DUF2512 - PFAM28P - GREMLIN Contacts

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DUF2512 - Protein of unknown function (DUF2512)

PFAM:	PF10710	Sequences: MKHVKALLIKFIMTLVVLYIILGLFFDVSFGDILLISLVLTVVAYLIGDLLILPRTGNTVATIADFGLAFLVIWLLGSLLTGNDVPIFTAALISALLIAVGEYFFHRYLLRNVLEEKEEERNPNPRLRYQTEFSEE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	136 (115)
Sequences:	751 (633)
Seq/√Len:	59.0
META:	0.49

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
13_M	101_G	5.304	1.00
3_H	45_Y	4.006	1.00
66_F	99_A	3.881	1.00
17_V	101_G	2.692	1.00
52_I	64_A	2.615	1.00
37_S	41_T	2.550	1.00
64_A	67_G	2.253	1.00
11_F	41_T	2.197	1.00
2_K	5_K	2.077	1.00
29_S	32_D	2.034	1.00
45_Y	58_N	2.010	1.00
66_F	95_A	1.948	1.00
23_G	33_I	1.941	1.00
73_I	94_S	1.809	0.99
23_G	26_F	1.617	0.99
52_I	61_A	1.577	0.99
42_V	46_L	1.565	0.98
18_L	73_I	1.528	0.98
18_L	94_S	1.527	0.98
49_D	58_N	1.522	0.98
92_L	95_A	1.521	0.98
58_N	61_A	1.510	0.98
41_T	101_G	1.475	0.98
9_I	12_I	1.458	0.98
49_D	61_A	1.425	0.97
22_L	73_I	1.413	0.97
70_F	88_F	1.384	0.97
70_F	95_A	1.356	0.96
65_D	102_E	1.319	0.96
90_A	94_S	1.301	0.95
87_I	91_A	1.285	0.95
89_T	93_I	1.274	0.95
88_F	92_L	1.263	0.94
39_V	76_L	1.239	0.94
91_A	99_A	1.221	0.93
107_R	111_R	1.210	0.93
96_L	100_V	1.206	0.93
92_L	96_L	1.190	0.92
50_L	54_P	1.171	0.92
11_F	38_L	1.150	0.91
9_I	105_F	1.148	0.91
42_V	64_A	1.132	0.90
21_I	94_S	1.122	0.90
19_Y	23_G	1.108	0.89
36_I	76_L	1.080	0.88
8_L	77_G	1.078	0.88
17_V	97_L	1.077	0.88
49_D	105_F	1.072	0.88
39_V	43_V	1.068	0.88
11_F	37_S	1.063	0.87
58_N	62_T	1.061	0.87
56_T	60_V	1.053	0.87
65_D	106_H	1.051	0.87
40_L	72_V	1.034	0.86
21_I	97_L	1.033	0.86
15_L	30_F	1.031	0.86
72_V	76_L	1.020	0.85
27_D	104_F	1.011	0.85
91_A	95_A	0.993	0.84
23_G	76_L	0.990	0.83
70_F	74_W	0.987	0.83
45_Y	50_L	0.966	0.82
15_L	37_S	0.959	0.81
91_A	94_S	0.959	0.81
14_T	44_A	0.951	0.81
15_L	19_Y	0.936	0.80
7_L	14_T	0.916	0.78
41_T	97_L	0.913	0.78
39_V	72_V	0.906	0.77
33_I	37_S	0.904	0.77
15_L	33_I	0.900	0.77
13_M	107_R	0.888	0.76
14_T	17_V	0.886	0.76
7_L	11_F	0.881	0.75
16_V	99_A	0.872	0.75
22_L	56_T	0.844	0.72
28_V	66_F	0.839	0.72
5_K	12_I	0.837	0.72
36_I	95_A	0.833	0.71
23_G	30_F	0.830	0.71
2_K	114_L	0.827	0.71
6_A	50_L	0.820	0.70
25_F	93_I	0.811	0.69
82_G	85_V	0.809	0.69
8_L	107_R	0.808	0.69
75_L	79_L	0.801	0.68
104_F	109_L	0.797	0.68
