YEEN - ECOLI - GREMLIN Contacts

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YEEN - Probable transcriptional regulatory protein YeeN

UniProt:	P0A8A2	Sequences: MGRKWANIVAKKTAKDGATSKIYAKFGVEIYAAAKQGEPDPELNTSLKFVIERAKQAQVPKHVIDKAIDKAKGGGDETFVQGRYEGFGPNGSMIIAETLTSNVNRTIANVRTIFNKKGGNIGAAGSVSYMFDNTGVIVFKGTDPDHIFEILLEAEVDVRDVTEEEGNIVIYTEPTDLHKGIAALKAAGITEFSTTELEMIAQSEVELSPEDLEIFEGLVDALEDDDDVQKVYHNVANL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13382
Length:	238 (231)
Sequences:	3263 (1692)
Seq/√Len:	111.3

ECOLI - YEEN YEBC
BACSU - YEEI YRBC

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
132_D	202_Q	4.569	1.00
109_N	225_D	3.646	1.00
65_D	69_D	3.623	1.00
11_K	15_K	3.318	1.00
143_D	146_H	2.940	1.00
96_A	114_F	2.887	1.00
41_P	51_I	2.870	1.00
39_P	72_K	2.776	1.00
208_S	211_D	2.774	1.00
182_A	186_A	2.512	1.00
206_E	236_A	2.435	1.00
122_G	126_S	2.420	1.00
14_A	18_A	2.302	1.00
146_H	149_E	2.234	1.00
207_L	215_F	2.181	1.00
6_A	9_V	2.165	1.00
135_G	172_T	2.153	1.00
176_D	179_K	2.152	1.00
113_I	225_D	2.111	1.00
151_L	156_V	1.990	1.00
3_R	6_A	1.989	1.00
86_G	114_F	1.980	1.00
177_L	195_T	1.936	1.00
136_V	198_E	1.872	1.00
9_V	13_T	1.794	1.00
26_F	57_A	1.794	1.00
80_V	103_V	1.781	1.00
29_E	46_S	1.780	1.00
3_R	7_N	1.777	1.00
204_E	236_A	1.750	1.00
117_K	221_A	1.726	1.00
98_T	106_T	1.717	1.00
172_T	180_G	1.715	1.00
173_E	176_D	1.708	1.00
140_K	193_S	1.701	1.00
83_R	97_E	1.681	1.00
63_V	66_K	1.651	1.00
149_E	153_E	1.613	1.00
60_P	63_V	1.585	1.00
207_L	211_D	1.583	1.00
218_L	222_L	1.578	1.00
94_I	218_L	1.560	1.00
7_N	11_K	1.559	1.00
150_I	187_A	1.543	1.00
5_W	9_V	1.510	1.00
178_H	182_A	1.501	1.00
113_I	221_A	1.469	1.00
83_R	95_I	1.464	1.00
154_A	183_A	1.447	1.00
69_D	74_G	1.445	1.00
137_I	177_L	1.443	1.00
219_V	223_E	1.426	1.00
181_I	185_K	1.422	1.00
137_I	172_T	1.421	1.00
211_D	214_I	1.413	1.00
97_E	230_K	1.404	1.00
201_A	204_E	1.403	1.00
7_N	15_K	1.401	1.00
67_A	71_A	1.378	1.00
61_K	65_D	1.377	1.00
112_T	115_N	1.376	1.00
34_A	72_K	1.373	1.00
144_P	148_F	1.351	1.00
174_P	197_L	1.340	1.00
117_K	217_G	1.340	1.00
49_F	53_R	1.339	1.00
154_A	180_G	1.327	1.00
83_R	199_M	1.286	0.99
90_N	211_D	1.282	0.99
86_G	96_A	1.279	0.99
6_A	10_A	1.274	0.99
