YTFI - BACSU - GREMLIN Contacts

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YTFI - Uncharacterized protein YtfI

UniProt:	O34917	Sequences: MVYVLTAILILIGIVLLLRMKIHVALEYLHADDNDKLTLKITALFGLIRIKKTIPAIKVNKEDGTVDIKQKTESKMKKSSGKKKITQNDVQQSINKIEMLLHQVTRLRKISASFLAHLHITKLEWVTVIGIQDAAVTGVLTGAVWGVKGGIAAMLYDHLDFVNKPVYEVIPSFQVPVSKTHFQCIFFFRFGHAMLAAFKFVKYGRELSVLKKNPSARMTSKNDSSV	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	226 (209)
Sequences:	250 (223)
Seq/√Len:	15.4

BACSU - YTFI

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
125_W	148_K	6.672	1.00
127_T	148_K	5.522	1.00
30_H	35_D	5.190	1.00
185_I	194_M	4.556	1.00
20_M	44_L	3.289	0.99
125_W	180_T	3.285	0.99
135_A	173_F	3.110	0.98
129_I	190_F	2.975	0.98
28_Y	35_D	2.862	0.97
66_V	140_L	2.400	0.93
144_V	169_V	2.396	0.93
8_I	169_V	2.371	0.92
125_W	169_V	2.268	0.90
30_H	178_S	2.248	0.90
110_I	114_F	2.222	0.90
119_H	162_V	2.206	0.89
127_T	169_V	2.184	0.89
65_T	86_T	2.184	0.89
110_I	203_Y	2.136	0.88
28_Y	37_L	2.122	0.87
148_K	180_T	2.110	0.87
121_T	187_F	2.054	0.85
114_F	193_A	2.038	0.85
153_A	156_Y	1.998	0.84
42_T	123_L	1.951	0.82
114_F	188_F	1.862	0.79
30_H	59_V	1.805	0.77
165_P	189_R	1.803	0.77
81_G	122_K	1.698	0.72
156_Y	161_F	1.690	0.72
132_Q	176_P	1.689	0.72
185_I	191_G	1.684	0.71
117_H	192_H	1.684	0.71
14_I	169_V	1.652	0.70
185_I	193_A	1.630	0.69
131_I	176_P	1.626	0.69
30_H	33_D	1.606	0.68
185_I	202_K	1.604	0.68
28_Y	39_L	1.582	0.67
101_L	118_L	1.541	0.64
104_V	110_I	1.541	0.64
123_L	154_M	1.525	0.64
165_P	191_G	1.502	0.62
127_T	180_T	1.494	0.62
178_S	185_I	1.493	0.62
9_L	15_V	1.476	0.61
104_V	203_Y	1.473	0.61
47_L	51_K	1.423	0.58
37_L	182_F	1.415	0.58
15_V	146_G	1.414	0.58
108_R	158_H	1.414	0.58
169_V	202_K	1.401	0.57
130_G	189_R	1.388	0.56
89_D	120_I	1.368	0.55
188_F	193_A	1.342	0.53
3_Y	153_A	1.308	0.52
149_G	173_F	1.279	0.50
188_F	205_R	1.266	0.49
8_I	194_M	1.247	0.48
51_K	141_T	1.221	0.47
19_R	194_M	1.209	0.46
138_G	173_F	1.203	0.46
130_G	142_G	1.197	0.45
125_W	145_W	1.181	0.44
47_L	196_A	1.173	0.44
131_I	143_A	1.171	0.44
148_K	169_V	1.169	0.44
127_T	145_W	1.164	0.43
28_Y	147_V	1.150	0.43
90_V	126_V	1.144	0.42
107_L	112_A	1.144	0.42
179_K	182_F	1.142	0.42
180_T	193_A	1.139	0.42
82_K	198_F	1.136	0.42
33_D	178_S	1.124	0.41
45_F	203_Y	1.120	0.41
17_L	54_I	1.117	0.41
130_G	149_G	1.112	0.41
80_S	117_H	1.110	0.40
134_A	171_P	1.110	0.40
49_R	163_N	1.079	0.39
89_D	190_F	1.069	0.38
15_V	150_G	1.064	0.38
140_L	160_D	1.059	0.38
41_I	46_G	1.058	0.38
184_C	194_M	1.049	0.37
110_I	188_F	1.045	0.37
27_E	64_G	1.040	0.37
64_G	120_I	1.040	0.37
186_F	202_K	1.034	0.36
35_D	167_Y	1.032	0.36
29_L	71_K	1.030	0.36
51_K	138_G	1.025	0.36
60_N	174_Q	1.020	0.36
22_I	97_I	0.997	0.34
