DUF981 - PFAM28P - GREMLIN Contacts

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DUF981 - Protein of unknown function (DUF981)

PFAM:	PF06168	Sequences: MAFIDYLTLMLIALGAGLLLLAYYLYRLLDGRGDREDLRGWAAAFGALGLILLVTGLHMTFTWPLPGSYNILFGEPSLLFGVLLLAAALALWRGWDLRPVSIFAFFAGLAAIVIGVAIINLGLTAAPLFSGLLYILTGLGGVLAPPALLKRRNNRKTLRYLAAVVLLVAGLIWLLFGAMAYWTHLA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	186 (180)
Sequences:	523 (405)
Seq/√Len:	30.2
META:	0.711

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_G	88_A	5.012	1.00
76_P	134_Y	3.974	1.00
73_F	124_T	3.428	1.00
119_I	131_G	3.225	1.00
69_Y	124_T	3.109	1.00
10_M	59_M	2.852	1.00
112_I	138_G	2.811	1.00
56_G	81_G	2.536	0.99
10_M	55_T	2.347	0.99
140_G	166_L	2.228	0.99
6_Y	58_H	2.199	0.98
175_L	179_M	2.146	0.98
59_M	74_G	2.127	0.98
168_V	172_I	2.034	0.97
176_F	180_A	1.999	0.97
63_W	70_N	1.984	0.97
132_L	136_L	1.947	0.97
24_Y	38_L	1.850	0.95
118_I	130_S	1.730	0.93
65_L	138_G	1.707	0.93
42_A	99_P	1.689	0.93
75_E	114_I	1.674	0.92
137_T	169_A	1.662	0.92
164_V	168_V	1.645	0.92
119_I	135_I	1.644	0.92
79_L	107_A	1.629	0.91
136_L	169_A	1.604	0.90
71_I	75_E	1.601	0.90
11_L	177_G	1.594	0.90
18_L	137_T	1.575	0.90
157_T	161_L	1.571	0.90
168_V	171_L	1.566	0.89
143_L	161_L	1.566	0.89
47_A	82_V	1.555	0.89
112_I	115_G	1.541	0.89
162_A	166_L	1.534	0.88
117_A	182_W	1.510	0.88
4_I	70_N	1.496	0.87
48_L	52_L	1.495	0.87
47_A	86_A	1.473	0.86
115_G	172_I	1.437	0.85
124_T	127_P	1.414	0.84
87_A	100_V	1.409	0.84
167_L	171_L	1.407	0.84
55_T	58_H	1.403	0.83
63_W	71_I	1.395	0.83
19_L	167_L	1.393	0.83
119_I	128_L	1.393	0.83
164_V	171_L	1.387	0.83
121_L	182_W	1.348	0.81
146_P	150_K	1.343	0.81
17_G	84_L	1.338	0.80
6_Y	55_T	1.335	0.80
151_R	158_L	1.318	0.79
7_L	14_L	1.307	0.79
19_L	93_R	1.294	0.78
17_G	80_F	1.285	0.77
4_I	8_T	1.282	0.77
18_L	55_T	1.270	0.77
57_L	68_S	1.264	0.76
73_F	134_Y	1.256	0.76
76_P	110_A	1.254	0.76
54_V	142_V	1.230	0.74
42_A	50_L	1.227	0.74
9_L	78_L	1.225	0.74
112_I	142_V	1.224	0.74
111_A	141_G	1.213	0.73
60_T	75_E	1.210	0.73
7_L	11_L	1.208	0.73
59_M	75_E	1.207	0.73
126_A	180_A	1.207	0.73
11_L	173_W	1.180	0.71
41_W	148_L	1.179	0.71
5_D	11_L	1.172	0.71
20_L	44_A	1.164	0.70
142_V	161_L	1.162	0.70
114_I	185_L	1.152	0.69
104_A	174_L	1.145	0.69
72_L	114_I	1.137	0.68
46_G	92_W	1.131	0.68
12_I	17_G	1.130	0.68
44_A	48_L	1.117	0.67