94_I	114_F	1.266	0.99
40_D	43_L	1.266	0.99
210_E	214_I	1.263	0.99
51_I	68_I	1.260	0.99
150_I	189_I	1.258	0.99
32_A	99_L	1.256	0.99
139_F	170_I	1.256	0.99
51_I	64_I	1.255	0.99
210_E	213_E	1.253	0.99
87_F	93_M	1.249	0.99
138_V	169_V	1.245	0.99
82_G	98_T	1.242	0.99
23_Y	59_V	1.240	0.99
136_V	169_V	1.231	0.99
215_F	235_V	1.213	0.99
219_V	233_H	1.208	0.99
88_G	215_F	1.206	0.99
134_T	200_I	1.187	0.99
185_K	192_F	1.172	0.99
82_G	103_V	1.170	0.99
7_N	10_A	1.163	0.99
94_I	215_F	1.158	0.99
148_F	152_L	1.148	0.99
209_P	212_L	1.130	0.98
121_I	124_A	1.127	0.98
182_A	185_K	1.114	0.98
51_I	55_K	1.113	0.98
68_I	71_A	1.097	0.98
22_I	57_A	1.088	0.98
55_K	61_K	1.071	0.98
183_A	187_A	1.065	0.98
183_A	186_A	1.052	0.98
141_G	163_E	1.050	0.98
110_V	225_D	1.046	0.97
209_P	213_E	1.045	0.97
10_A	14_A	1.044	0.97
62_H	66_K	1.031	0.97
147_I	168_I	1.023	0.97
139_F	192_F	1.019	0.97
31_Y	71_A	1.017	0.97
90_N	215_F	1.013	0.97
38_E	43_L	1.008	0.97
12_K	16_D	1.002	0.97
108_A	112_T	0.998	0.97
129_Y	203_S	0.997	0.97
4_K	7_N	0.995	0.97
130_M	202_Q	0.986	0.96
34_A	38_E	0.986	0.96
167_N	193_S	0.984	0.96
146_H	150_I	0.983	0.96
55_K	60_P	0.982	0.96
136_V	200_I	0.967	0.96
97_E	133_N	0.966	0.96
138_V	167_N	0.963	0.96
69_D	75_G	0.962	0.96
217_G	220_D	0.952	0.96
112_T	116_K	0.940	0.95
4_K	16_D	0.940	0.95
159_R	176_D	0.935	0.95
90_N	207_L	0.934	0.95
112_T	117_K	0.929	0.95
7_N	19_T	0.927	0.95
137_I	181_I	0.921	0.95
88_G	94_I	0.920	0.95
144_P	163_E	0.917	0.95
3_R	10_A	0.915	0.95
4_K	9_V	0.914	0.94
150_I	154_A	0.905	0.94
19_T	23_Y	0.902	0.94
84_Y	103_V	0.901	0.94
31_Y	70_K	0.899	0.94
123_A	129_Y	0.893	0.94
92_S	235_V	0.890	0.94
39_P	68_I	0.889	0.94
4_K	8_I	0.888	0.94
178_H	181_I	0.883	0.93
134_T	173_E	0.874	0.93
13_T	19_T	0.873	0.93
59_V	63_V	0.872	0.93
163_E	168_I	0.870	0.93
212_L	235_V	0.870	0.93
179_K	182_A	0.864	0.93
52_E	181_I	0.858	0.92
25_K	224_D	0.855	0.92
8_I	11_K	0.854	0.92
130_M	203_S	0.854	0.92
86_G	122_G	0.854	0.92
92_S	215_F	0.848	0.92
223_E	231_V	0.847	0.92
156_V	170_I	0.846	0.92
53_R	196_E	0.842	0.92
10_A	13_T	0.840	0.92
8_I	12_K	0.840	0.92
8_I	16_D	0.837	0.91
141_G	166_G	0.834	0.91
66_K	69_D	0.834	0.91
22_I	26_F	0.832	0.91
113_I	117_K	0.831	0.91
133_N	199_M	0.829	0.91
88_G	92_S	0.821	0.91