125_W	165_P	0.996	0.34
52_K	75_K	0.992	0.34
26_L	77_K	0.991	0.34
4_V	47_L	0.985	0.34
60_N	111_S	0.971	0.33
22_I	50_I	0.969	0.33
10_I	186_F	0.947	0.32
126_V	168_E	0.946	0.32
20_M	138_G	0.946	0.32
5_L	9_L	0.938	0.31
104_V	114_F	0.933	0.31
118_L	143_A	0.932	0.31
207_L	210_L	0.928	0.31
149_G	169_V	0.918	0.30
191_G	194_M	0.905	0.30
57_I	166_V	0.904	0.30
141_T	182_F	0.899	0.30
188_F	209_V	0.897	0.29
123_L	155_L	0.895	0.29
35_D	57_I	0.884	0.29
42_T	45_F	0.883	0.29
30_H	38_T	0.881	0.29
3_Y	118_L	0.872	0.28
22_I	77_K	0.872	0.28
125_W	171_P	0.871	0.28
86_T	210_L	0.858	0.28
139_V	161_F	0.856	0.28
138_G	208_S	0.852	0.27
20_M	110_I	0.847	0.27
86_T	107_L	0.844	0.27
30_H	34_N	0.844	0.27
44_L	116_A	0.843	0.27
38_T	119_H	0.843	0.27
62_E	175_V	0.839	0.27
51_K	184_C	0.838	0.27
128_V	172_S	0.838	0.27
5_L	146_G	0.836	0.27
34_N	133_D	0.827	0.26
138_G	207_L	0.818	0.26
14_I	205_R	0.810	0.25
109_K	116_A	0.805	0.25
26_L	39_L	0.802	0.25
8_I	15_V	0.797	0.25
95_N	201_V	0.796	0.25
108_R	112_A	0.796	0.25
71_K	170_I	0.794	0.25
20_M	180_T	0.794	0.25
138_G	151_I	0.792	0.25
128_V	179_K	0.791	0.25
25_A	147_V	0.789	0.25
145_W	149_G	0.787	0.25
40_K	51_K	0.784	0.24
113_S	199_K	0.783	0.24
100_L	203_Y	0.776	0.24
130_G	175_V	0.774	0.24
141_T	186_F	0.773	0.24
106_R	109_K	0.772	0.24
26_L	198_F	0.771	0.24
94_I	169_V	0.769	0.24
21_K	190_F	0.767	0.24
77_K	190_F	0.752	0.23
18_L	179_K	0.751	0.23
37_L	188_F	0.748	0.23
9_L	17_L	0.748	0.23
39_L	135_A	0.745	0.23
46_G	153_A	0.745	0.23
55_P	66_V	0.737	0.22
52_K	131_I	0.736	0.22
11_L	139_V	0.734	0.22
102_H	198_F	0.733	0.22
23_H	146_G	0.731	0.22
124_E	166_V	0.731	0.22
151_I	158_H	0.730	0.22
13_G	19_R	0.728	0.22
42_T	47_L	0.723	0.22
42_T	49_R	0.722	0.22
134_A	184_C	0.716	0.22
184_C	192_H	0.715	0.22
145_W	191_G	0.712	0.21
114_F	145_W	0.712	0.21
17_L	44_L	0.712	0.21
104_V	138_G	0.707	0.21
107_L	161_F	0.706	0.21
131_I	134_A	0.705	0.21
40_K	100_L	0.703	0.21
184_C	191_G	0.703	0.21
71_K	118_L	0.703	0.21
121_T	194_M	0.700	0.21
120_I	134_A	0.697	0.21
81_G	105_T	0.693	0.21
140_L	159_L	0.692	0.21
41_I	132_Q	0.692	0.21
187_F	192_H	0.692	0.21
37_L	116_A	0.689	0.21
6_T	169_V	0.688	0.21
129_I	189_R	0.685	0.20
153_A	207_L	0.682	0.20
124_E	139_V	0.681	0.20
44_L	133_D	0.681	0.20
53_T	98_E	0.680	0.20
139_V	163_N	0.680	0.20
100_L	140_L	0.679	0.20
124_E	185_I	0.676	0.20
43_A	203_Y	0.673	0.20
77_K	87_Q	0.673	0.20
137_T	171_P	0.672	0.20
60_N	65_T	0.669	0.20
123_L	173_F	0.669	0.20
34_N	87_Q	0.665	0.20
45_F	91_Q	0.664	0.20
138_G	197_A	0.663	0.20
82_K	189_R	0.663	0.20
127_T	193_A	0.662	0.20
4_V	109_K	0.661	0.20
203_Y	207_L	0.659	0.20
59_V	116_A	0.659	0.20
4_V	91_Q	0.657	0.19
12_I	185_I	0.656	0.19
24_V	147_V	0.654	0.19
105_T	178_S	0.653	0.19
