DUF3847 - PFAM28P - GREMLIN Contacts

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DUF3847 - Protein of unknown function (DUF3847)

PFAM:	PF12958	Sequences: TLEKLEEEIEKAEEKIEQLENRLKRLENRQKELEKGERKARTHRLIERGAILESLLPETITLTDEQFKAFLEKTFATPEAREIL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	84 (76)
Sequences:	1215 (836)
Seq/√Len:	95.9
META:	0.902

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
46_I	50_A	2.985	1.00
19_L	23_L	2.790	1.00
49_G	52_L	2.415	1.00
52_L	67_F	2.410	1.00
42_T	46_I	2.245	1.00
54_S	68_K	2.233	1.00
47_E	64_D	2.135	1.00
20_E	23_L	2.039	1.00
18_Q	21_N	2.010	1.00
33_L	40_A	1.924	1.00
51_I	68_K	1.816	1.00
21_N	24_K	1.741	1.00
79_E	82_E	1.733	1.00
43_H	47_E	1.717	1.00
44_R	53_E	1.634	1.00
68_K	72_E	1.626	1.00
41_R	45_L	1.550	1.00
48_R	64_D	1.513	1.00
14_E	17_E	1.512	1.00
63_T	66_Q	1.502	1.00
77_T	80_A	1.451	1.00
22_R	25_R	1.447	1.00
51_I	55_L	1.317	0.99
47_E	51_I	1.279	0.99
13_E	16_I	1.267	0.99
27_E	31_K	1.250	0.99
48_R	67_F	1.221	0.98
58_E	61_T	1.198	0.98
52_L	71_L	1.171	0.98
25_R	29_R	1.143	0.98
51_I	64_D	1.129	0.97
14_E	18_Q	1.114	0.97
5_L	9_I	1.105	0.97
42_T	45_L	1.079	0.97
27_E	30_Q	1.065	0.96
59_T	62_L	1.045	0.96
70_F	74_T	1.044	0.96
15_K	19_L	1.040	0.96
12_A	15_K	1.026	0.96
39_K	42_T	1.015	0.95
16_I	23_L	1.002	0.95
74_T	80_A	0.995	0.95
57_P	60_I	0.982	0.94
43_H	49_G	0.935	0.93
12_A	16_I	0.915	0.92
19_L	22_R	0.913	0.92
23_L	27_E	0.906	0.92
15_K	23_L	0.873	0.90
11_K	15_K	0.858	0.89
32_E	39_K	0.853	0.89
17_E	21_N	0.852	0.89
30_Q	34_E	0.846	0.89
55_L	72_E	0.819	0.87
6_E	9_I	0.811	0.86
26_L	30_Q	0.805	0.86
78_P	82_E	0.802	0.86
74_T	79_E	0.802	0.86
62_L	67_F	0.801	0.86
46_I	49_G	0.796	0.85
16_I	19_L	0.795	0.85
45_L	60_I	0.790	0.85
10_E	13_E	0.772	0.84
67_F	71_L	0.764	0.83
34_E	38_R	0.758	0.82
72_E	76_A	0.757	0.82
52_L	59_T	0.754	0.82
80_A	83_I	0.753	0.82
15_K	22_R	0.741	0.81
28_N	31_K	0.736	0.81
23_L	31_K	0.714	0.78
79_E	83_I	0.709	0.78
9_I	13_E	0.705	0.78
20_E	24_K	0.704	0.78
24_K	28_N	0.698	0.77
12_A	19_L	0.694	0.76
75_F	80_A	0.680	0.75
18_Q	34_E	0.675	0.75
73_K	76_A	0.670	0.74
11_K	14_E	0.663	0.73
56_L	59_T	0.661	0.73
15_K	18_Q	0.661	0.73
55_L	68_K	0.649	0.72
18_Q	22_R	0.647	0.71
15_K	27_E	0.647	0.71
48_R	53_E	0.626	0.69
49_G	75_F	0.619	0.68
44_R	48_R	0.608	0.67
27_E	34_E	0.601	0.66
76_A	80_A	0.600	0.66
74_T	77_T	0.600	0.66
78_P	81_R	0.597	0.65
58_E	62_L	0.594	0.65
46_I	51_I	0.591	0.64
11_K	19_L	0.587	0.64
68_K	71_L	0.576	0.62
25_R	28_N	0.575	0.62
55_L	75_F	0.557	0.60
12_A	23_L	0.556	0.60
43_H	46_I	0.553	0.59
64_D	68_K	0.541	0.58
41_R	50_A	0.541	0.58
28_N	33_L	0.535	0.57
8_E	11_K	0.534	0.57
16_I	20_E	0.533	0.57
13_E	20_E	0.530	0.56
69_A	73_K	0.530	0.56
5_L	12_A	0.529	0.56
73_K	83_I	0.525	0.55
49_G	59_T	0.520	0.55
17_E	20_E	0.519	0.55
26_L	29_R	0.514	0.54
10_E	14_E	0.509	0.53
56_L	75_F	0.505	0.53
48_R	51_I	0.500	0.52

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
4q4gX	1	0	46.7	0.853	Contact Map
1vw1A	5	0.9405	38.1	0.861	Contact Map
4aniA	2	0.9405	37	0.862	Contact Map
4cgkA	3	0.9524	35	0.863	Contact Map
3a6mA	2	1	19.8	0.879	Contact Map
2yxyA	1	0.8333	18.9	0.88	Contact Map
2akfA	3	0.381	16.7	0.883	Contact Map
3errA	2	1	16.1	0.884	Contact Map
3hnwA	2	0.4762	15.3	0.885	Contact Map
4rsiA	1	0	14.1	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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