YRAI - ECOLI - GREMLIN Contacts

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YRAI - Probable fimbrial chaperone YraI

UniProt:	P42914	Sequences: MSKRTFAVILTLLCSFCIGQALAGGIVLQRTRVIYDASRKEAALPVANKGAETPYLLQSWVDNIDGKSRAPFIITPPLFRLEAGDDSSLRIIKTADNLPENKESLFYINVRAIPAKKKSDDVNANELTLVFKTRIKMFYRPAHLKGRVNDAWKSLEFKRSDHSLNIYNPTEYYVVFAGLAVDKTDLTSKIEYIAPGEHKQLPLPASGGKNVKWAAINDYGGSSGTETRPLQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12774
Length:	231 (213)
Sequences:	2873 (2169)
Seq/√Len:	148.6

ECOLI - YRAI SFMC FIMC ELFD YFCS YHCA YEHC YBGP YCBF YADV YQIH

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
61_V	137_M	3.265	1.00
175_V	192_Y	3.175	1.00
173_Y	194_A	2.972	1.00
36_D	39_R	2.896	1.00
194_A	197_E	2.884	1.00
167_Y	198_H	2.877	1.00
102_K	196_G	2.860	1.00
105_L	192_Y	2.841	1.00
28_L	135_I	2.787	1.00
98_L	106_F	2.727	1.00
55_Y	112_A	2.533	1.00
33_V	42_A	2.528	1.00
157_F	166_I	2.517	1.00
165_N	200_Q	2.498	1.00
165_N	198_H	2.485	1.00
33_V	108_I	2.443	1.00
156_E	167_Y	2.439	1.00
138_F	192_Y	2.410	1.00
38_S	142_A	2.356	1.00
33_V	91_I	2.318	1.00
150_D	153_K	2.272	1.00
166_I	201_L	2.173	1.00
217_N	223_S	2.153	1.00
54_P	82_E	2.118	1.00
138_F	173_Y	2.115	1.00
163_S	200_Q	2.070	1.00
60_W	109_N	2.027	1.00
62_D	134_R	2.022	1.00
158_K	165_N	1.963	1.00
111_R	132_K	1.859	1.00
36_D	42_A	1.842	1.00
59_S	89_L	1.830	1.00
54_P	80_R	1.772	1.00
144_L	172_Y	1.748	1.00
99_P	104_S	1.747	1.00
151_A	174_V	1.740	1.00
62_D	109_N	1.678	1.00
74_I	89_L	1.644	1.00
72_F	91_I	1.634	1.00
28_L	110_V	1.601	1.00
61_V	70_A	1.597	1.00
109_N	134_R	1.575	1.00
82_E	85_D	1.553	1.00
155_L	166_I	1.521	1.00
105_L	138_F	1.520	1.00
174_V	215_A	1.516	1.00
217_N	221_G	1.492	1.00
154_S	170_T	1.490	1.00
44_L	108_I	1.481	1.00
160_S	163_S	1.481	1.00
151_A	215_A	1.473	1.00
93_K	96_D	1.462	1.00
155_L	176_F	1.457	1.00
178_G	214_A	1.451	1.00
37_A	100_E	1.446	1.00
99_P	102_K	1.444	1.00
160_S	165_N	1.429	1.00
147_R	150_D	1.410	1.00
57_L	79_F	1.388	1.00
72_F	137_M	1.375	1.00
157_F	213_W	1.353	1.00
35_Y	42_A	1.333	1.00
74_I	91_I	1.320	1.00
155_L	174_V	1.309	1.00
45_P	86_D	1.304	1.00
193_I	199_K	1.297	1.00
148_V	151_A	1.289	1.00
105_L	175_V	1.275	1.00
163_S	202_P	1.266	1.00
158_K	167_Y	1.254	1.00
41_E	90_R	1.252	1.00
180_A	212_K	1.239	1.00
171_E	196_G	1.229	1.00
50_G	112_A	1.222	1.00
33_V	135_I	1.218	1.00
63_N	67_K	1.213	1.00
159_R	162_H	1.209	1.00
52_E	84_G	1.207	1.00
46_V	81_L	1.189	1.00
175_V	215_A	1.182	1.00
8_V	16_F	1.181	1.00
37_A	142_A	1.160	1.00
152_W	174_V	1.158	1.00
28_L	44_L	1.158	1.00
117_K	126_E	1.154	1.00
65_D	68_S	1.151	1.00
177_A	222_S	1.147	1.00
62_D	66_G	1.146	1.00
93_K	97_N	1.141	1.00
215_A	223_S	1.136	1.00
60_W	134_R	1.135	1.00
176_F	193_I	1.135	1.00
91_I	137_M	1.127	0.99
93_K	139_Y	1.121	0.99
108_I	137_M	1.098	0.99