4_V	104_F	0.796	0.68
35_L	38_L	0.796	0.68
77_G	80_L	0.796	0.68
47_I	51_L	0.792	0.67
12_I	38_L	0.791	0.67
35_L	96_L	0.787	0.67
4_V	8_L	0.785	0.67
48_G	61_A	0.773	0.66
19_Y	33_I	0.754	0.64
43_V	72_V	0.753	0.63
23_G	27_D	0.750	0.63
6_A	113_V	0.749	0.63
49_D	57_G	0.743	0.62
105_F	109_L	0.743	0.62
62_T	99_A	0.740	0.62
44_A	65_D	0.738	0.62
46_L	76_L	0.735	0.62
66_F	73_I	0.732	0.61
44_A	99_A	0.728	0.61
16_V	36_I	0.725	0.61
19_Y	30_F	0.717	0.60
80_L	109_L	0.701	0.58
41_T	44_A	0.700	0.58
7_L	42_V	0.679	0.56
109_L	115_E	0.678	0.55
19_Y	38_L	0.674	0.55
61_A	65_D	0.666	0.54
27_D	30_F	0.664	0.54
74_W	78_S	0.661	0.54
41_T	98_I	0.659	0.53
9_I	25_F	0.657	0.53
20_I	104_F	0.650	0.52
110_L	114_L	0.649	0.52
15_L	34_L	0.647	0.52
33_I	103_Y	0.646	0.52
69_A	99_A	0.637	0.51
6_A	82_G	0.635	0.51
22_L	40_L	0.628	0.50
7_L	38_L	0.627	0.50
31_G	46_L	0.624	0.49
63_I	70_F	0.622	0.49
45_Y	49_D	0.621	0.49
46_L	114_L	0.616	0.49
18_L	40_L	0.615	0.48
28_V	83_N	0.615	0.48
76_L	86_P	0.612	0.48
66_F	91_A	0.611	0.48
5_K	8_L	0.609	0.48
51_L	64_A	0.607	0.48
26_F	90_A	0.605	0.47
48_G	58_N	0.605	0.47
22_L	53_L	0.604	0.47
40_L	73_I	0.600	0.47
48_G	62_T	0.598	0.47
90_A	98_I	0.597	0.46
30_F	33_I	0.583	0.45
74_W	102_E	0.582	0.45
36_I	87_I	0.582	0.45
43_V	47_I	0.576	0.44
58_N	65_D	0.575	0.44
9_I	42_V	0.574	0.44
59_T	103_Y	0.572	0.44
20_I	24_L	0.571	0.44
103_Y	107_R	0.568	0.43
44_A	66_F	0.567	0.43
52_I	90_A	0.566	0.43
57_G	110_L	0.557	0.42
29_S	95_A	0.557	0.42
109_L	113_V	0.557	0.42
53_L	110_L	0.556	0.42
34_L	75_L	0.553	0.42
2_K	27_D	0.551	0.41
10_K	102_E	0.549	0.41
30_F	111_R	0.548	0.41
22_L	45_Y	0.545	0.41
32_D	77_G	0.544	0.41
10_K	106_H	0.543	0.41
27_D	52_I	0.536	0.40
35_L	70_F	0.533	0.39
100_V	104_F	0.531	0.39
15_L	49_D	0.526	0.39
2_K	60_V	0.512	0.37
73_I	98_I	0.508	0.37
36_I	73_I	0.507	0.37
13_M	97_L	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
1ldfA	3	0.7426	38.8	0.905	Contact Map
1ciiA	1	0.4191	11.3	0.927	Contact Map
4aw6A	2	0.4485	10.2	0.928	Contact Map
1lnqA	6	0.6691	9.7	0.929	Contact Map
2i88A	1	0.4412	6.6	0.934	Contact Map
1j4nA	4	0.7794	6.2	0.935	Contact Map
4il3A	1	0.3603	5.8	0.935	Contact Map
3c02A	3	0.7647	5.2	0.937	Contact Map
2b6oA	6	0.8088	4.6	0.939	Contact Map
3d9sA	3	0.8088	4.5	0.939	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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