YCNI - BACSU - GREMLIN Contacts

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YCNI - Uncharacterized protein YcnI

UniProt:	P94431	Sequences: MLKKIALTLCPAIVGSLLFFTAPASAHVSVKPAESAAGSWETYTMKVPSEKNLPTTKVVLKMPKDVEFQQYEPIPGWKVSTQKHDDKSVSVTWEATDGGIQEGQFQQFTFVAKNPDKAEEAAWDAYQYYKDGSIVEWTGDEDADTPHSITNITSAKQVTDEHGATKTEDDSENSGSSALDITAMVLSAAAIILSVAALVKKKRA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	204 (194)
Sequences:	823 (650)
Seq/√Len:	46.7

BACSU - YCNI

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
42_T	107_Q	3.839	1.00
180_D	184_M	3.632	1.00
51_K	131_D	3.592	1.00
74_I	106_Q	3.298	1.00
187_S	190_A	3.008	1.00
181_I	185_V	2.949	1.00
126_Y	136_E	2.885	1.00
59_V	90_S	2.872	1.00
190_A	194_S	2.690	1.00
91_V	110_F	2.541	1.00
113_K	116_D	2.527	1.00
37_A	154_S	2.493	1.00
62_M	88_S	2.471	1.00
42_T	46_K	2.297	1.00
30_V	43_Y	2.252	1.00
124_D	138_T	2.218	1.00
46_K	107_Q	2.214	1.00
72_E	107_Q	2.132	1.00
45_M	110_F	2.117	1.00
84_H	89_V	2.097	1.00
51_K	133_S	2.070	1.00
45_M	123_W	2.036	0.99
53_L	130_K	2.018	0.99
56_T	130_K	2.000	0.99
119_E	152_I	1.998	0.99
139_G	143_A	1.916	0.99
82_Q	92_T	1.866	0.99
58_V	125_A	1.854	0.99
50_E	129_Y	1.846	0.99
183_A	186_L	1.808	0.99
183_A	187_S	1.767	0.98
169_D	172_E	1.758	0.98
183_A	197_A	1.716	0.98
120_E	151_N	1.699	0.98
36_A	155_A	1.672	0.98
42_T	72_E	1.650	0.98
126_Y	138_T	1.626	0.97
61_K	126_Y	1.623	0.97
135_V	145_T	1.617	0.97
54_P	130_K	1.613	0.97
57_K	94_E	1.542	0.96
72_E	109_T	1.519	0.96
30_V	150_T	1.504	0.96
60_L	93_W	1.475	0.95
125_A	135_V	1.464	0.95
51_K	129_Y	1.463	0.95
37_A	119_E	1.434	0.95
43_Y	112_A	1.384	0.93
124_D	136_E	1.369	0.93
123_W	126_Y	1.366	0.93
56_T	99_G	1.360	0.93
184_M	200_K	1.358	0.93
68_F	71_Y	1.306	0.91
49_S	129_Y	1.302	0.91
54_P	99_G	1.288	0.91
16_S	19_F	1.274	0.90
185_V	188_A	1.267	0.90
180_D	183_A	1.262	0.90
191_I	198_L	1.255	0.90
47_V	135_V	1.235	0.89
189_A	193_L	1.232	0.89
55_T	127_Q	1.217	0.88
35_S	150_T	1.209	0.88
179_L	184_M	1.196	0.87
66_V	121_A	1.183	0.87
180_D	186_L	1.165	0.86
62_M	69_Q	1.161	0.86
185_V	189_A	1.143	0.85
76_G	108_F	1.138	0.84
59_V	128_Y	1.131	0.84
48_P	135_V	1.129	0.84
184_M	188_A	1.129	0.84
123_W	150_T	1.128	0.84
101_Q	104_Q	1.123	0.84
40_W	111_V	1.116	0.83
121_A	152_I	1.113	0.83
42_T	105_F	1.110	0.83
74_I	109_T	1.104	0.83
37_A	152_I	1.100	0.82
81_T	88_S	1.094	0.82
45_M	58_V	1.092	0.82
73_P	106_Q	1.089	0.82
17_L	20_F	1.089	0.82
182_T	186_L	1.085	0.81
140_D	143_A	1.083	0.81
196_A	199_V	1.065	0.80
93_W	135_V	1.060	0.80
43_Y	150_T	1.058	0.80
80_S	192_I	1.053	0.79
