DUF3821 - PFAM28P - GREMLIN Contacts

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DUF3821 - Domain of unknown function (DUF3821)

PFAM:	PF12863	Sequences: QGATVFIGEEGLDITAALGGGTTIGWWASGADITTTAPTKTITVSDPTSFYVSPSDFGGYTGNWYLLNGTGGGGVAFNVQDPSLDLKVWDATTNKDVTGKSVPRGTNLNFRIDTNLYSATQRPGVNPADGYIDIKVKTPDGATYTSLYGNNGTATSLTNLNVTTSPWYWTPGATGGGWNTGALDPNGQRLYPAGTYTVWAESNLNNMKD	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	209 (207)
Sequences:	882 (704)
Seq/√Len:	48.9
META:	0.964

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
11_G	49_S	4.169	1.00
132_I	200_A	3.942	1.00
136_V	147_L	3.810	1.00
178_W	184_D	3.301	1.00
202_S	207_M	3.221	1.00
119_A	204_L	3.164	1.00
42_I	56_D	3.102	1.00
201_E	208_K	3.041	1.00
53_S	56_D	2.854	1.00
135_K	201_E	2.681	1.00
40_K	60_Y	2.461	1.00
63_N	75_V	2.410	1.00
87_K	113_D	2.377	1.00
25_G	67_L	2.350	1.00
91_A	109_N	2.336	1.00
138_T	144_Y	2.301	1.00
24_I	27_W	2.231	1.00
31_A	36_T	2.159	1.00
50_F	57_F	2.154	1.00
30_G	33_I	2.128	1.00
58_G	61_T	2.118	1.00
66_L	76_A	2.004	1.00
46_D	49_S	1.972	0.99
5_V	52_V	1.917	0.99
57_F	79_V	1.902	0.99
69_G	72_G	1.889	0.99
32_D	36_T	1.874	0.99
137_K	143_T	1.872	0.99
14_I	17_A	1.792	0.99
6_F	118_S	1.745	0.99
149_G	155_T	1.695	0.98
51_Y	54_P	1.688	0.98
18_L	21_G	1.619	0.98
26_W	64_W	1.566	0.97
15_T	19_G	1.557	0.97
54_P	111_R	1.552	0.97
171_P	175_G	1.528	0.97
135_K	199_W	1.523	0.97
199_W	202_S	1.522	0.97
30_G	36_T	1.521	0.97
44_V	47_P	1.520	0.97
33_I	36_T	1.512	0.96
89_W	111_R	1.509	0.96
138_T	193_A	1.502	0.96
18_L	66_L	1.498	0.96
13_D	16_A	1.492	0.96
32_D	35_T	1.452	0.96
125_V	128_A	1.448	0.96
19_G	66_L	1.443	0.95
160_L	167_W	1.393	0.94
88_V	198_V	1.383	0.94
10_E	206_N	1.372	0.94
147_L	169_W	1.339	0.93
17_A	77_F	1.334	0.93
178_W	186_N	1.323	0.93
25_G	37_A	1.316	0.93
136_V	157_L	1.312	0.92
116_L	202_S	1.294	0.92
39_T	64_W	1.279	0.91
61_T	81_D	1.262	0.91
137_K	199_W	1.260	0.91
97_V	108_L	1.255	0.91
180_T	184_D	1.253	0.91
14_I	77_F	1.242	0.90
31_A	39_T	1.241	0.90
157_L	160_L	1.238	0.90
21_G	66_L	1.229	0.90
5_V	57_F	1.226	0.90
27_W	76_A	1.221	0.89
5_V	8_G	1.217	0.89
25_G	36_T	1.204	0.89
44_V	50_F	1.189	0.88
191_Y	194_G	1.178	0.88
189_R	193_A	1.173	0.87
21_G	47_P	1.166	0.87
52_V	79_V	1.164	0.87
16_A	19_G	1.154	0.87
152_G	155_T	1.140	0.86
40_K	56_D	1.137	0.86
4_T	80_Q	1.136	0.86
135_K	145_T	1.127	0.85
85_D	117_Y	1.126	0.85
149_G	152_G	1.122	0.85
178_W	183_L	1.120	0.85
143_T	146_S	1.099	0.84
160_L	169_W	1.089	0.83
190_L	193_A	1.084	0.83
199_W	203_N	1.076	0.82
151_N	155_T	1.070	0.82
6_F	14_I	1.068	0.82
9_E	12_L	1.063	0.82
104_R	189_R	1.047	0.81
175_G	179_N	1.044	0.80
147_L	180_T	1.030	0.80
24_I	77_F	1.018	0.79
