FRMR - ECOLI - GREMLIN Contacts

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FRMR - Transcriptional repressor FrmR

UniProt:	P0AAP3	Sequences: MPSTPEEKKKVLTRVRRIRGQIDALERSLEGDAECRAILQQIAAVRGAANGLMAEVLESHIRETFDRNDCYSREVSQSVDDTIELVRAYLK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13296
Length:	91 (90)
Sequences:	435 (285)
Seq/√Len:	30.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
42_I	56_V	4.604	1.00
19_R	23_D	3.530	1.00
45_V	49_A	2.994	1.00
4_T	8_K	2.642	1.00
18_I	22_I	2.525	0.99
23_D	27_R	2.400	0.99
8_K	32_D	2.011	0.97
16_R	26_E	2.009	0.97
49_A	53_M	1.888	0.96
15_V	29_L	1.888	0.96
79_V	82_T	1.873	0.96
58_E	62_R	1.824	0.95
53_M	90_L	1.806	0.95
44_A	53_M	1.718	0.93
24_A	28_S	1.712	0.93
61_I	82_T	1.640	0.91
24_A	40_Q	1.589	0.90
2_P	64_T	1.555	0.89
29_L	50_N	1.545	0.89
34_E	37_A	1.527	0.88
58_E	83_I	1.422	0.84
11_V	64_T	1.419	0.84
12_L	16_R	1.403	0.83
54_A	90_L	1.382	0.82
71_Y	75_V	1.349	0.81
86_V	90_L	1.338	0.80
25_L	41_Q	1.337	0.80
62_R	83_I	1.328	0.80
11_V	85_L	1.290	0.78
15_V	52_L	1.283	0.77
4_T	11_V	1.187	0.71
39_L	57_L	1.175	0.71
9_K	13_T	1.157	0.69
2_P	5_P	1.132	0.68
3_S	64_T	1.101	0.65
25_L	44_A	1.095	0.65
13_T	17_R	1.086	0.64
19_R	26_E	1.060	0.62
40_Q	44_A	1.026	0.60
45_V	90_L	1.015	0.59
3_S	11_V	1.008	0.59
61_I	86_V	1.000	0.58
27_R	30_E	0.994	0.57
78_S	91_K	0.994	0.57
57_L	79_V	0.992	0.57
15_V	26_E	0.975	0.56
61_I	83_I	0.964	0.55
5_P	32_D	0.960	0.55
7_E	56_V	0.949	0.54
4_T	59_S	0.935	0.53
71_Y	74_E	0.932	0.53
28_S	33_A	0.926	0.52
28_S	57_L	0.915	0.51
73_R	76_S	0.913	0.51
10_K	23_D	0.911	0.51
61_I	79_V	0.900	0.50
57_L	66_D	0.894	0.50
63_E	88_A	0.881	0.49
43_A	87_R	0.875	0.48
42_I	53_M	0.846	0.46
39_L	50_N	0.832	0.45
10_K	32_D	0.826	0.44
28_S	31_G	0.810	0.43
72_S	76_S	0.809	0.43
57_L	62_R	0.805	0.43
4_T	64_T	0.800	0.42
66_D	79_V	0.795	0.42
78_S	87_R	0.778	0.40
16_R	87_R	0.778	0.40
59_S	68_N	0.774	0.40
78_S	85_L	0.766	0.40
18_I	45_V	0.753	0.39
36_R	46_R	0.752	0.38
22_I	25_L	0.747	0.38
63_E	67_R	0.746	0.38
54_A	86_V	0.744	0.38
27_R	46_R	0.730	0.37
27_R	41_Q	0.729	0.37
49_A	69_D	0.722	0.36
36_R	81_D	0.714	0.36
3_S	38_I	0.707	0.35
45_V	79_V	0.702	0.35
55_E	84_E	0.694	0.34
50_N	89_Y	0.686	0.34
9_K	40_Q	0.683	0.33
20_G	48_A	0.683	0.33
41_Q	48_A	0.671	0.33
8_K	12_L	0.667	0.32
64_T	85_L	0.666	0.32
10_K	69_D	0.655	0.31
44_A	48_A	0.648	0.31
56_V	65_F	0.644	0.31
69_D	76_S	0.644	0.31
5_P	8_K	0.643	0.31
69_D	72_S	0.641	0.31
4_T	32_D	0.638	0.30
11_V	80_D	0.634	0.30
2_P	11_V	0.632	0.30
15_V	38_I	0.629	0.30
19_R	88_A	0.626	0.30
38_I	76_S	0.623	0.29
13_T	45_V	0.621	0.29
25_L	32_D	0.619	0.29
7_E	84_E	0.615	0.29
5_P	59_S	0.610	0.28
59_S	63_E	0.605	0.28
25_L	59_S	0.600	0.28
51_G	85_L	0.596	0.28
9_K	41_Q	0.591	0.27
42_I	52_L	0.586	0.27
35_C	87_R	0.580	0.27
24_A	49_A	0.578	0.26
43_A	80_D	0.576	0.26
76_S	80_D	0.573	0.26
74_E	83_I	0.572	0.26
54_A	79_V	0.570	0.26
57_L	86_V	0.567	0.26
59_S	84_E	0.566	0.26
50_N	91_K	0.565	0.26
11_V	59_S	0.564	0.26
10_K	37_A	0.564	0.26
53_M	68_N	0.555	0.25
10_K	19_R	0.553	0.25
60_H	64_T	0.544	0.24
37_A	40_Q	0.544	0.24
13_T	22_I	0.542	0.24
71_Y	83_I	0.542	0.24
60_H	66_D	0.539	0.24
14_R	20_G	0.537	0.24
18_I	91_K	0.526	0.23
59_S	64_T	0.520	0.23
34_E	38_I	0.516	0.23
23_D	54_A	0.505	0.22
46_R	54_A	0.501	0.22
12_L	28_S	0.500	0.22

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
4m1pA	3	0.989	99.9	0.328	Contact Map
2hh7A	3	0.9231	99.9	0.346	Contact Map
4adzA	4	0.967	99.9	0.369	Contact Map
3aaiA	3	0.8791	99.9	0.401	Contact Map
2okuA	2	0.5714	73.9	0.885	Contact Map
2fb5A	3	0.9011	35.2	0.909	Contact Map
2ffhA	4	0.4835	18.6	0.921	Contact Map
3dm5A	4	0.5275	14	0.925	Contact Map
2xxaA	1	0.4725	12.2	0.927	Contact Map
2p61A	1	0.5604	10.9	0.929	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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