YOBK - BACSU - GREMLIN Contacts

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YOBK - Antitoxin YobK

UniProt:	O34596	Sequences: MIYSKVENFINENKQNAIFTEGASHENIGRIEENLQCDLPNSYKWFLEKYGAGGLFGVLVLGYNFDHASVVNRTNEYKEHYGLTDGLVVIEDVDYFAYCLDTNKMKDGECPVVEWDRVIGYQDTVADSFIEFFYNKIQEAKDDWDEDEDWDD	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	152 (137)
Sequences:	220 (167)
Seq/√Len:	14.3

BACSU - YOBK

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
74_T	78_K	4.068	1.00
42_S	111_P	3.979	1.00
52_A	68_A	3.348	0.99
19_F	53_G	3.059	0.98
25_H	48_E	2.940	0.97
75_N	79_E	2.872	0.97
61_L	68_A	2.485	0.93
6_V	9_F	2.424	0.92
21_E	51_G	2.175	0.86
105_M	110_C	2.039	0.82
61_L	73_R	2.010	0.81
61_L	96_F	1.920	0.78
92_D	96_F	1.805	0.74
62_G	74_T	1.800	0.74
100_L	109_E	1.771	0.72
28_I	44_K	1.743	0.71
10_I	19_F	1.731	0.70
42_S	110_C	1.681	0.68
104_K	108_G	1.679	0.68
126_A	135_N	1.655	0.67
100_L	112_V	1.651	0.67
9_F	14_K	1.624	0.65
46_F	51_G	1.579	0.63
75_N	78_K	1.558	0.62
39_L	78_K	1.531	0.61
63_Y	87_L	1.501	0.59
35_L	47_L	1.457	0.57
6_V	102_T	1.456	0.57
68_A	72_N	1.427	0.55
53_G	129_F	1.411	0.54
85_D	138_Q	1.383	0.53
54_G	61_L	1.374	0.52
32_E	83_L	1.368	0.52
127_D	131_E	1.354	0.51
12_E	15_Q	1.320	0.49
87_L	92_D	1.318	0.49
91_E	94_D	1.314	0.49
34_N	75_N	1.295	0.48
5_K	25_H	1.286	0.47
40_P	102_T	1.274	0.47
112_V	128_S	1.270	0.46
98_Y	140_A	1.252	0.46
23_A	131_E	1.228	0.44
102_T	112_V	1.217	0.44
8_N	11_N	1.214	0.43
81_Y	95_Y	1.191	0.42
84_T	113_V	1.187	0.42
47_L	128_S	1.182	0.42
63_Y	68_A	1.173	0.41
39_L	134_Y	1.168	0.41
131_E	135_N	1.162	0.41
52_A	70_V	1.161	0.41
64_N	69_S	1.158	0.40
88_V	112_V	1.141	0.40
41_N	112_V	1.139	0.39
132_F	135_N	1.129	0.39
42_S	109_E	1.124	0.39
27_N	63_Y	1.111	0.38
55_L	94_D	1.084	0.37
40_P	45_W	1.074	0.36
99_C	115_W	1.067	0.36
38_D	128_S	1.065	0.36
15_Q	29_G	1.061	0.35
69_S	117_R	1.051	0.35
112_V	130_I	1.037	0.34
84_T	87_L	1.036	0.34
29_G	36_Q	1.026	0.34
41_N	79_E	1.014	0.33
50_Y	133_F	1.014	0.33
8_N	112_V	1.005	0.33
25_H	71_V	1.005	0.33
32_E	44_K	1.001	0.33
7_E	11_N	1.000	0.32
83_L	103_N	0.996	0.32
12_E	85_D	0.986	0.32
26_E	112_V	0.984	0.32
24_S	112_V	0.972	0.31
63_Y	66_D	0.966	0.31
6_V	132_F	0.946	0.30
123_D	128_S	0.943	0.30
6_V	140_A	0.926	0.29
22_G	86_G	0.922	0.29
99_C	113_V	0.920	0.29
92_D	97_A	0.913	0.28
105_M	111_P	0.906	0.28
63_Y	126_A	0.906	0.28
5_K	33_E	0.901	0.28
98_Y	133_F	0.895	0.28
21_E	74_T	0.890	0.27
5_K	14_K	0.889	0.27
42_S	101_D	0.889	0.27
103_N	132_F	0.888	0.27
105_M	132_F	0.888	0.27
41_N	45_W	0.886	0.27
63_Y	103_N	0.885	0.27
31_I	69_S	0.881	0.27
17_A	39_L	0.881	0.27
92_D	117_R	0.879	0.27
48_E	137_I	0.876	0.27
35_L	129_F	0.864	0.26
39_L	57_G	0.849	0.26
40_P	129_F	0.840	0.25
102_T	109_E	0.837	0.25
52_A	62_G	0.835	0.25