198_V	202_S	1.014	0.79
179_N	182_A	1.009	0.78
27_W	30_G	1.006	0.78
25_G	30_G	1.002	0.78
80_Q	118_S	0.989	0.77
6_F	9_E	0.973	0.76
30_G	39_T	0.966	0.75
132_I	142_A	0.961	0.75
138_T	142_A	0.960	0.75
2_G	9_E	0.959	0.75
20_G	47_P	0.958	0.74
38_P	57_F	0.953	0.74
133_D	199_W	0.947	0.74
5_V	9_E	0.946	0.73
119_A	202_S	0.941	0.73
66_L	74_G	0.938	0.73
14_I	24_I	0.934	0.73
125_V	129_D	0.927	0.72
203_N	208_K	0.927	0.72
2_G	6_F	0.925	0.72
38_P	41_T	0.920	0.71
184_D	188_Q	0.917	0.71
96_D	100_K	0.917	0.71
139_P	190_L	0.909	0.70
85_D	113_D	0.899	0.70
43_T	46_D	0.897	0.69
41_T	67_L	0.897	0.69
23_T	41_T	0.893	0.69
7_I	57_F	0.891	0.69
26_W	39_T	0.890	0.69
152_G	156_S	0.888	0.69
89_W	109_N	0.883	0.68
46_D	50_F	0.881	0.68
54_P	58_G	0.880	0.68
2_G	8_G	0.876	0.68
5_V	77_F	0.876	0.68
58_G	81_D	0.870	0.67
80_Q	193_A	0.865	0.67
18_L	60_Y	0.863	0.66
148_Y	152_G	0.859	0.66
123_P	127_P	0.858	0.66
102_V	108_L	0.851	0.65
14_I	18_L	0.849	0.65
12_L	52_V	0.841	0.64
5_V	24_I	0.838	0.64
54_P	113_D	0.836	0.64
53_S	132_I	0.831	0.63
97_V	102_V	0.830	0.63
90_D	103_P	0.826	0.63
17_A	66_L	0.825	0.63
25_G	28_A	0.820	0.62
178_W	182_A	0.820	0.62
135_K	158_T	0.820	0.62
102_V	138_T	0.814	0.62
87_K	111_R	0.814	0.62
27_W	33_I	0.803	0.61
17_A	21_G	0.802	0.61
126_N	129_D	0.800	0.61
68_N	72_G	0.794	0.60
24_I	29_S	0.785	0.59
73_G	76_A	0.776	0.58
40_K	80_Q	0.774	0.58
29_S	36_T	0.765	0.57
17_A	68_N	0.763	0.57
166_P	169_W	0.761	0.57
86_L	112_I	0.760	0.57
36_T	39_T	0.758	0.56
94_N	98_T	0.757	0.56
177_G	180_T	0.749	0.55
18_L	47_P	0.748	0.55
133_D	159_N	0.748	0.55
3_A	16_A	0.748	0.55
24_I	28_A	0.743	0.55
63_N	78_N	0.741	0.55
187_G	197_T	0.736	0.54
120_T	123_P	0.735	0.54
40_K	44_V	0.735	0.54
125_V	161_N	0.734	0.54
193_A	196_Y	0.734	0.54
121_Q	127_P	0.734	0.54
57_F	77_F	0.729	0.53
35_T	38_P	0.726	0.53
107_N	150_N	0.725	0.53
68_N	74_G	0.724	0.53
189_R	192_P	0.724	0.53
88_V	168_Y	0.721	0.53
2_G	141_G	0.720	0.53
12_L	105_G	0.720	0.53
29_S	64_W	0.720	0.53
127_P	131_Y	0.720	0.53
36_T	40_K	0.717	0.52
110_F	157_L	0.713	0.52
36_T	77_F	0.710	0.52
69_G	74_G	0.704	0.51
45_S	52_V	0.702	0.51
170_T	173_A	0.698	0.50
15_T	44_V	0.694	0.50
86_L	110_F	0.692	0.50
15_T	112_I	0.692	0.50
26_W	29_S	0.691	0.50
43_T	106_T	0.688	0.49
176_G	182_A	0.687	0.49
133_D	203_N	0.687	0.49
57_F	64_W	0.686	0.49
134_I	141_G	0.686	0.49
26_W	31_A	0.681	0.49
123_P	165_S	0.679	0.48
100_K	103_P	0.679	0.48
139_P	142_A	0.679	0.48
25_G	38_P	0.675	0.48
87_K	98_T	0.675	0.48
17_A	24_I	0.673	0.48
77_F	164_T	0.672	0.48
142_A	200_A	0.670	0.48
11_G	137_K	0.669	0.47
137_K	198_V	0.669	0.47
114_T	117_Y	0.669	0.47
13_D	37_A	0.668	0.47
84_L	200_A	0.668	0.47
92_T	126_N	0.665	0.47