122_A	149_I	1.051	0.79
112_A	115_P	1.048	0.79
57_K	128_Y	1.039	0.78
36_A	153_T	1.024	0.77
47_V	108_F	1.016	0.77
167_T	170_D	1.006	0.76
47_V	55_T	1.000	0.76
58_V	100_I	0.992	0.75
17_L	21_T	0.988	0.75
12_A	16_S	0.983	0.75
57_K	83_K	0.974	0.74
157_Q	160_D	0.959	0.73
93_W	108_F	0.958	0.73
175_G	179_L	0.950	0.72
32_P	152_I	0.949	0.72
158_V	162_H	0.949	0.72
15_G	19_F	0.946	0.72
110_F	123_W	0.943	0.71
95_A	99_G	0.937	0.71
68_F	121_A	0.934	0.71
124_D	147_H	0.925	0.70
99_G	130_K	0.922	0.70
61_K	90_S	0.907	0.68
67_E	71_Y	0.903	0.68
157_Q	161_E	0.897	0.68
16_S	20_F	0.896	0.67
45_M	60_L	0.886	0.67
8_T	19_F	0.886	0.67
44_T	109_T	0.881	0.66
22_A	194_S	0.877	0.66
72_E	106_Q	0.873	0.65
192_I	196_A	0.872	0.65
188_A	199_V	0.872	0.65
54_P	197_A	0.868	0.65
57_K	92_T	0.860	0.64
100_I	103_G	0.853	0.64
99_G	131_D	0.852	0.63
167_T	172_E	0.849	0.63
81_T	134_I	0.841	0.62
28_V	38_G	0.834	0.62
73_P	108_F	0.828	0.61
79_V	104_Q	0.821	0.61
181_I	184_M	0.818	0.60
50_E	131_D	0.813	0.60
94_E	97_D	0.812	0.60
25_S	139_G	0.809	0.59
61_K	138_T	0.808	0.59
99_G	105_F	0.808	0.59
16_S	61_K	0.800	0.59
43_Y	114_N	0.799	0.58
62_M	65_D	0.799	0.58
30_V	45_M	0.789	0.58
120_E	149_I	0.788	0.57
14_V	17_L	0.786	0.57
160_D	164_A	0.779	0.57
19_F	198_L	0.778	0.56
71_Y	129_Y	0.777	0.56
156_K	159_T	0.776	0.56
13_I	17_L	0.772	0.56
190_A	197_A	0.769	0.56
10_C	19_F	0.768	0.55
170_D	173_N	0.766	0.55
164_A	171_S	0.763	0.55
180_D	189_A	0.758	0.55
74_I	97_D	0.758	0.55
32_P	44_T	0.751	0.54
105_F	108_F	0.747	0.53
11_P	177_S	0.746	0.53
12_A	17_L	0.746	0.53
73_P	104_Q	0.745	0.53
82_Q	90_S	0.744	0.53
49_S	100_I	0.744	0.53
97_D	124_D	0.743	0.53
100_I	139_G	0.739	0.53
75_P	106_Q	0.734	0.52
49_S	127_Q	0.731	0.52
40_W	70_Q	0.731	0.52
88_S	152_I	0.729	0.52
180_D	190_A	0.726	0.51
72_E	99_G	0.726	0.51
10_C	191_I	0.721	0.51
178_A	181_I	0.720	0.51
47_V	127_Q	0.720	0.51
23_P	157_Q	0.718	0.51
18_L	102_E	0.714	0.50
46_K	70_Q	0.703	0.49
106_Q	109_T	0.703	0.49
47_V	58_V	0.703	0.49
176_S	180_D	0.698	0.49
20_F	169_D	0.698	0.49
50_E	71_Y	0.695	0.48
66_V	71_Y	0.690	0.48
66_V	112_A	0.689	0.48
56_T	102_E	0.686	0.47
157_Q	162_H	0.684	0.47
15_G	22_A	0.682	0.47
195_V	199_V	0.678	0.47
30_V	122_A	0.677	0.47
157_Q	169_D	0.676	0.46
22_A	25_S	0.676	0.46
48_P	125_A	0.672	0.46
185_V	195_V	0.671	0.46
97_D	125_A	0.670	0.46
191_I	195_V	0.667	0.46
187_S	194_S	0.666	0.45
181_I	200_K	0.660	0.45
53_L	148_S	0.652	0.44
31_K	107_Q	0.652	0.44
65_D	122_A	0.652	0.44
11_P	193_L	0.651	0.44
170_D	176_S	0.646	0.43
191_I	194_S	0.646	0.43
48_P	105_F	0.645	0.43