75_N	102_T	0.826	0.25
52_A	59_L	0.825	0.25
6_V	15_Q	0.821	0.25
85_D	133_F	0.818	0.24
102_T	111_P	0.817	0.24
31_I	59_L	0.816	0.24
90_I	96_F	0.812	0.24
61_L	72_N	0.805	0.24
28_I	65_F	0.803	0.24
14_K	79_E	0.802	0.24
62_G	68_A	0.799	0.24
61_L	69_S	0.797	0.24
100_L	135_N	0.797	0.24
102_T	110_C	0.794	0.23
31_I	39_L	0.787	0.23
28_I	51_G	0.785	0.23
62_G	99_C	0.776	0.23
82_G	88_V	0.775	0.23
73_R	76_E	0.775	0.23
9_F	13_N	0.772	0.23
88_V	93_V	0.760	0.22
11_N	41_N	0.751	0.22
67_H	72_N	0.745	0.22
25_H	36_Q	0.738	0.21
90_I	99_C	0.732	0.21
51_G	83_L	0.731	0.21
9_F	139_E	0.728	0.21
17_A	24_S	0.707	0.20
69_S	72_N	0.701	0.20
51_G	74_T	0.700	0.20
86_G	96_F	0.693	0.20
60_V	114_E	0.693	0.20
123_D	133_F	0.682	0.19
54_G	99_C	0.677	0.19
74_T	83_L	0.673	0.19
5_K	36_Q	0.667	0.19
8_N	14_K	0.666	0.19
47_L	137_I	0.665	0.19
55_L	59_L	0.664	0.19
25_H	33_E	0.664	0.19
5_K	112_V	0.662	0.19
22_G	120_G	0.656	0.18
80_H	85_D	0.652	0.18
21_E	115_W	0.648	0.18
83_L	115_W	0.648	0.18
88_V	111_P	0.646	0.18
48_E	90_I	0.645	0.18
54_G	62_G	0.645	0.18
62_G	115_W	0.640	0.18
34_N	48_E	0.639	0.18
45_W	49_K	0.638	0.18
45_W	53_G	0.636	0.18
92_D	138_Q	0.633	0.18
46_F	99_C	0.628	0.18
104_K	111_P	0.623	0.17
31_I	117_R	0.613	0.17
21_E	78_K	0.609	0.17
69_S	126_A	0.598	0.17
62_G	100_L	0.591	0.16
54_G	120_G	0.589	0.16
29_G	133_F	0.585	0.16
14_K	23_A	0.583	0.16
33_E	86_G	0.580	0.16
21_E	62_G	0.579	0.16
64_N	68_A	0.579	0.16
83_L	99_C	0.575	0.16
117_R	122_Q	0.571	0.16
12_E	124_T	0.571	0.16
18_I	59_L	0.570	0.16
22_G	134_Y	0.569	0.16
108_G	113_V	0.569	0.16
28_I	39_L	0.567	0.16
11_N	89_V	0.565	0.16
36_Q	61_L	0.563	0.16
128_S	131_E	0.562	0.16
87_L	99_C	0.559	0.15
41_N	106_K	0.559	0.15
82_G	125_V	0.558	0.15
27_N	125_V	0.554	0.15
86_G	103_N	0.553	0.15
32_E	36_Q	0.545	0.15
6_V	130_I	0.543	0.15
47_L	126_A	0.540	0.15
101_D	110_C	0.539	0.15
48_E	120_G	0.538	0.15
106_K	123_D	0.538	0.15
48_E	65_F	0.534	0.15
6_V	120_G	0.532	0.15
4_S	12_E	0.530	0.15
37_C	120_G	0.530	0.15
66_D	94_D	0.527	0.15
71_V	127_D	0.523	0.14
32_E	75_N	0.519	0.14
10_I	18_I	0.514	0.14
49_K	63_Y	0.511	0.14
21_E	83_L	0.510	0.14
60_V	137_I	0.509	0.14
45_W	130_I	0.507	0.14
14_K	87_L	0.505	0.14
9_F	87_L	0.502	0.14
64_N	72_N	0.501	0.14
10_I	83_L	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
2prvA	2	1	100	0.412	Contact Map
2icgA	1	0.9474	100	0.513	Contact Map
2pagA	1	0.8421	99.9	0.604	Contact Map
3d5pA	2	0.8289	99.7	0.668	Contact Map
3ffvA	1	0.8816	41.4	0.937	Contact Map
3l5lA	2	0.3158	37.6	0.938	Contact Map
3qtmA	1	0.3289	15.6	0.949	Contact Map
3msvA	2	0.3289	14.1	0.949	Contact Map
1kl9A	2	0.5	12.5	0.951	Contact Map
2ivyA	2	0.4211	9.2	0.954	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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