154_S	169_P	1.073	0.99
164_L	203_L	1.066	0.99
180_A	185_D	1.055	0.99
27_V	30_R	1.046	0.99
117_K	128_T	1.037	0.99
79_F	87_S	1.030	0.99
112_A	131_F	1.020	0.99
35_Y	92_I	1.018	0.99
25_G	112_A	1.016	0.99
107_Y	134_R	1.016	0.99
37_A	139_Y	1.004	0.99
89_L	108_I	0.997	0.99
60_W	111_R	0.994	0.99
26_I	81_L	0.991	0.99
30_R	44_L	0.981	0.99
29_Q	45_P	0.977	0.98
146_G	172_Y	0.964	0.98
87_S	111_R	0.958	0.98
12_L	15_S	0.956	0.98
50_G	55_Y	0.954	0.98
47_A	86_D	0.948	0.98
74_I	108_I	0.947	0.98
89_L	110_V	0.931	0.98
26_I	57_L	0.921	0.98
184_T	206_S	0.916	0.98
156_E	169_P	0.914	0.98
176_F	215_A	0.914	0.98
28_L	46_V	0.912	0.98
62_D	107_Y	0.902	0.97
152_W	213_W	0.901	0.97
46_V	57_L	0.891	0.97
214_A	222_S	0.887	0.97
103_E	140_R	0.886	0.97
61_V	74_I	0.867	0.97
81_L	86_D	0.863	0.97
29_Q	86_D	0.863	0.97
10_L	13_L	0.862	0.97
136_K	216_I	0.862	0.97
50_G	53_T	0.856	0.97
148_V	152_W	0.852	0.96
177_A	216_I	0.851	0.96
87_S	112_A	0.851	0.96
150_D	154_S	0.847	0.96
32_R	140_R	0.831	0.96
35_Y	72_F	0.829	0.96
164_L	179_L	0.824	0.96
157_F	179_L	0.820	0.96
180_A	183_K	0.820	0.96
101_N	196_G	0.818	0.96
167_Y	196_G	0.811	0.95
173_Y	195_P	0.809	0.95
33_V	44_L	0.805	0.95
152_W	215_A	0.800	0.95
107_Y	111_R	0.800	0.95
81_L	87_S	0.789	0.95
59_S	74_I	0.784	0.94
105_L	173_Y	0.781	0.94
59_S	110_V	0.781	0.94
143_H	146_G	0.776	0.94
109_N	132_K	0.776	0.94
182_D	209_K	0.773	0.94
55_Y	111_R	0.771	0.94
8_V	13_L	0.763	0.94
79_F	89_L	0.763	0.94
8_V	11_T	0.763	0.94
63_N	69_R	0.763	0.94
175_V	190_I	0.762	0.93
106_F	139_Y	0.756	0.93
25_G	55_Y	0.755	0.93
30_R	33_V	0.753	0.93
146_G	151_A	0.752	0.93
11_T	14_C	0.745	0.93
100_E	143_H	0.736	0.92
27_V	49_K	0.735	0.92
101_N	140_R	0.730	0.92
13_L	16_F	0.728	0.92
58_Q	111_R	0.723	0.92
110_V	135_I	0.722	0.92
176_F	221_G	0.719	0.91
64_I	107_Y	0.717	0.91
181_V	211_V	0.716	0.91
125_N	128_T	0.713	0.91
55_Y	59_S	0.712	0.91
27_V	133_T	0.711	0.91
34_I	140_R	0.711	0.91
160_S	200_Q	0.709	0.91
19_G	23_A	0.706	0.91
61_V	113_I	0.703	0.90
32_R	141_P	0.702	0.90
45_P	78_L	0.702	0.90
57_L	81_L	0.700	0.90
130_V	157_F	0.700	0.90
91_I	108_I	0.700	0.90
49_K	115_A	0.700	0.90
9_I	12_L	0.698	0.90
146_G	150_D	0.698	0.90
63_N	70_A	0.696	0.90
109_N	136_K	0.695	0.90
163_S	203_L	0.694	0.90
78_L	86_D	0.694	0.90
151_A	157_F	0.691	0.90
13_L	20_Q	0.689	0.90
32_R	136_K	0.687	0.89
20_Q	224_G	0.686	0.89
23_A	164_L	0.677	0.89
35_Y	39_R	0.677	0.89
81_L	85_D	0.676	0.89
142_A	145_K	0.675	0.89
25_G	49_K	0.673	0.88
90_R	114_P	0.672	0.88
164_L	211_V	0.672	0.88
178_G	185_D	0.670	0.88
119_S	124_A	0.668	0.88
136_K	140_R	0.661	0.88
136_K	175_V	0.661	0.88
147_R	172_Y	0.660	0.87
182_D	187_T	0.659	0.87
152_W	155_L	0.658	0.87
112_A	130_V	0.658	0.87
152_W	169_P	0.657	0.87
72_F	139_Y	0.656	0.87
107_Y	136_K	0.656	0.87
72_F	104_S	0.655	0.87
54_P	115_A	0.651	0.87
9_I	17_C	0.650	0.87
