DUF4470 - PFAM28P - GREMLIN Contacts

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DUF4470 - Domain of unknown function (DUF4470)

PFAM:	PF14737	Sequences: PWGNTPALDLLQLLPPEEDLNILLLGSGDLRHVLKTLASLPSDYSRKLHFTLNDIEPEVLARNLLLLTLLLDLPDSLGLREAAELFLEIWYNALI	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	95 (95)
Sequences:	836 (698)
Seq/√Len:	71.6
META:	0.273

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
21_N	49_H	4.548	1.00
69_L	89_I	4.044	1.00
19_D	47_K	3.519	1.00
30_L	90_W	3.343	1.00
35_K	39_S	3.163	1.00
4_N	54_D	2.416	1.00
3_G	31_R	2.151	1.00
88_E	92_N	2.132	1.00
30_L	67_L	2.097	1.00
10_L	24_L	1.928	1.00
59_V	63_N	1.832	1.00
30_L	66_L	1.698	1.00
27_S	63_N	1.690	1.00
81_E	84_E	1.654	1.00
5_T	31_R	1.625	0.99
4_N	28_G	1.569	0.99
70_L	86_F	1.530	0.99
24_L	27_S	1.513	0.99
28_G	54_D	1.472	0.99
87_L	92_N	1.459	0.99
19_D	46_R	1.449	0.99
9_D	13_L	1.411	0.98
29_D	36_T	1.398	0.98
69_L	85_L	1.359	0.98
9_D	40_L	1.322	0.98
60_L	63_N	1.303	0.97
10_L	36_T	1.296	0.97
11_L	43_D	1.261	0.97
43_D	89_I	1.234	0.96
26_G	59_V	1.230	0.96
24_L	50_F	1.230	0.96
7_A	36_T	1.184	0.95
14_L	18_E	1.172	0.95
25_L	53_N	1.163	0.95
27_S	60_L	1.161	0.95
4_N	59_V	1.158	0.95
19_D	88_E	1.131	0.94
23_L	38_A	1.114	0.94
78_G	81_E	1.111	0.93
51_T	54_D	1.108	0.93
67_L	83_A	1.090	0.93
72_D	84_E	1.090	0.93
24_L	66_L	1.065	0.92
8_L	45_S	1.048	0.91
7_A	68_T	1.030	0.91
34_L	37_L	0.997	0.89
69_L	77_L	0.989	0.89
6_P	9_D	0.965	0.88
42_S	66_L	0.962	0.87
1_P	67_L	0.960	0.87
82_A	88_E	0.957	0.87
25_L	66_L	0.941	0.86
2_W	5_T	0.939	0.86
64_L	67_L	0.934	0.86
28_G	31_R	0.922	0.85
87_L	91_Y	0.916	0.85
81_E	85_L	0.905	0.84
82_A	92_N	0.897	0.83
14_L	33_V	0.874	0.82
80_R	95_I	0.868	0.81
2_W	13_L	0.856	0.80
88_E	91_Y	0.839	0.79
32_H	82_A	0.839	0.79
86_F	91_Y	0.807	0.76
26_G	31_R	0.804	0.76
24_L	48_L	0.800	0.76
86_F	92_N	0.799	0.76
75_D	78_G	0.790	0.75
2_W	83_A	0.786	0.74
47_K	83_A	0.767	0.73
4_N	55_I	0.766	0.73
29_D	34_L	0.764	0.72
36_T	65_L	0.755	0.71
17_E	20_L	0.735	0.69
54_D	63_N	0.726	0.68
38_A	87_L	0.721	0.68
20_L	49_H	0.715	0.67
13_L	22_I	0.713	0.67
38_A	43_D	0.702	0.66
12_Q	85_L	0.699	0.66
12_Q	45_S	0.698	0.65
37_L	40_L	0.698	0.65
9_D	17_E	0.689	0.64
57_P	61_A	0.686	0.64
11_L	40_L	0.684	0.64
73_L	80_R	0.678	0.63
21_N	47_K	0.673	0.63
82_A	85_L	0.673	0.63
43_D	46_R	0.664	0.62
83_A	87_L	0.660	0.61
30_L	63_N	0.659	0.61
58_E	80_R	0.656	0.61
2_W	9_D	0.653	0.60
40_L	48_L	0.650	0.60
58_E	93_A	0.646	0.59
15_P	20_L	0.645	0.59
42_S	45_S	0.644	0.59
25_L	28_G	0.642	0.59
30_L	34_L	0.642	0.59
23_L	71_L	0.638	0.59
10_L	69_L	0.635	0.58
13_L	60_L	0.633	0.58
69_L	95_I	0.632	0.58
14_L	17_E	0.629	0.57
30_L	71_L	0.620	0.56
50_F	59_V	0.620	0.56
8_L	13_L	0.615	0.56
8_L	24_L	0.612	0.55
10_L	15_P	0.603	0.54
50_F	56_E	0.603	0.54
11_L	18_E	0.602	0.54
41_P	44_Y	0.594	0.53
67_L	71_L	0.592	0.53
13_L	19_D	0.590	0.53
68_T	72_D	0.590	0.53
33_V	56_E	0.589	0.53
45_S	66_L	0.580	0.51
9_D	12_Q	0.572	0.51
4_N	63_N	0.571	0.50
18_E	50_F	0.568	0.50
28_G	59_V	0.565	0.50
49_H	74_P	0.565	0.50
45_S	72_D	0.564	0.50
37_L	42_S	0.558	0.49
57_P	60_L	0.555	0.48
78_G	82_A	0.554	0.48
13_L	41_P	0.551	0.48
40_L	46_R	0.545	0.47
24_L	63_N	0.542	0.47
39_S	42_S	0.537	0.46
49_H	52_L	0.533	0.46
23_L	61_A	0.529	0.45
24_L	90_W	0.528	0.45
27_S	79_L	0.527	0.45
3_G	29_D	0.520	0.44
51_T	86_F	0.520	0.44
61_A	65_L	0.520	0.44
37_L	90_W	0.519	0.44
58_E	65_L	0.515	0.44
24_L	40_L	0.510	0.43
54_D	62_R	0.501	0.42
34_L	58_E	0.500	0.42

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
2ppvA	2	0.9579	32.4	0.88	Contact Map
2o2zA	2	0.9474	26.9	0.884	Contact Map
2q7xA	2	0.6842	26.7	0.884	Contact Map
1vptA	2	0.9158	23.9	0.887	Contact Map
3magA	2	0.9158	21.5	0.89	Contact Map
4nnjA	2	0.8947	19.6	0.891	Contact Map
2jhpA	1	0.9789	16.3	0.895	Contact Map
1y8qB	1	0.8421	15.3	0.897	Contact Map
1pc6A	2	0.8211	13.8	0.899	Contact Map
4ii2A	1	0.8947	13.3	0.9	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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