123_W	136_E	0.644	0.43
37_A	115_P	0.642	0.43
9_L	158_V	0.640	0.43
61_K	124_D	0.637	0.43
48_P	108_F	0.636	0.42
38_G	132_G	0.632	0.42
35_S	43_Y	0.629	0.42
180_D	188_A	0.626	0.42
18_L	28_V	0.625	0.41
174_S	182_T	0.620	0.41
48_P	55_T	0.618	0.41
31_K	91_V	0.612	0.40
110_F	136_E	0.611	0.40
124_D	148_S	0.611	0.40
169_D	176_S	0.610	0.40
28_V	32_P	0.609	0.40
61_K	136_E	0.608	0.40
158_V	161_E	0.603	0.39
163_G	171_S	0.601	0.39
40_W	48_P	0.600	0.39
170_D	175_G	0.600	0.39
177_S	196_A	0.598	0.39
67_E	150_T	0.598	0.39
42_T	109_T	0.596	0.39
78_K	87_K	0.596	0.39
167_T	171_S	0.595	0.39
117_K	133_S	0.594	0.38
155_A	159_T	0.591	0.38
158_V	182_T	0.590	0.38
64_K	84_H	0.589	0.38
191_I	200_K	0.588	0.38
48_P	129_Y	0.585	0.38
47_V	93_W	0.583	0.37
181_I	199_V	0.581	0.37
14_V	82_Q	0.581	0.37
72_E	105_F	0.581	0.37
182_T	185_V	0.578	0.37
156_K	174_S	0.577	0.37
85_D	151_N	0.576	0.37
21_T	59_V	0.575	0.37
156_K	161_E	0.571	0.36
84_H	90_S	0.568	0.36
46_K	105_F	0.565	0.36
50_E	105_F	0.564	0.36
35_S	41_E	0.560	0.35
48_P	58_V	0.558	0.35
173_N	195_V	0.555	0.35
35_S	69_Q	0.555	0.35
59_V	124_D	0.554	0.35
45_M	143_A	0.554	0.35
125_A	141_E	0.551	0.35
105_F	111_V	0.549	0.34
189_A	200_K	0.549	0.34
181_I	186_L	0.549	0.34
58_V	132_G	0.548	0.34
56_T	123_W	0.546	0.34
161_E	175_G	0.537	0.33
194_S	197_A	0.537	0.33
11_P	15_G	0.535	0.33
41_E	150_T	0.535	0.33
168_E	174_S	0.535	0.33
73_P	93_W	0.534	0.33
95_A	98_G	0.532	0.33
85_D	89_V	0.531	0.33
180_D	200_K	0.530	0.33
49_S	102_E	0.527	0.32
42_T	111_V	0.527	0.32
71_Y	147_H	0.527	0.32
9_L	190_A	0.523	0.32
62_M	71_Y	0.523	0.32
103_G	126_Y	0.523	0.32
109_T	191_I	0.521	0.32
35_S	151_N	0.517	0.32
156_K	166_K	0.514	0.31
9_L	192_I	0.514	0.31
49_S	120_E	0.512	0.31
51_K	105_F	0.512	0.31
162_H	173_N	0.512	0.31
48_P	93_W	0.511	0.31
7_L	165_T	0.510	0.31
19_F	100_I	0.510	0.31
175_G	200_K	0.509	0.31
71_Y	91_V	0.508	0.31
149_I	168_E	0.507	0.31
78_K	102_E	0.506	0.31
93_W	105_F	0.505	0.31
126_Y	135_V	0.503	0.30
32_P	119_E	0.502	0.30
180_D	187_S	0.500	0.30

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
3esmA	2	0.6275	100	0.309	Contact Map
2rttA	1	0.4951	61.9	0.935	Contact Map
1exgA	1	0.5098	36	0.944	Contact Map
3pe9A	1	0.4265	34	0.945	Contact Map
3ndzE	2	0.4902	30.2	0.946	Contact Map
2djmA	1	0.5098	28.3	0.947	Contact Map
3c75A	1	0.4657	22.9	0.949	Contact Map
2wtpA	2	0.4216	18.8	0.951	Contact Map
1lyqA	1	0.4461	17.1	0.952	Contact Map
3ul4A	1	0.5833	16	0.953	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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