YDEI - BACSU - GREMLIN Contacts

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YDEI - Uncharacterized protein YdeI

UniProt:	P96666	Sequences: MTNSRTNPKVDEFLSKAKKWKEEFEKLRTIILDCELTEDFKWMHPCYTYHNKNIVLIHGFKEYCALLFHKGVLLQDTDGILIQQTENVQAARQIRFTNVQEINELENILKAYIHEAIEVEKAGLKVDVNKNIELNIPEELQNKFDEIPALKIAFEALTPGRQRAYTLYFSQAKQSKTRESRVEKYVQKILDGKGLKD	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	197 (189)
Sequences:	460 (364)
Seq/√Len:	26.5

BACSU - YDEI

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
140_L	144_F	6.410	1.00
157_L	165_Y	4.023	1.00
13_F	24_F	3.708	1.00
24_F	59_G	3.225	1.00
136_I	166_T	3.165	1.00
94_I	109_L	3.110	1.00
13_F	59_G	2.848	1.00
151_K	155_E	2.792	1.00
40_F	43_M	2.748	1.00
10_V	14_L	2.714	0.99
75_Q	115_E	2.641	0.99
83_Q	88_V	2.444	0.99
84_Q	88_V	2.290	0.98
141_Q	145_D	2.274	0.98
70_K	120_E	2.233	0.98
31_I	113_I	2.029	0.96
78_D	108_I	2.017	0.96
85_T	88_V	1.895	0.94
28_R	38_E	1.867	0.94
80_I	94_I	1.861	0.94
58_H	85_T	1.827	0.93
49_Y	121_K	1.778	0.92
58_H	88_V	1.740	0.91
136_I	141_Q	1.671	0.89
82_I	93_Q	1.603	0.87
70_K	73_L	1.557	0.86
13_F	17_A	1.550	0.85
168_Y	185_Y	1.550	0.85
118_E	122_A	1.524	0.84
58_H	67_L	1.520	0.84
147_I	186_V	1.516	0.84
72_V	90_A	1.509	0.84
164_A	169_F	1.489	0.83
66_L	109_L	1.489	0.83
71_G	92_R	1.488	0.83
38_E	45_P	1.485	0.83
78_D	104_E	1.468	0.82
119_V	124_L	1.453	0.81
89_Q	129_N	1.450	0.81
140_L	166_T	1.431	0.80
98_N	101_E	1.429	0.80
78_D	149_A	1.422	0.80
21_K	25_E	1.412	0.79
56_L	85_T	1.406	0.79
90_A	102_I	1.394	0.78
44_H	58_H	1.377	0.78
20_W	23_E	1.376	0.77
58_H	63_Y	1.373	0.77
58_H	84_Q	1.369	0.77
134_L	166_T	1.366	0.77
56_L	84_Q	1.351	0.76
73_L	126_V	1.348	0.76
40_F	44_H	1.333	0.75
142_N	179_E	1.329	0.75
143_K	183_E	1.320	0.74
55_V	66_L	1.319	0.74
119_V	187_Q	1.313	0.74
15_S	25_E	1.306	0.74
28_R	45_P	1.294	0.73
67_L	93_Q	1.293	0.73
168_Y	187_Q	1.268	0.71
82_I	95_R	1.260	0.71
44_H	69_H	1.243	0.70
80_I	108_I	1.233	0.69
63_Y	93_Q	1.221	0.68
56_L	88_V	1.218	0.68
111_A	148_P	1.213	0.68
175_S	179_E	1.211	0.68
143_K	147_I	1.200	0.67
74_L	77_T	1.193	0.67
103_N	106_E	1.176	0.65
51_N	137_P	1.169	0.65
67_L	84_Q	1.157	0.64
56_L	83_Q	1.149	0.64
67_L	85_T	1.141	0.63
31_I	55_V	1.137	0.63
44_H	59_G	1.127	0.62
140_L	169_F	1.124	0.62
67_L	88_V	1.119	0.62
56_L	67_L	1.116	0.61
185_Y	188_K	1.114	0.61
136_I	191_D	1.107	0.61
165_Y	193_K	1.087	0.59
8_P	40_F	1.073	0.58
157_L	161_R	1.070	0.58
90_A	126_V	1.069	0.58
65_A	93_Q	1.067	0.58
63_Y	82_I	1.065	0.58
