Spore_YabQ - PFAM28P - GREMLIN Contacts

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Spore_YabQ - Spore cortex protein YabQ (Spore_YabQ)

PFAM:	PF09578	Sequences: LASILLGILLGLLYDLYRILRRLFRHGRILTFIEDLLFWLLAALLVFYFLLLVNDGELRFYVFLGLLLGFLLYFLLLS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	78 (76)
Sequences:	3100 (2525)
Seq/√Len:	289.6
META:	0.804

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
10_L	42_A	3.616	1.00
46_V	66_L	3.585	1.00
15_D	73_Y	3.211	1.00
26_H	34_E	2.733	1.00
15_D	18_R	2.169	1.00
71_L	75_L	2.163	1.00
6_L	45_L	2.123	1.00
50_L	62_V	1.954	1.00
21_R	31_T	1.945	1.00
54_N	62_V	1.854	1.00
35_D	59_R	1.724	1.00
31_T	34_E	1.684	1.00
39_W	43_A	1.641	1.00
6_L	49_F	1.622	1.00
50_L	54_N	1.596	1.00
11_G	73_Y	1.542	1.00
17_Y	35_D	1.525	1.00
4_I	65_G	1.417	1.00
70_F	74_F	1.393	1.00
13_L	42_A	1.382	1.00
13_L	41_L	1.336	1.00
18_R	21_R	1.329	1.00
11_G	74_F	1.267	1.00
14_Y	17_Y	1.252	1.00
47_F	51_L	1.195	1.00
3_S	49_F	1.193	1.00
20_L	26_H	1.186	1.00
21_R	35_D	1.158	1.00
65_G	69_G	1.134	1.00
6_L	53_V	1.126	1.00
59_R	63_F	1.124	1.00
10_L	38_F	1.122	1.00
27_G	30_L	1.119	1.00
5_L	8_I	1.096	1.00
20_L	24_F	1.094	1.00
61_Y	65_G	1.073	1.00
21_R	34_E	1.044	1.00
32_F	36_L	1.008	1.00
38_F	70_F	0.998	1.00
17_Y	34_E	0.997	1.00
29_I	32_F	0.995	1.00
3_S	65_G	0.981	1.00
63_F	67_L	0.978	1.00
48_Y	52_L	0.969	1.00
51_L	56_G	0.928	1.00
29_I	33_I	0.899	1.00
30_L	34_E	0.885	1.00
38_F	42_A	0.868	1.00
49_F	54_N	0.860	1.00
2_A	53_V	0.848	1.00
2_A	6_L	0.845	1.00
19_I	23_L	0.821	1.00
14_Y	38_F	0.819	1.00
50_L	58_L	0.803	0.99
58_L	62_V	0.793	0.99
16_L	20_L	0.792	0.99
54_N	57_E	0.789	0.99
11_G	70_F	0.772	0.99
28_R	32_F	0.762	0.99
14_Y	35_D	0.756	0.99
6_L	46_V	0.755	0.99
3_S	14_Y	0.746	0.99
27_G	31_T	0.735	0.99
40_L	44_L	0.716	0.99
39_W	50_L	0.712	0.99
58_L	63_F	0.711	0.99
24_F	27_G	0.711	0.99
47_F	56_G	0.711	0.99
28_R	41_L	0.703	0.99
28_R	31_T	0.698	0.99
60_F	64_L	0.696	0.99
13_L	17_Y	0.694	0.98
17_Y	26_H	0.693	0.98
3_S	6_L	0.687	0.98
68_L	71_L	0.683	0.98
50_L	61_Y	0.682	0.98
36_L	39_W	0.667	0.98
26_H	31_T	0.666	0.98
32_F	39_W	0.654	0.98
19_I	70_F	0.653	0.98
54_N	58_L	0.641	0.97
63_F	70_F	0.622	0.97
48_Y	51_L	0.621	0.97
3_S	62_V	0.616	0.97
45_L	49_F	0.608	0.97
71_L	74_F	0.605	0.96
53_V	60_F	0.604	0.96
43_A	47_F	0.602	0.96
4_I	68_L	0.601	0.96
17_Y	38_F	0.595	0.96
14_Y	42_A	0.588	0.96
21_R	26_H	0.587	0.96
25_R	33_I	0.579	0.95
43_A	58_L	0.570	0.95
2_A	55_D	0.567	0.95
14_Y	21_R	0.560	0.95
42_A	46_V	0.557	0.94
44_L	48_Y	0.557	0.94
11_G	15_D	0.549	0.94
8_I	72_L	0.545	0.94
10_L	16_L	0.544	0.94
6_L	66_L	0.544	0.94
33_I	36_L	0.539	0.93
9_L	13_L	0.533	0.93
47_F	50_L	0.528	0.93
8_I	75_L	0.528	0.93
59_R	65_G	0.528	0.93
50_L	66_L	0.525	0.92
57_E	65_G	0.522	0.92
3_S	66_L	0.521	0.92
12_L	32_F	0.519	0.92
12_L	73_Y	0.516	0.92
11_G	51_L	0.514	0.92
20_L	23_L	0.500	0.91

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
2y69J	1	0.3333	3.8	0.874	Contact Map
4p02B	1	0.2949	3.5	0.877	Contact Map
3ar4A	1	0.3462	3.4	0.878	Contact Map
1v54J	1	0.3462	3.3	0.878	Contact Map
4us3A	1	0.9359	3	0.881	Contact Map
2qksA	4	1	2.9	0.883	Contact Map
4xp4A	1	0.9872	2.8	0.884	Contact Map
3pjsK	4	0.9487	2.5	0.886	Contact Map
1p7bA	3	0.9487	2.5	0.887	Contact Map
3rlbA	1	0.9872	2.4	0.887	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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