25_L	52_L	1.111	0.66
125_A	183_T	1.108	0.66
52_L	77_S	1.096	0.65
169_A	172_I	1.085	0.65
16_A	106_F	1.076	0.64
124_T	130_S	1.069	0.63
72_L	84_L	1.068	0.63
45_F	72_L	1.061	0.63
179_M	183_T	1.055	0.62
80_F	142_V	1.052	0.62
50_L	85_L	1.026	0.60
42_A	53_L	1.021	0.60
129_F	172_I	1.015	0.59
72_L	82_V	1.006	0.59
6_Y	62_T	0.998	0.58
47_A	100_V	0.997	0.58
166_L	180_A	0.991	0.57
98_R	102_I	0.987	0.57
55_T	71_I	0.980	0.57
163_A	167_L	0.979	0.56
177_G	180_A	0.954	0.55
85_L	112_I	0.952	0.54
22_A	163_A	0.946	0.54
15_G	19_L	0.944	0.54
164_V	175_L	0.938	0.53
130_S	134_Y	0.936	0.53
53_L	82_V	0.932	0.53
5_D	124_T	0.932	0.53
19_L	102_I	0.929	0.53
4_I	62_T	0.926	0.52
140_G	144_A	0.926	0.52
69_Y	123_L	0.918	0.52
4_I	20_L	0.914	0.51
122_G	126_A	0.894	0.50
42_A	88_A	0.891	0.49
131_G	135_I	0.891	0.49
40_G	43_A	0.887	0.49
52_L	56_G	0.883	0.49
22_A	25_L	0.878	0.48
147_A	158_L	0.876	0.48
6_Y	10_M	0.871	0.48
117_A	121_L	0.865	0.47
140_G	165_V	0.858	0.47
17_G	41_W	0.855	0.47
54_V	69_Y	0.851	0.46
88_A	92_W	0.851	0.46
19_L	182_W	0.846	0.46
104_A	107_A	0.835	0.45
36_E	93_R	0.816	0.44
37_D	174_L	0.814	0.43
58_H	61_F	0.813	0.43
11_L	180_A	0.809	0.43
70_N	81_G	0.804	0.43
122_G	134_Y	0.798	0.42
7_L	65_L	0.796	0.42
111_A	135_I	0.795	0.42
10_M	51_I	0.790	0.42
149_L	152_R	0.789	0.41
19_L	170_G	0.788	0.41
11_L	124_T	0.786	0.41
39_R	94_G	0.785	0.41
138_G	142_V	0.785	0.41
53_L	141_G	0.784	0.41
126_A	183_T	0.776	0.40
159_R	174_L	0.775	0.40
111_A	121_L	0.772	0.40
11_L	15_G	0.764	0.40
98_R	101_S	0.756	0.39
43_A	86_A	0.754	0.39
121_L	185_L	0.752	0.39
7_L	26_Y	0.743	0.38
10_M	77_S	0.742	0.38
87_A	168_V	0.740	0.38
84_L	123_L	0.740	0.38
166_L	176_F	0.739	0.38
89_L	102_I	0.733	0.37
14_L	76_P	0.729	0.37
150_K	158_L	0.724	0.37
157_T	165_V	0.722	0.36
54_V	85_L	0.721	0.36
18_L	177_G	0.719	0.36
115_G	127_P	0.716	0.36
114_I	181_Y	0.704	0.35
106_F	109_L	0.699	0.35
67_G	170_G	0.696	0.34
160_Y	172_I	0.689	0.34
23_Y	27_R	0.683	0.34
15_G	174_L	0.682	0.33
126_A	129_F	0.675	0.33
101_S	171_L	0.675	0.33
10_M	74_G	0.670	0.33
14_L	173_W	0.669	0.33
55_T	61_F	0.666	0.32
59_M	65_L	0.663	0.32
146_P	161_L	0.663	0.32
139_L	167_L	0.661	0.32
146_P	160_Y	0.659	0.32
52_L	145_P	0.657	0.32
157_T	160_Y	0.657	0.32
29_L	113_V	0.656	0.32
86_A	90_A	0.655	0.32
56_G	88_A	0.653	0.31
69_Y	126_A	0.653	0.31
24_Y	45_F	0.651	0.31
22_A	167_L	0.637	0.30
