YQEI - BACSU - GREMLIN Contacts

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YQEI - Probable RNA-binding protein YqeI

UniProt:	P54454	Sequences: MLTGKQKRFLRSKAHHLTPIFQVGKGGVNDNMIKQIAEALEARELIKVSVLQNCEEDKNDVAEALVKGSRSQLVQTIGNTIVLYKESKENKQIELP	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	96 (91)
Sequences:	937 (353)
Seq/√Len:	37.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
37_A	85_K	6.013	1.00
86_E	91_K	3.946	1.00
9_F	13_K	3.470	1.00
20_I	39_A	3.062	1.00
23_V	61_V	2.850	1.00
23_V	28_V	2.622	1.00
65_L	83_L	2.122	0.99
30_D	68_G	1.916	0.98
86_E	89_E	1.851	0.98
54_C	61_V	1.744	0.96
21_F	35_Q	1.692	0.96
27_G	56_E	1.613	0.95
63_E	67_K	1.580	0.94
33_I	65_L	1.495	0.92
31_N	35_Q	1.478	0.91
14_A	82_V	1.432	0.90
59_N	63_E	1.367	0.88
12_S	16_H	1.348	0.87
36_I	83_L	1.327	0.86
62_A	76_T	1.301	0.85
29_N	73_L	1.287	0.85
41_E	85_K	1.240	0.82
66_V	73_L	1.236	0.82
87_S	91_K	1.231	0.82
33_I	70_R	1.226	0.82
34_K	38_E	1.219	0.81
40_L	46_I	1.203	0.80
40_L	89_E	1.197	0.80
24_G	47_K	1.191	0.80
76_T	81_I	1.188	0.79
2_L	72_Q	1.146	0.77
14_A	17_L	1.145	0.77
25_K	45_L	1.104	0.74
65_L	81_I	1.103	0.74
4_G	8_R	1.103	0.74
64_A	68_G	1.096	0.74
66_V	71_S	1.080	0.72
32_M	48_V	1.058	0.71
23_V	68_G	1.051	0.70
49_S	92_Q	1.049	0.70
7_K	15_H	1.004	0.67
49_S	80_T	0.989	0.66
40_L	71_S	0.967	0.64
71_S	89_E	0.967	0.64
45_L	83_L	0.954	0.63
35_Q	40_L	0.943	0.62
50_V	61_V	0.937	0.61
74_V	82_V	0.934	0.61
7_K	80_T	0.926	0.60
62_A	73_L	0.926	0.60
11_R	75_Q	0.924	0.60
60_D	63_E	0.914	0.59
39_A	43_R	0.906	0.59
47_K	78_G	0.906	0.59
53_N	74_V	0.899	0.58
36_I	65_L	0.892	0.58
5_K	12_S	0.888	0.57
20_I	43_R	0.884	0.57
69_S	85_K	0.879	0.56
15_H	80_T	0.877	0.56
4_G	16_H	0.874	0.56
86_E	92_Q	0.864	0.55
69_S	73_L	0.853	0.54
70_R	92_Q	0.839	0.53
54_C	81_I	0.835	0.53
17_L	36_I	0.834	0.53
58_K	76_T	0.825	0.52
2_L	15_H	0.823	0.52
63_E	70_R	0.821	0.51
53_N	77_I	0.814	0.51
44_E	82_V	0.808	0.50
6_Q	87_S	0.781	0.48
50_V	54_C	0.780	0.48
59_N	76_T	0.766	0.47
47_K	77_I	0.759	0.46
73_L	76_T	0.746	0.45
72_Q	75_Q	0.746	0.45
70_R	86_E	0.746	0.45
36_I	42_A	0.739	0.44
22_Q	49_S	0.736	0.44
33_I	69_S	0.734	0.44
40_L	43_R	0.728	0.43
44_E	78_G	0.726	0.43
41_E	87_S	0.725	0.43
8_R	15_H	0.723	0.43
38_E	45_L	0.720	0.43
58_K	79_N	0.717	0.42
5_K	65_L	0.711	0.42
37_A	88_K	0.704	0.41
27_G	61_V	0.695	0.40
88_K	92_Q	0.668	0.38
37_A	70_R	0.666	0.38
64_A	70_R	0.665	0.38
11_R	82_V	0.658	0.37
7_K	11_R	0.649	0.37
39_A	42_A	0.648	0.36
59_N	79_N	0.643	0.36
54_C	68_G	0.642	0.36
79_N	90_N	0.629	0.35
40_L	66_V	0.625	0.35
87_S	90_N	0.624	0.35
19_P	42_A	0.621	0.34
2_L	16_H	0.618	0.34
86_E	90_N	0.615	0.34
6_Q	22_Q	0.613	0.34
20_I	49_S	0.612	0.34
44_E	51_L	0.610	0.33
44_E	84_Y	0.609	0.33
68_G	71_S	0.608	0.33
38_E	83_L	0.605	0.33
24_G	48_V	0.603	0.33
67_K	70_R	0.601	0.33
72_Q	82_V	0.601	0.33
16_H	42_A	0.598	0.32
21_F	42_A	0.592	0.32
13_K	16_H	0.591	0.32
22_Q	51_L	0.589	0.32
26_G	32_M	0.583	0.31
9_F	12_S	0.581	0.31
12_S	15_H	0.568	0.30
43_R	78_G	0.556	0.29
43_R	47_K	0.554	0.29
26_G	49_S	0.550	0.29
7_K	75_Q	0.539	0.28
8_R	80_T	0.530	0.27
56_E	60_D	0.530	0.27
29_N	32_M	0.525	0.27
64_A	88_K	0.525	0.27
24_G	83_L	0.524	0.27
66_V	70_R	0.522	0.27
23_V	32_M	0.516	0.26
48_V	81_I	0.514	0.26
8_R	52_Q	0.507	0.26
27_G	35_Q	0.502	0.26
27_G	44_E	0.502	0.26
9_F	51_L	0.500	0.25

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
1rq8A	1	1	100	0.157	Contact Map
1jo0A	1	0.9896	100	0.174	Contact Map
3quaA	2	0.6979	27	0.908	Contact Map
3sbxA	2	0.6875	26.8	0.908	Contact Map
2agkA	1	0.9271	24.6	0.91	Contact Map
3ka5A	2	0.5521	19.3	0.914	Contact Map
3lyvA	2	0.5625	16.4	0.917	Contact Map
3k2tA	1	0.5208	13	0.921	Contact Map
1wekA	5	0.7083	11.8	0.922	Contact Map
4c26A	1	0.4792	11.6	0.922	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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