23_E	102_I	1.064	0.58
167_L	171_Q	1.048	0.56
107_N	113_I	1.045	0.56
23_E	30_I	1.044	0.56
43_M	69_H	1.042	0.56
15_S	191_D	1.034	0.55
114_H	172_A	1.027	0.55
26_K	106_E	1.016	0.54
24_F	58_H	1.004	0.53
100_Q	104_E	1.004	0.53
107_N	191_D	0.990	0.52
12_E	40_F	0.984	0.52
143_K	186_V	0.977	0.51
143_K	148_P	0.975	0.51
134_L	167_L	0.970	0.51
97_T	101_E	0.937	0.48
51_N	172_A	0.936	0.48
70_K	119_V	0.932	0.48
118_E	121_K	0.930	0.48
63_Y	85_T	0.930	0.48
114_H	140_L	0.928	0.47
29_T	100_Q	0.928	0.47
166_T	169_F	0.925	0.47
54_I	188_K	0.920	0.47
46_C	56_L	0.915	0.47
13_F	45_P	0.914	0.46
53_N	194_G	0.902	0.46
39_D	44_H	0.897	0.45
7_N	39_D	0.892	0.45
19_K	109_L	0.888	0.45
127_D	180_S	0.887	0.44
139_E	153_A	0.883	0.44
142_N	145_D	0.876	0.44
189_I	194_G	0.859	0.42
161_R	194_G	0.852	0.42
131_N	134_L	0.846	0.41
55_V	113_I	0.844	0.41
35_E	49_Y	0.842	0.41
11_D	43_M	0.842	0.41
82_I	85_T	0.842	0.41
58_H	65_A	0.828	0.40
135_N	149_A	0.823	0.40
153_A	189_I	0.816	0.39
35_E	74_L	0.810	0.39
139_E	178_R	0.810	0.39
13_F	133_E	0.809	0.39
112_Y	115_E	0.801	0.38
52_K	75_Q	0.799	0.38
150_L	186_V	0.796	0.38
49_Y	114_H	0.794	0.38
144_F	150_L	0.789	0.37
76_D	112_Y	0.785	0.37
69_H	85_T	0.785	0.37
33_D	60_F	0.784	0.37
185_Y	189_I	0.778	0.37
64_C	70_K	0.775	0.36
144_F	151_K	0.772	0.36
36_L	157_L	0.772	0.36
16_K	149_A	0.768	0.36
29_T	145_D	0.759	0.35
60_F	91_A	0.758	0.35
142_N	147_I	0.755	0.35
176_K	180_S	0.750	0.35
143_K	146_E	0.746	0.34
150_L	168_Y	0.745	0.34
33_D	110_K	0.744	0.34
54_I	99_V	0.741	0.34
137_P	166_T	0.739	0.34
106_E	130_K	0.739	0.34
135_N	138_E	0.738	0.34
31_I	66_L	0.732	0.33
63_Y	67_L	0.732	0.33
188_K	195_L	0.731	0.33
172_A	180_S	0.730	0.33
101_E	152_I	0.724	0.33
85_T	93_Q	0.718	0.33
25_E	152_I	0.717	0.33
66_L	86_E	0.717	0.33
44_H	85_T	0.710	0.32
24_F	57_I	0.708	0.32
52_K	127_D	0.707	0.32
12_E	16_K	0.707	0.32
57_I	63_Y	0.703	0.32
28_R	137_P	0.702	0.32
53_N	189_I	0.701	0.31
138_E	152_I	0.701	0.31
23_E	120_E	0.694	0.31
12_E	15_S	0.694	0.31
43_M	88_V	0.693	0.31
191_D	196_K	0.693	0.31
190_L	195_L	0.686	0.31
135_N	172_A	0.686	0.31
118_E	182_V	0.685	0.30
33_D	104_E	0.685	0.30
125_K	155_E	0.681	0.30
56_L	95_R	0.680	0.30
145_D	151_K	0.679	0.30
140_L	150_L	0.674	0.30
9_K	146_E	0.667	0.29
141_Q	151_K	0.659	0.29
24_F	69_H	0.659	0.29
17_A	24_F	0.657	0.29
67_L	91_A	0.656	0.29
9_K	12_E	0.655	0.29
160_G	163_R	0.654	0.29
16_K	196_K	0.654	0.29
16_K	130_K	0.652	0.28
158_T	194_G	0.648	0.28
26_K	191_D	0.647	0.28