129_I	201_V	0.653	0.19
39_L	52_K	0.652	0.19
4_V	134_A	0.650	0.19
35_D	66_V	0.648	0.19
35_D	55_P	0.647	0.19
9_L	159_L	0.646	0.19
152_A	188_F	0.645	0.19
173_F	203_Y	0.640	0.19
31_A	182_F	0.640	0.19
70_Q	186_F	0.637	0.19
169_V	195_L	0.634	0.19
14_I	41_I	0.632	0.19
66_V	154_M	0.630	0.19
104_V	204_G	0.627	0.18
7_A	129_I	0.626	0.18
77_K	99_M	0.625	0.18
32_D	38_T	0.623	0.18
16_L	54_I	0.622	0.18
28_Y	149_G	0.619	0.18
100_L	200_F	0.617	0.18
12_I	91_Q	0.617	0.18
30_H	56_A	0.615	0.18
18_L	163_N	0.613	0.18
27_E	111_S	0.611	0.18
32_D	119_H	0.608	0.18
79_S	82_K	0.607	0.18
5_L	8_I	0.606	0.18
133_D	162_V	0.604	0.18
131_I	136_V	0.604	0.18
193_A	196_A	0.595	0.17
16_L	108_R	0.595	0.17
13_G	24_V	0.594	0.17
41_I	107_L	0.593	0.17
116_A	146_G	0.590	0.17
60_N	67_D	0.590	0.17
108_R	151_I	0.588	0.17
95_N	151_I	0.588	0.17
60_N	172_S	0.586	0.17
85_I	169_V	0.585	0.17
100_L	187_F	0.581	0.17
30_H	86_T	0.581	0.17
141_T	166_V	0.580	0.17
74_S	113_S	0.580	0.17
169_V	178_S	0.580	0.17
23_H	179_K	0.574	0.17
22_I	131_I	0.572	0.17
4_V	119_H	0.571	0.17
8_I	117_H	0.571	0.17
63_D	206_E	0.570	0.17
16_L	138_G	0.569	0.17
94_I	167_Y	0.569	0.17
52_K	88_N	0.569	0.17
67_D	198_F	0.568	0.16
90_V	201_V	0.568	0.16
10_I	92_Q	0.567	0.16
147_V	173_F	0.567	0.16
91_Q	155_L	0.565	0.16
73_E	197_A	0.558	0.16
68_I	146_G	0.558	0.16
90_V	96_K	0.558	0.16
117_H	120_I	0.556	0.16
113_S	153_A	0.554	0.16
60_N	170_I	0.554	0.16
74_S	147_V	0.554	0.16
43_A	182_F	0.551	0.16
134_A	146_G	0.550	0.16
21_K	187_F	0.545	0.16
146_G	153_A	0.545	0.16
39_L	191_G	0.541	0.16
20_M	82_K	0.537	0.16
20_M	188_F	0.534	0.15
74_S	164_K	0.532	0.15
17_L	31_A	0.532	0.15
153_A	200_F	0.530	0.15
84_K	122_K	0.530	0.15
152_A	167_Y	0.529	0.15
182_F	200_F	0.528	0.15
33_D	57_I	0.522	0.15
20_M	106_R	0.521	0.15
87_Q	206_E	0.521	0.15
59_V	169_V	0.520	0.15
10_I	88_N	0.520	0.15
139_V	186_F	0.518	0.15
6_T	176_P	0.517	0.15
30_H	57_I	0.517	0.15
6_T	11_L	0.513	0.15
142_G	173_F	0.513	0.15
54_I	178_S	0.512	0.15
30_H	93_S	0.512	0.15
164_K	173_F	0.511	0.15
9_L	141_T	0.510	0.15
39_L	50_I	0.509	0.15
32_D	161_F	0.508	0.15
78_K	81_G	0.508	0.15
21_K	54_I	0.505	0.15
79_S	101_L	0.505	0.15
6_T	127_T	0.503	0.15
40_K	66_V	0.500	0.14
59_V	109_K	0.500	0.14

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
2m3eA	1	0.177	9.8	0.958	Contact Map
3wguG	1	0.0929	5.2	0.963	Contact Map
1m56D	1	0.0885	4.9	0.963	Contact Map
2k1aA	1	0.1504	4.7	0.963	Contact Map
1qleD	1	0.0885	4.6	0.964	Contact Map
2mkvA	1	0.1593	4	0.965	Contact Map
4u0qB	1	0	3.1	0.967	Contact Map
2kncA	1	0.1947	3	0.967	Contact Map
4px7A	1	0.3407	2.8	0.967	Contact Map
5a2fA	1	0	2.6	0.968	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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