178_W	181_G	0.665	0.47
184_D	189_R	0.661	0.47
126_N	174_T	0.652	0.46
27_W	31_A	0.651	0.46
6_F	59_G	0.650	0.45
25_G	31_A	0.648	0.45
13_D	17_A	0.643	0.45
116_L	143_T	0.642	0.45
67_L	75_V	0.641	0.45
105_G	112_I	0.641	0.45
53_S	57_F	0.640	0.44
86_L	148_Y	0.639	0.44
2_G	5_V	0.638	0.44
71_G	74_G	0.631	0.44
92_T	95_K	0.629	0.43
21_G	74_G	0.628	0.43
3_A	119_A	0.628	0.43
155_T	170_T	0.626	0.43
177_G	181_G	0.625	0.43
179_N	184_D	0.623	0.43
41_T	45_S	0.622	0.43
165_S	168_Y	0.619	0.42
157_L	163_T	0.619	0.42
112_I	168_Y	0.619	0.42
48_T	72_G	0.618	0.42
164_T	168_Y	0.614	0.42
174_T	183_L	0.612	0.42
120_T	125_V	0.609	0.41
132_I	166_P	0.606	0.41
62_G	79_V	0.605	0.41
112_I	193_A	0.604	0.41
140_D	192_P	0.603	0.41
170_T	174_T	0.603	0.41
64_W	98_T	0.602	0.41
28_A	31_A	0.600	0.41
146_S	152_G	0.600	0.41
172_G	175_G	0.597	0.40
165_S	169_W	0.592	0.40
82_P	102_V	0.590	0.40
74_G	112_I	0.585	0.39
180_T	183_L	0.585	0.39
20_G	83_S	0.585	0.39
191_Y	205_N	0.584	0.39
89_W	93_T	0.584	0.39
14_I	27_W	0.576	0.38
84_L	116_L	0.576	0.38
33_I	42_I	0.575	0.38
164_T	176_G	0.575	0.38
108_L	138_T	0.574	0.38
54_P	62_G	0.573	0.38
185_P	188_Q	0.571	0.38
183_L	190_L	0.566	0.37
77_F	169_W	0.558	0.36
124_G	161_N	0.554	0.36
5_V	102_V	0.553	0.36
67_L	71_G	0.553	0.36
27_W	38_P	0.552	0.36
123_P	128_A	0.550	0.36
61_T	80_Q	0.550	0.36
91_A	108_L	0.550	0.36
192_P	195_T	0.549	0.36
132_I	145_T	0.547	0.35
17_A	76_A	0.545	0.35
94_N	143_T	0.544	0.35
33_I	86_L	0.544	0.35
105_G	144_Y	0.542	0.35
105_G	109_N	0.540	0.35
179_N	183_L	0.538	0.35
97_V	100_K	0.536	0.34
37_A	71_G	0.534	0.34
28_A	100_K	0.532	0.34
47_P	50_F	0.531	0.34
36_T	53_S	0.531	0.34
52_V	105_G	0.529	0.34
39_T	44_V	0.527	0.34
105_G	169_W	0.523	0.33
103_P	142_A	0.522	0.33
193_A	197_T	0.520	0.33
112_I	161_N	0.515	0.33
24_I	114_T	0.514	0.32
33_I	67_L	0.513	0.32
54_P	59_G	0.511	0.32
25_G	41_T	0.510	0.32
77_F	122_R	0.510	0.32
199_W	207_M	0.509	0.32
135_K	143_T	0.508	0.32
28_A	97_V	0.508	0.32
95_K	98_T	0.508	0.32
116_L	132_I	0.508	0.32
44_V	66_L	0.507	0.32
8_G	115_N	0.506	0.32
74_G	83_S	0.504	0.32
28_A	39_T	0.504	0.32
14_I	21_G	0.500	0.31
22_T	68_N	0.500	0.31

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
3isyA	1	0.4976	43.9	0.939	Contact Map
3osvA	2	0.4402	27.3	0.945	Contact Map
4ziqA	2	0.7129	24.1	0.947	Contact Map
3c12A	2	0.4641	20.7	0.948	Contact Map
2p9rA	1	0.4258	15.2	0.951	Contact Map
2ee9A	1	0.3732	11.7	0.954	Contact Map
3iduA	1	0.4833	11.6	0.954	Contact Map
3prxB	1	0.7464	9.6	0.956	Contact Map
4fxkA	1	0.7847	9.5	0.956	Contact Map
2d7nA	1	0.3493	9.4	0.956	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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