	0.20
145_W	150_T	0.950	0.20
24_L	166_D	0.950	0.20
27_I	231_K	0.947	0.19
55_T	183_D	0.943	0.19
152_Q	170_M	0.942	0.19
153_T	184_N	0.939	0.19
178_T	199_A	0.932	0.19
149_G	152_Q	0.930	0.19
104_S	109_S	0.926	0.19
32_I	170_M	0.925	0.19
135_D	158_A	0.919	0.19
204_L	213_Q	0.916	0.19
43_S	202_K	0.913	0.19
156_H	178_T	0.909	0.18
17_A	230_E	0.905	0.18
125_A	196_P	0.905	0.18
27_I	115_S	0.901	0.18
160_Y	186_T	0.900	0.18
22_N	176_Y	0.898	0.18
36_A	40_F	0.889	0.18
16_K	156_H	0.884	0.18
72_D	77_D	0.878	0.18
21_L	27_I	0.876	0.18
152_Q	169_E	0.870	0.18
158_A	191_G	0.867	0.17
192_N	196_P	0.861	0.17
22_N	201_G	0.854	0.17
160_Y	199_A	0.852	0.17
154_G	228_K	0.848	0.17
171_L	175_S	0.847	0.17
131_G	170_M	0.841	0.17
159_T	167_W	0.838	0.17
22_N	35_V	0.833	0.17
153_T	203_I	0.830	0.17
66_K	227_T	0.827	0.17
36_A	167_W	0.821	0.16
153_T	196_P	0.820	0.16
16_K	202_K	0.807	0.16
136_V	145_W	0.805	0.16
34_V	153_T	0.804	0.16
48_D	219_V	0.802	0.16
15_R	216_I	0.800	0.16
198_D	203_I	0.799	0.16
175_S	185_M	0.799	0.16
15_R	172_K	0.792	0.16
66_K	182_T	0.791	0.16
39_L	205_D	0.790	0.16
144_D	203_I	0.786	0.16
32_I	185_M	0.786	0.16
220_D	228_K	0.784	0.16
109_S	183_D	0.784	0.16
22_N	31_L	0.783	0.16
76_K	146_K	0.783	0.16
21_L	32_I	0.782	0.16
7_R	15_R	0.780	0.16
158_A	202_K	0.775	0.15
200_K	208_T	0.770	0.15
175_S	213_Q	0.769	0.15
164_S	168_A	0.767	0.15
67_T	75_I	0.764	0.15
213_Q	228_K	0.764	0.15
16_K	215_T	0.763	0.15
40_F	55_T	0.760	0.15
52_D	183_D	0.759	0.15
125_A	130_G	0.758	0.15
193_N	212_Y	0.755	0.15
11_R	28_V	0.754	0.15
29_S	36_A	0.749	0.15
189_W	202_K	0.744	0.15
11_R	177_A	0.732	0.14
28_V	225_K	0.731	0.14
67_T	71_S	0.729	0.14
176_Y	201_G	0.729	0.14
140_Y	228_K	0.728	0.14
57_Q	109_S	0.727	0.14
163_S	209_G	0.726	0.14
178_T	216_I	0.726	0.14
174_I	191_G	0.719	0.14
28_V	31_L	0.719	0.14
228_K	232_L	0.717	0.14
39_L	213_Q	0.717	0.14
101_D	162_S	0.717	0.14
58_K	181_S	0.715	0.14
11_R	18_N	0.715	0.14
10_N	165_Q	0.715	0.14
128_T	216_I	0.714	0.14
68_E	73_E	0.713	0.14
65_G	182_T	0.699	0.14
18_N	139_T	0.698	0.14
60_E	182_T	0.695	0.14
176_Y	196_P	0.695	0.14
50_S	107_D	0.691	0.14
166_D	193_N	0.673	0.13
109_S	119_G	0.670	0.13
199_A	206_K	0.670	0.13
142_N	159_T	0.669	0.13
67_T	144_D	0.668	0.13
129_E	139_T	0.667	0.13
150_T	223_G	0.666	0.13
192_N	199_A	0.666	0.13
71_S	75_I	0.661	0.13
9_E	138_K	0.658	0.13
155_E	225_K	0.655	0.13
8_Y	34_V	0.655	0.13
96_D	100_D	0.653	0.13
47_K	52_D	0.647	0.13
52_D	73_E	0.644	0.13
193_N	196_P	0.644	0.13
12_D	16_K	0.643	0.13
153_T	207_A	0.643	0.13
180_V	205_D	0.642	0.13
77_D	118_A	0.642	0.13
158_A	193_N	0.642	0.13
159_T	199_A	0.641	0.13
8_Y	39_L	0.640	0.13