179_L	201_L	0.650	0.87
190_I	201_L	0.649	0.87
64_I	105_L	0.648	0.86
35_Y	93_K	0.647	0.86
59_S	87_S	0.641	0.86
28_L	49_K	0.640	0.86
152_W	170_T	0.634	0.85
102_K	141_P	0.633	0.85
155_L	215_A	0.630	0.85
31_T	140_R	0.628	0.85
104_S	139_Y	0.628	0.85
92_I	195_P	0.625	0.84
131_F	190_I	0.622	0.84
199_K	202_P	0.620	0.84
12_L	23_A	0.617	0.84
157_F	164_L	0.615	0.84
18_I	22_L	0.615	0.84
26_I	55_Y	0.614	0.83
56_L	111_R	0.614	0.83
14_C	19_G	0.613	0.83
43_A	129_L	0.610	0.83
35_Y	40_K	0.609	0.83
127_L	134_R	0.607	0.83
107_Y	175_V	0.604	0.82
28_L	56_L	0.603	0.82
149_N	153_K	0.600	0.82
77_P	113_I	0.600	0.82
46_V	115_A	0.594	0.81
101_N	104_S	0.593	0.81
148_V	174_V	0.592	0.81
61_V	106_F	0.591	0.81
14_C	17_C	0.589	0.81
10_L	14_C	0.587	0.81
56_L	172_Y	0.585	0.80
112_A	132_K	0.579	0.80
18_I	23_A	0.577	0.79
193_I	197_E	0.576	0.79
164_L	200_Q	0.576	0.79
71_P	104_S	0.573	0.79
36_D	138_F	0.573	0.79
59_S	79_F	0.571	0.79
184_T	187_T	0.570	0.79
64_I	134_R	0.570	0.79
15_S	19_G	0.569	0.79
181_V	210_N	0.562	0.78
20_Q	23_A	0.562	0.78
107_Y	110_V	0.561	0.78
50_G	111_R	0.558	0.77
112_A	175_V	0.555	0.77
58_Q	90_R	0.553	0.77
60_W	133_T	0.552	0.76
152_W	157_F	0.550	0.76
98_L	101_N	0.550	0.76
176_F	213_W	0.548	0.76
180_A	214_A	0.548	0.76
45_P	129_L	0.548	0.76
173_Y	197_E	0.546	0.76
162_H	205_A	0.545	0.76
150_D	224_G	0.542	0.75
186_L	206_S	0.542	0.75
19_G	22_L	0.541	0.75
189_K	222_S	0.541	0.75
116_K	128_T	0.540	0.75
141_P	195_P	0.539	0.75
62_D	129_L	0.539	0.75
62_D	132_K	0.539	0.75
46_V	110_V	0.537	0.74
42_A	137_M	0.536	0.74
9_I	200_Q	0.536	0.74
107_Y	213_W	0.533	0.74
103_E	218_D	0.533	0.74
214_A	224_G	0.530	0.74
112_A	213_W	0.529	0.73
84_G	158_K	0.528	0.73
8_V	12_L	0.528	0.73
213_W	223_S	0.527	0.73
166_I	193_I	0.526	0.73
56_L	80_R	0.525	0.73
32_R	218_D	0.525	0.73
55_Y	81_L	0.524	0.73
179_L	203_L	0.522	0.72
131_F	134_R	0.522	0.72
205_A	210_N	0.520	0.72
12_L	210_N	0.520	0.72
114_P	130_V	0.518	0.72
18_I	158_K	0.518	0.72
56_L	112_A	0.516	0.72
62_D	111_R	0.513	0.71
20_Q	202_P	0.511	0.71
184_T	208_G	0.511	0.71
18_I	67_K	0.509	0.71
182_D	186_L	0.509	0.71
144_L	171_E	0.507	0.70
140_R	144_L	0.506	0.70
8_V	20_Q	0.505	0.70
26_I	46_V	0.503	0.70
107_Y	132_K	0.502	0.70
28_L	133_T	0.502	0.70
34_I	136_K	0.502	0.70
98_L	136_K	0.500	0.69

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
2co7B	1	0.8528	100	0.122	Contact Map
1klfA	1	0.8831	100	0.126	Contact Map
1l4iA	2	0.8225	100	0.133	Contact Map
3q48A	1	0.8052	100	0.164	Contact Map
2xg5A	1	0.8615	100	0.168	Contact Map
4djmA	1	0.8701	100	0.169	Contact Map
4ay0A	2	0.8139	100	0.173	Contact Map
3gfuC	1	0.8442	100	0.178	Contact Map
4ncdA	2	0.8139	100	0.251	Contact Map
1mspA	3	0.4892	91.2	0.917	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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