EccE - PFAM28P - GREMLIN Contacts

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EccE - Putative type VII ESX secretion system translocon, EccE

PFAM:	PF11203	Sequences: APARRTTWLALRLDPADNAEAVAARGGGVEGAARALAAAARRLADRLREAGLRARVLDADELAAALARLAGGAPLAPARTRETWRGWRGDGGYHTTYWV	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	99 (95)
Sequences:	1157 (758)
Seq/√Len:	77.8
META:	0.605

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
28_G	31_G	3.504	1.00
14_D	17_D	3.456	1.00
11_L	43_L	3.275	1.00
26_G	31_G	3.123	1.00
27_G	31_G	2.985	1.00
88_R	93_Y	2.699	1.00
58_D	61_E	2.463	1.00
22_V	31_G	2.202	1.00
53_R	75_L	2.116	1.00
86_G	95_T	2.074	1.00
25_R	35_A	1.849	1.00
55_R	61_E	1.818	1.00
40_A	56_V	1.813	1.00
89_G	94_H	1.773	1.00
58_D	62_L	1.579	1.00
64_A	77_P	1.570	0.99
81_R	88_R	1.536	0.99
18_N	21_A	1.499	0.99
13_L	36_L	1.490	0.99
34_R	37_A	1.487	0.99
41_R	45_D	1.434	0.99
62_L	66_L	1.389	0.99
50_A	81_R	1.368	0.99
11_L	61_E	1.334	0.98
22_V	26_G	1.314	0.98
74_P	83_T	1.304	0.98
40_A	51_G	1.278	0.98
35_A	42_R	1.253	0.97
35_A	39_A	1.246	0.97
15_P	41_R	1.227	0.97
36_L	98_W	1.227	0.97
38_A	45_D	1.215	0.97
18_N	22_V	1.210	0.97
22_V	27_G	1.166	0.96
87_W	94_H	1.155	0.96
60_D	67_A	1.147	0.96
38_A	42_R	1.142	0.96
66_L	69_L	1.140	0.95
12_R	15_P	1.118	0.95
18_N	31_G	1.116	0.95
45_D	62_L	1.108	0.95
37_A	81_R	1.102	0.95
13_L	82_E	1.101	0.95
25_R	31_G	1.092	0.94
66_L	87_W	1.091	0.94
2_P	46_R	1.069	0.94
14_D	57_L	1.064	0.93
61_E	64_A	1.033	0.92
9_L	53_R	1.003	0.91
9_L	52_L	1.000	0.91
2_P	87_W	0.991	0.91
73_A	77_P	0.984	0.91
26_G	35_A	0.977	0.90
64_A	68_R	0.971	0.90
27_G	32_A	0.941	0.88
62_L	68_R	0.928	0.88
25_R	42_R	0.920	0.87
57_L	66_L	0.914	0.87
43_L	46_R	0.903	0.86
3_A	35_A	0.897	0.86
7_T	48_R	0.889	0.85
93_Y	98_W	0.886	0.85
40_A	93_Y	0.870	0.84
46_R	69_L	0.861	0.84
7_T	13_L	0.861	0.84
14_D	65_A	0.852	0.83
90_D	94_H	0.844	0.82
22_V	36_L	0.833	0.81
3_A	28_G	0.806	0.79
60_D	72_G	0.805	0.79
44_A	49_E	0.802	0.79
22_V	87_W	0.800	0.79
60_D	63_A	0.800	0.79
9_L	72_G	0.790	0.78
15_P	18_N	0.783	0.77
66_L	94_H	0.780	0.77
90_D	97_Y	0.762	0.75
67_A	83_T	0.761	0.75
51_G	98_W	0.745	0.74
21_A	27_G	0.744	0.74
66_L	71_G	0.744	0.74
87_W	92_G	0.733	0.73
57_L	82_E	0.724	0.72
39_A	55_R	0.720	0.71
78_A	81_R	0.711	0.70
12_R	38_A	0.696	0.69
91_G	95_T	0.685	0.67
88_R	91_G	0.672	0.66
72_G	94_H	0.663	0.65
75_L	85_R	0.657	0.64
50_A	83_T	0.655	0.64
74_P	78_A	0.654	0.64
15_P	31_G	0.654	0.64
12_R	35_A	0.654	0.64
69_L	72_G	0.652	0.64
63_A	67_A	0.646	0.63
23_A	29_V	0.645	0.63
67_A	78_A	0.620	0.60
15_P	45_D	0.612	0.59
83_T	86_G	0.612	0.59
22_V	28_G	0.611	0.59
73_A	97_Y	0.605	0.58
62_L	87_W	0.605	0.58
66_L	85_R	0.604	0.58
26_G	34_R	0.603	0.58
54_A	88_R	0.600	0.57
7_T	68_R	0.600	0.57
10_A	69_L	0.598	0.57
82_E	87_W	0.594	0.56
5_R	48_R	0.593	0.56
70_A	87_W	0.590	0.56
61_E	68_R	0.579	0.55
25_R	40_A	0.569	0.53
45_D	48_R	0.567	0.53
25_R	39_A	0.566	0.53
65_A	86_G	0.560	0.52
75_L	83_T	0.558	0.52
23_A	28_G	0.555	0.52
28_G	34_R	0.554	0.51
60_D	78_A	0.553	0.51
9_L	59_A	0.541	0.50
9_L	97_Y	0.538	0.49
38_A	54_A	0.531	0.48
86_G	93_Y	0.531	0.48
19_A	94_H	0.530	0.48
5_R	39_A	0.530	0.48
94_H	98_W	0.528	0.48
27_G	34_R	0.527	0.48
16_A	76_A	0.525	0.48
21_A	25_R	0.524	0.48
22_V	32_A	0.524	0.48
11_L	95_T	0.520	0.47
74_P	77_P	0.520	0.47
64_A	67_A	0.518	0.47
13_L	32_A	0.518	0.47
37_A	41_R	0.516	0.47
67_A	71_G	0.514	0.46
6_T	53_R	0.514	0.46
24_A	49_E	0.508	0.46
17_D	22_V	0.506	0.45
9_L	45_D	0.505	0.45
53_R	60_D	0.500	0.44

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
3jstA	1	0.3636	5.3	0.903	Contact Map
3agdA	2	0.5253	4.3	0.907	Contact Map
2v6uA	4	0.3939	4.2	0.907	Contact Map
4wilA	4	0.3737	3.4	0.912	Contact Map
3hxaA	5	0.3737	2.7	0.916	Contact Map
2vliA	2	0.7677	2.2	0.92	Contact Map
4onlB	1	0.5152	2.1	0.92	Contact Map
3i1aA	1	0.404	2	0.921	Contact Map
1tteA	1	0.5253	2	0.922	Contact Map
1fxtA	1	0.5152	1.8	0.924	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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