55_V	110_K	0.645	0.28
8_P	12_E	0.644	0.28
44_H	56_L	0.643	0.28
13_F	69_H	0.642	0.28
37_T	62_E	0.642	0.28
79_G	115_E	0.642	0.28
34_C	193_K	0.639	0.28
169_F	172_A	0.632	0.27
18_K	40_F	0.632	0.27
132_I	135_N	0.629	0.27
12_E	43_M	0.627	0.27
13_F	19_K	0.625	0.27
58_H	93_Q	0.620	0.26
53_N	96_F	0.620	0.26
100_Q	106_E	0.619	0.26
75_Q	114_H	0.617	0.26
108_I	112_Y	0.617	0.26
52_K	125_K	0.616	0.26
18_K	49_Y	0.616	0.26
65_A	84_Q	0.611	0.26
58_H	83_Q	0.610	0.26
106_E	182_V	0.607	0.26
88_V	91_A	0.606	0.26
15_S	142_N	0.601	0.25
86_E	130_K	0.599	0.25
101_E	104_E	0.598	0.25
24_F	51_N	0.590	0.25
29_T	35_E	0.588	0.25
16_K	22_E	0.587	0.25
10_V	117_I	0.586	0.25
120_E	125_K	0.582	0.24
51_N	106_E	0.581	0.24
149_A	152_I	0.581	0.24
59_G	67_L	0.578	0.24
52_K	111_A	0.578	0.24
155_E	162_Q	0.577	0.24
112_Y	154_F	0.576	0.24
67_L	167_L	0.573	0.24
26_K	100_Q	0.573	0.24
139_E	160_G	0.570	0.24
187_Q	191_D	0.570	0.24
65_A	85_T	0.569	0.24
25_E	149_A	0.565	0.23
94_I	113_I	0.564	0.23
98_N	108_I	0.560	0.23
188_K	193_K	0.558	0.23
29_T	37_T	0.558	0.23
65_A	95_R	0.557	0.23
39_D	51_N	0.556	0.23
156_A	176_K	0.555	0.23
100_Q	142_N	0.555	0.23
77_T	114_H	0.555	0.23
27_L	137_P	0.554	0.23
74_L	81_L	0.547	0.22
30_I	112_Y	0.547	0.22
161_R	167_L	0.545	0.22
71_G	117_I	0.544	0.22
169_F	182_V	0.542	0.22
77_T	115_E	0.539	0.22
109_L	178_R	0.539	0.22
90_A	164_A	0.538	0.22
96_F	133_E	0.538	0.22
56_L	89_Q	0.535	0.22
132_I	163_R	0.533	0.22
45_P	137_P	0.533	0.22
31_I	44_H	0.530	0.22
60_F	93_Q	0.525	0.21
72_V	88_V	0.524	0.21
134_L	163_R	0.523	0.21
29_T	52_K	0.523	0.21
103_N	142_N	0.521	0.21
185_Y	195_L	0.520	0.21
30_I	102_I	0.520	0.21
26_K	29_T	0.519	0.21
11_D	40_F	0.517	0.21
101_E	107_N	0.516	0.21
175_S	187_Q	0.516	0.21
144_F	182_V	0.516	0.21
184_K	195_L	0.512	0.21
78_D	111_A	0.511	0.21
59_G	93_Q	0.510	0.21
30_I	75_Q	0.504	0.20
134_L	137_P	0.504	0.20
53_N	161_R	0.503	0.20
98_N	190_L	0.501	0.20
16_K	191_D	0.500	0.20
12_E	29_T	0.500	0.20

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
2i8dA	2	0.5939	99.9	0.704	Contact Map
2oc6A	1	0.6091	99.9	0.711	Contact Map
2kl4A	1	0.5787	99.9	0.716	Contact Map
2fkiA	1	0.5431	59.2	0.951	Contact Map
2a1vA	1	0.6294	26.3	0.96	Contact Map
3fnvA	2	0.1117	18.2	0.963	Contact Map
3u4qB	1	0.4213	15.8	0.964	Contact Map
4fvgA	2	0.5228	12.1	0.966	Contact Map
4w7sA	2	0.4061	11.8	0.966	Contact Map
3k9dA	2	0.335	10.5	0.967	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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