162_T	171_Y	0.816	0.90
177_L	197_L	0.816	0.90
151_L	161_V	0.815	0.90
49_F	52_E	0.814	0.90
82_G	100_T	0.813	0.90
136_V	171_Y	0.812	0.90
46_S	49_F	0.808	0.90
144_P	168_I	0.806	0.90
149_E	152_L	0.802	0.90
36_Q	46_S	0.801	0.90
216_E	235_V	0.801	0.90
171_Y	200_I	0.800	0.90
95_I	128_S	0.797	0.89
92_S	207_L	0.795	0.89
13_T	17_G	0.792	0.89
96_A	228_V	0.788	0.89
138_V	194_T	0.787	0.89
129_Y	202_Q	0.787	0.89
185_K	191_E	0.786	0.89
30_I	64_I	0.778	0.88
159_R	173_E	0.778	0.88
98_T	123_A	0.777	0.88
3_R	8_I	0.775	0.88
9_V	15_K	0.773	0.88
17_G	20_S	0.773	0.88
60_P	66_K	0.772	0.88
137_I	192_F	0.764	0.87
27_G	31_Y	0.763	0.87
34_A	71_A	0.760	0.87
113_I	222_L	0.759	0.87
205_V	234_N	0.759	0.87
207_L	212_L	0.757	0.87
114_F	121_I	0.753	0.87
213_E	216_E	0.749	0.86
121_I	222_L	0.748	0.86
94_I	219_V	0.741	0.86
26_F	64_I	0.741	0.86
215_F	233_H	0.741	0.86
129_Y	205_V	0.733	0.85
161_V	170_I	0.732	0.85
15_K	18_A	0.727	0.85
8_I	13_T	0.727	0.85
162_T	169_V	0.723	0.84
26_F	29_E	0.721	0.84
5_W	16_D	0.718	0.84
213_E	217_G	0.717	0.84
217_G	221_A	0.714	0.83
38_E	41_P	0.713	0.83
107_I	121_I	0.703	0.83
84_Y	107_I	0.702	0.82
34_A	39_P	0.701	0.82
181_I	195_T	0.700	0.82
137_I	184_L	0.699	0.82
87_F	127_V	0.698	0.82
212_L	216_E	0.696	0.82
164_E	169_V	0.694	0.82
34_A	67_A	0.692	0.82
3_R	16_D	0.690	0.81
21_K	224_D	0.689	0.81
13_T	16_D	0.689	0.81
146_H	153_E	0.687	0.81
16_D	19_T	0.684	0.81
29_E	48_K	0.677	0.80
24_A	31_Y	0.677	0.80
27_G	63_V	0.675	0.80
72_K	75_G	0.670	0.79
45_T	48_K	0.669	0.79
37_G	44_N	0.668	0.79
143_D	149_E	0.667	0.79
159_R	162_T	0.666	0.79
134_T	171_Y	0.662	0.79
79_F	99_L	0.662	0.79
134_T	159_R	0.660	0.78
46_S	50_V	0.656	0.78
151_L	155_E	0.654	0.78
33_A	50_V	0.654	0.78
147_I	161_V	0.653	0.78
28_V	106_T	0.651	0.77
139_F	168_I	0.651	0.77
116_K	221_A	0.649	0.77
216_E	220_D	0.648	0.77
86_G	119_G	0.647	0.77
5_W	12_K	0.646	0.77
16_D	20_S	0.646	0.77
27_G	59_V	0.641	0.76
13_T	55_K	0.641	0.76
26_F	50_V	0.637	0.76
198_E	232_Y	0.637	0.76
5_W	8_I	0.632	0.75
44_N	47_L	0.631	0.75
133_N	197_L	0.631	0.75
146_H	189_I	0.624	0.74
3_R	9_V	0.623	0.74
207_L	235_V	0.623	0.74
52_E	194_T	0.623	0.74
28_V	36_Q	0.621	0.74
177_L	192_F	0.618	0.74
81_Q	97_E	0.617	0.74
160_D	163_E	0.614	0.73
