DUF2501 - PFAM28P - GREMLIN Contacts

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DUF2501 - Protein of unknown function (DUF2501)

PFAM:	PF10696	Sequences: KNNYLSGTSASSVKDQLLGKLGGGSQEATSDSGYAAGAKGLLQTGDGKSLDLSGLGGLKEKVKTKACDLVLKQAKSL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	77 (74)
Sequences:	619 (395)
Seq/√Len:	45.9
META:	0.721

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
6_S	9_S	2.810	1.00
14_K	18_L	2.692	1.00
69_L	77_L	2.345	1.00
35_A	38_A	2.205	1.00
36_A	43_Q	2.088	1.00
59_K	63_K	1.736	0.98
29_T	32_S	1.713	0.98
14_K	21_L	1.708	0.98
4_Y	8_T	1.691	0.98
68_D	72_K	1.600	0.97
27_E	30_S	1.580	0.97
65_K	69_L	1.535	0.96
1_K	16_Q	1.533	0.96
6_S	33_G	1.523	0.96
23_G	63_K	1.520	0.96
68_D	71_L	1.494	0.95
43_Q	49_S	1.469	0.95
59_K	65_K	1.467	0.95
4_Y	7_G	1.440	0.94
42_L	66_A	1.389	0.93
42_L	54_G	1.386	0.93
11_S	15_D	1.386	0.93
44_T	73_Q	1.374	0.93
49_S	65_K	1.365	0.93
69_L	73_Q	1.364	0.93
2_N	5_L	1.344	0.92
16_Q	62_V	1.265	0.90
3_N	53_S	1.263	0.89
49_S	58_L	1.248	0.89
71_L	75_K	1.221	0.88
9_S	13_V	1.188	0.86
4_Y	10_A	1.169	0.85
16_Q	32_S	1.166	0.85
20_K	66_A	1.164	0.85
41_L	44_T	1.150	0.84
18_L	23_G	1.148	0.84
55_L	61_K	1.147	0.84
42_L	52_L	1.126	0.83
6_S	10_A	1.094	0.81
18_L	58_L	1.060	0.79
65_K	70_V	1.005	0.76
49_S	74_A	0.985	0.74
64_T	77_L	0.975	0.73
32_S	36_A	0.971	0.73
50_L	58_L	0.970	0.73
41_L	73_Q	0.947	0.71
68_D	74_A	0.942	0.71
66_A	69_L	0.936	0.70
1_K	30_S	0.923	0.69
46_D	60_E	0.922	0.69
28_A	32_S	0.913	0.68
22_G	77_L	0.909	0.68
13_V	68_D	0.896	0.67
54_G	61_K	0.893	0.66
34_Y	68_D	0.890	0.66
55_L	60_E	0.880	0.65
43_Q	66_A	0.862	0.64
45_G	52_L	0.853	0.63
65_K	71_L	0.848	0.62
64_T	72_K	0.827	0.60
34_Y	38_A	0.826	0.60
35_A	39_K	0.818	0.60
10_A	71_L	0.818	0.60
28_A	35_A	0.796	0.58
63_K	70_V	0.793	0.57
35_A	49_S	0.789	0.57
36_A	49_S	0.781	0.56
12_S	18_L	0.780	0.56
16_Q	65_K	0.756	0.54
50_L	61_K	0.747	0.53
35_A	77_L	0.726	0.51
41_L	51_D	0.723	0.50
23_G	38_A	0.719	0.50
3_N	75_K	0.715	0.50
24_G	34_Y	0.702	0.48
24_G	27_E	0.696	0.48
18_L	34_Y	0.692	0.47
19_G	33_G	0.679	0.46
61_K	65_K	0.662	0.44
62_V	72_K	0.659	0.44
2_N	11_S	0.648	0.43
31_D	53_S	0.641	0.42
73_Q	76_S	0.634	0.42
17_L	76_S	0.629	0.41
43_Q	46_D	0.621	0.41
15_D	75_K	0.611	0.40
5_L	17_L	0.607	0.39
1_K	61_K	0.606	0.39
17_L	59_K	0.604	0.39
42_L	58_L	0.597	0.38
30_S	56_G	0.596	0.38
50_L	56_G	0.588	0.37
36_A	39_K	0.584	0.37
42_L	50_L	0.581	0.37
48_K	52_L	0.573	0.36
21_L	73_Q	0.570	0.36
9_S	72_K	0.559	0.35
15_D	18_L	0.559	0.35
59_K	64_T	0.557	0.35
20_K	29_T	0.543	0.33
34_Y	43_Q	0.538	0.33
44_T	76_S	0.532	0.32
16_Q	35_A	0.529	0.32
69_L	72_K	0.527	0.32
58_L	74_A	0.524	0.32
34_Y	77_L	0.521	0.32
30_S	69_L	0.509	0.31
51_D	69_L	0.508	0.30
7_G	12_S	0.508	0.30
22_G	50_L	0.505	0.30
11_S	21_L	0.500	0.30

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
4rgwA	1	0.2987	4.2	0.906	Contact Map
2gezB	2	0.9481	2.5	0.916	Contact Map
1x9yA	1	0.4026	2.2	0.918	Contact Map
2kktA	1	0.2857	2.2	0.918	Contact Map
3c17A	2	0.974	2.2	0.919	Contact Map
4o0cA	2	0.974	2	0.92	Contact Map
5a0uA	2	0.9351	2	0.921	Contact Map
4u5aA	1	0.9091	1.9	0.922	Contact Map
4pv2B	2	0.9481	1.9	0.922	Contact Map
1p4kA	2	0.974	1.7	0.923	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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