122_L	212_Y	0.640	0.13
5_Q	53_S	0.637	0.13
46_S	59_Q	0.632	0.13
73_E	116_D	0.632	0.13
51_K	71_S	0.629	0.13
147_A	219_V	0.626	0.12
125_A	216_I	0.621	0.12
158_A	199_A	0.617	0.12
156_H	211_K	0.615	0.12
163_S	167_W	0.614	0.12
48_D	68_E	0.612	0.12
108_D	114_S	0.611	0.12
157_A	230_E	0.609	0.12
78_S	113_S	0.609	0.12
207_A	217_T	0.608	0.12
148_V	169_E	0.606	0.12
102_S	117_S	0.602	0.12
39_L	155_E	0.602	0.12
39_L	168_A	0.601	0.12
140_Y	208_T	0.601	0.12
22_N	199_A	0.601	0.12
8_Y	193_N	0.601	0.12
18_N	31_L	0.598	0.12
156_H	228_K	0.591	0.12
23_I	28_V	0.587	0.12
20_V	200_K	0.584	0.12
108_D	183_D	0.584	0.12
203_I	208_T	0.582	0.12
118_A	140_Y	0.581	0.12
164_S	202_K	0.581	0.12
20_V	34_V	0.579	0.12
189_W	193_N	0.577	0.12
71_S	77_D	0.574	0.12
134_S	221_E	0.572	0.12
21_L	36_A	0.571	0.12
22_N	190_L	0.569	0.11
18_N	24_L	0.568	0.11
174_I	182_T	0.568	0.11
11_R	35_V	0.567	0.11
43_S	178_T	0.565	0.11
149_G	170_M	0.563	0.11
145_W	152_Q	0.562	0.11
153_T	156_H	0.560	0.11
136_V	200_K	0.559	0.11
74_D	109_S	0.559	0.11
142_N	228_K	0.559	0.11
59_Q	74_D	0.558	0.11
191_G	206_K	0.558	0.11
156_H	207_A	0.556	0.11
145_W	228_K	0.556	0.11
110_D	115_S	0.552	0.11
64_S	67_T	0.552	0.11
29_S	37_A	0.552	0.11
14_R	43_S	0.551	0.11
55_T	99_K	0.551	0.11
190_L	208_T	0.550	0.11
188_L	208_T	0.549	0.11
60_E	110_D	0.545	0.11
166_D	215_T	0.543	0.11
111_S	134_S	0.542	0.11
30_I	44_P	0.541	0.11
99_K	102_S	0.541	0.11
36_A	146_K	0.540	0.11
76_K	189_W	0.540	0.11
58_K	76_K	0.539	0.11
134_S	225_K	0.538	0.11
156_H	215_T	0.538	0.11
16_K	228_K	0.536	0.11
52_D	68_E	0.535	0.11
167_W	216_I	0.534	0.11
158_A	224_W	0.533	0.11
55_T	67_T	0.533	0.11
51_K	60_E	0.532	0.11
33_V	58_K	0.530	0.11
99_K	182_T	0.529	0.11
149_G	201_G	0.527	0.11
24_L	136_V	0.524	0.11
135_D	218_W	0.522	0.11
22_N	153_T	0.522	0.11
145_W	203_I	0.521	0.11
27_I	69_K	0.520	0.11
21_L	28_V	0.518	0.11
107_D	112_D	0.517	0.11
101_D	183_D	0.514	0.11
104_S	122_L	0.514	0.11
136_V	220_D	0.513	0.11
122_L	183_D	0.511	0.11
160_Y	195_S	0.509	0.11
104_S	107_D	0.505	0.10
190_L	199_A	0.505	0.10
65_G	121_G	0.502	0.10
151_E	172_K	0.500	0.10

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
2kogA	1	0.1803	91.5	0.933	Contact Map
3hd7A	1	0.1803	87	0.938	Contact Map
2m8rA	1	0.1803	86.9	0.939	Contact Map
4u7aA	1	0	84.2	0.941	Contact Map
3fymA	1	0	75.9	0.945	Contact Map
5a2fA	1	0	44.2	0.956	Contact Map
4fp9B	2	0.2189	37.3	0.957	Contact Map
1n7lA	1	0.1717	31.3	0.959	Contact Map
2e6xA	2	0.206	18.4	0.963	Contact Map
4kytB	2	0.1245	17.8	0.964	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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