66_P	69_Y	0.637	0.30
39_R	144_A	0.637	0.30
76_P	111_A	0.636	0.30
129_F	179_M	0.634	0.30
8_T	75_E	0.627	0.30
149_L	161_L	0.626	0.30
80_F	101_S	0.626	0.30
56_G	97_L	0.622	0.29
167_L	172_I	0.620	0.29
18_L	169_A	0.617	0.29
4_I	50_L	0.617	0.29
78_L	86_A	0.616	0.29
70_N	76_P	0.616	0.29
75_E	173_W	0.610	0.29
39_R	116_V	0.610	0.29
77_S	123_L	0.609	0.29
62_T	112_I	0.609	0.29
55_T	60_T	0.602	0.28
112_I	116_V	0.602	0.28
26_Y	168_V	0.598	0.28
72_L	124_T	0.596	0.28
37_D	161_L	0.591	0.27
33_G	172_I	0.591	0.27
105_F	167_L	0.590	0.27
94_G	125_A	0.589	0.27
82_V	119_I	0.585	0.27
56_G	74_G	0.584	0.27
43_A	89_L	0.584	0.27
39_R	80_F	0.576	0.26
35_R	40_G	0.575	0.26
80_F	177_G	0.574	0.26
22_A	130_S	0.572	0.26
57_L	158_L	0.570	0.26
16_A	21_L	0.570	0.26
51_I	71_I	0.568	0.26
21_L	86_A	0.567	0.26
160_Y	164_V	0.564	0.26
85_L	91_L	0.562	0.26
136_L	148_L	0.558	0.25
8_T	13_A	0.553	0.25
54_V	93_R	0.551	0.25
67_G	118_I	0.551	0.25
7_L	180_A	0.549	0.25
168_V	178_A	0.548	0.25
103_F	121_L	0.547	0.25
35_R	142_V	0.546	0.25
27_R	88_A	0.545	0.25
45_F	91_L	0.543	0.24
110_A	181_Y	0.543	0.24
6_Y	59_M	0.542	0.24
6_Y	60_T	0.542	0.24
44_A	99_P	0.539	0.24
24_Y	137_T	0.538	0.24
11_L	103_F	0.538	0.24
173_W	177_G	0.536	0.24
15_G	64_P	0.535	0.24
145_P	162_A	0.534	0.24
118_I	124_T	0.534	0.24
83_L	101_S	0.532	0.24
4_I	121_L	0.532	0.24
23_Y	112_I	0.531	0.24
12_I	20_L	0.530	0.24
82_V	143_L	0.529	0.24
58_H	74_G	0.525	0.23
73_F	125_A	0.524	0.23
13_A	52_L	0.523	0.23
59_M	114_I	0.523	0.23
34_D	38_L	0.522	0.23
64_P	70_N	0.522	0.23
5_D	126_A	0.521	0.23
48_L	80_F	0.516	0.23
159_R	173_W	0.516	0.23
83_L	100_V	0.516	0.23
107_A	111_A	0.516	0.23
5_D	125_A	0.515	0.23
153_N	168_V	0.513	0.23
48_L	65_L	0.510	0.23
20_L	105_F	0.507	0.22
53_L	89_L	0.503	0.22
110_A	114_I	0.502	0.22
65_L	151_R	0.502	0.22
176_F	179_M	0.501	0.22
93_R	97_L	0.500	0.22

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
3ux4A	3	0.8978	57.7	0.925	Contact Map
1xioA	2	0.3065	6	0.954	Contact Map
2gfpA	2	0.8548	5.6	0.955	Contact Map
4nv5A	1	0.7742	5.2	0.956	Contact Map
2i68A	2	0.4032	3.2	0.96	Contact Map
2g2qA	3	0.2097	3.2	0.96	Contact Map
3b5dA	2	0.5376	2.8	0.961	Contact Map
2looA	1	0.5323	2	0.964	Contact Map
4he8N	1	0.3763	2	0.964	Contact Map
3wajA	1	0.8226	2	0.964	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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