106_T	110_V	0.614	0.73
10_A	15_K	0.613	0.73
139_F	189_I	0.612	0.73
52_E	56_Q	0.608	0.73
18_A	21_K	0.603	0.72
104_N	108_A	0.597	0.71
163_E	167_N	0.597	0.71
109_N	112_T	0.596	0.71
104_N	107_I	0.596	0.71
95_I	124_A	0.593	0.71
219_V	235_V	0.593	0.71
70_K	79_F	0.592	0.71
142_T	221_A	0.591	0.70
114_F	218_L	0.588	0.70
87_F	123_A	0.585	0.70
112_T	221_A	0.583	0.69
84_Y	227_D	0.581	0.69
6_A	11_K	0.581	0.69
6_A	16_D	0.581	0.69
127_V	130_M	0.580	0.69
139_F	184_L	0.580	0.69
180_G	183_A	0.579	0.69
21_K	45_T	0.578	0.69
25_K	28_V	0.572	0.68
179_K	183_A	0.571	0.68
92_S	205_V	0.569	0.68
94_I	233_H	0.566	0.67
107_I	111_R	0.562	0.67
99_L	229_Q	0.562	0.67
83_R	133_N	0.561	0.66
208_S	212_L	0.561	0.66
4_K	12_K	0.561	0.66
189_I	192_F	0.559	0.66
177_L	196_E	0.558	0.66
141_G	168_I	0.557	0.66
48_K	59_V	0.555	0.66
144_P	152_L	0.549	0.65
106_T	225_D	0.549	0.65
110_V	113_I	0.547	0.65
93_M	122_G	0.545	0.64
143_D	179_K	0.542	0.64
107_I	124_A	0.540	0.64
8_I	14_A	0.539	0.63
8_I	19_T	0.539	0.63
108_A	115_N	0.538	0.63
33_A	37_G	0.537	0.63
11_K	14_A	0.537	0.63
206_E	209_P	0.536	0.63
103_V	107_I	0.534	0.63
3_R	15_K	0.532	0.62
50_V	53_R	0.531	0.62
73_G	229_Q	0.531	0.62
5_W	11_K	0.525	0.61
38_E	72_K	0.524	0.61
71_A	129_Y	0.524	0.61
81_Q	99_L	0.523	0.61
53_R	57_A	0.520	0.61
161_V	168_I	0.519	0.61
6_A	13_T	0.518	0.60
148_F	161_V	0.517	0.60
59_V	137_I	0.514	0.60
141_G	147_I	0.514	0.60
82_G	107_I	0.513	0.60
13_T	57_A	0.513	0.60
46_S	81_Q	0.511	0.59
95_I	199_M	0.510	0.59
98_T	107_I	0.509	0.59
18_A	22_I	0.508	0.59
38_E	71_A	0.507	0.59
28_V	79_F	0.507	0.59
27_G	70_K	0.506	0.59
60_P	79_F	0.503	0.58
162_T	166_G	0.502	0.58
95_I	129_Y	0.501	0.58
103_V	123_A	0.501	0.58
58_Q	69_D	0.500	0.58

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
1mw7A	1	0.8908	100	0.015	Contact Map
1konA	1	0.9412	100	0.03	Contact Map
1lfpA	1	0.9748	100	0.033	Contact Map
4f3qA	1	0.958	100	0.044	Contact Map
2lqjA	1	0.3361	56.1	0.954	Contact Map
2ko1A	2	0.3151	35.4	0.959	Contact Map
4asnA	2	0.3697	35.1	0.959	Contact Map
1y7pA	5	0.3067	34.4	0.959	Contact Map
2jsxA	1	0.3235	29.9	0.961	Contact Map
1yt3A	1	0.2731	29.6	0.961	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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