IMCp - PFAM28P - GREMLIN Contacts

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IMCp - Inner membrane complex protein

PFAM:	PF12314	Sequences: KVEVQEVVREVPKPVVQTVEKIVEVPQVQYVEKIVEVPQVQEVEKIVPKVEVQEVVREVPKVEVQEVEKIVEVPQVQTVERIVEVEVVEEVVKY	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	94 (82)
Sequences:	620 (527)
Seq/√Len:	58.2
META:	0.755

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
29_Q	77_Q	3.391	1.00
80_E	84_E	3.201	1.00
42_E	46_I	2.922	1.00
66_E	72_E	2.762	1.00
35_V	38_P	2.354	1.00
27_Q	75_Q	2.204	1.00
10_E	58_E	2.098	1.00
20_E	24_E	1.826	0.99
60_P	64_V	1.766	0.99
14_P	28_V	1.681	0.99
32_E	80_E	1.661	0.99
14_P	62_V	1.615	0.99
24_E	49_K	1.598	0.99
68_E	72_E	1.582	0.99
58_E	61_K	1.570	0.98
63_E	76_V	1.502	0.98
3_E	7_V	1.482	0.98
31_V	45_K	1.470	0.98
71_V	75_Q	1.436	0.97
6_E	31_V	1.406	0.97
13_K	35_V	1.376	0.96
22_I	70_I	1.335	0.96
10_E	13_K	1.330	0.96
3_E	19_V	1.312	0.95
78_T	84_E	1.265	0.94
20_E	32_E	1.244	0.94
18_T	24_E	1.229	0.93
77_Q	81_R	1.206	0.93
15_V	42_E	1.144	0.91
12_P	21_K	1.143	0.91
23_V	26_P	1.140	0.90
6_E	54_E	1.138	0.90
81_R	84_E	1.136	0.90
6_E	29_Q	1.116	0.89
21_K	36_E	1.112	0.89
7_V	55_V	1.107	0.89
59_V	82_I	1.101	0.89
21_K	71_V	1.089	0.88
11_V	79_V	1.086	0.88
49_K	72_E	1.073	0.87
8_V	56_V	1.070	0.87
36_E	39_Q	1.061	0.87
33_K	67_V	1.028	0.85
8_V	54_E	1.026	0.85
17_Q	41_Q	1.010	0.84
18_T	66_E	0.999	0.83
41_Q	46_I	0.987	0.83
69_K	73_V	0.957	0.81
40_V	44_E	0.956	0.81
36_E	61_K	0.947	0.80
24_E	72_E	0.946	0.80
32_E	46_I	0.945	0.80
77_Q	80_E	0.905	0.77
69_K	81_R	0.897	0.76
30_Y	34_I	0.895	0.76
21_K	44_E	0.887	0.75
19_V	67_V	0.883	0.75
9_R	48_P	0.872	0.74
67_V	71_V	0.858	0.73
39_Q	53_Q	0.851	0.72
32_E	44_E	0.850	0.72
78_T	81_R	0.844	0.72
38_P	68_E	0.839	0.71
17_Q	48_P	0.836	0.71
18_T	51_E	0.808	0.68
26_P	37_V	0.806	0.68
9_R	16_V	0.806	0.68
8_V	12_P	0.804	0.68
8_V	14_P	0.794	0.67
36_E	57_R	0.788	0.66
30_Y	82_I	0.784	0.66
55_V	65_Q	0.778	0.65
50_V	54_E	0.770	0.65
4_V	36_E	0.748	0.62
26_P	39_Q	0.743	0.62
28_V	33_K	0.740	0.62
29_Q	51_E	0.734	0.61
16_V	24_E	0.728	0.60
7_V	25_V	0.697	0.57
6_E	39_Q	0.695	0.57
25_V	71_V	0.691	0.56
79_V	83_V	0.686	0.56
30_Y	55_V	0.685	0.56
47_V	73_V	0.683	0.55
42_E	45_K	0.673	0.54
19_V	49_K	0.672	0.54
20_E	68_E	0.671	0.54
25_V	45_K	0.671	0.54
24_E	43_V	0.661	0.53
34_I	43_V	0.659	0.53
42_E	51_E	0.644	0.51
5_Q	25_V	0.622	0.49
3_E	15_V	0.618	0.48
58_E	62_V	0.616	0.48
44_E	58_E	0.611	0.48
4_V	12_P	0.600	0.46
19_V	23_V	0.592	0.45
10_E	51_E	0.587	0.45
29_Q	56_V	0.583	0.44
22_I	66_E	0.581	0.44
40_V	61_K	0.581	0.44
26_P	36_E	0.581	0.44
21_K	33_K	0.580	0.44
27_Q	43_V	0.567	0.43
68_E	74_P	0.566	0.43
8_V	15_V	0.565	0.42
76_V	81_R	0.564	0.42
57_R	78_T	0.556	0.42
66_E	75_Q	0.552	0.41
10_E	22_I	0.552	0.41
48_P	60_P	0.549	0.41
78_T	82_I	0.546	0.40
57_R	60_P	0.536	0.39
12_P	60_P	0.530	0.39
19_V	43_V	0.530	0.39
75_Q	78_T	0.522	0.38
34_I	56_V	0.514	0.37
3_E	51_E	0.506	0.36
60_P	81_R	0.505	0.36
33_K	41_Q	0.504	0.36
18_T	44_E	0.503	0.36
16_V	48_P	0.502	0.36
3_E	42_E	0.500	0.36

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
1k6dA	2	0.3936	0.4	0.935	Contact Map
1wirA	1	0.3404	0.3	0.944	Contact Map
1pp5A	1	0.0957	0.2	0.949	Contact Map
4xk8F	1	0.4149	0.2	0.951	Contact Map
4pl8H	1	0.0745	0.2	0.951	Contact Map
4g97A	1	0.3191	0.2	0.952	Contact Map
1ea0A	1	0.3936	0.2	0.956	Contact Map
1eexB	1	0.3298	0.2	0.957	Contact Map
3lufA	2	0.234	0.2	0.957	Contact Map
3vrpA	1	0.3085	0.2	0.959	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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