DUF1620 - PFAM28P - GREMLIN Contacts

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DUF1620 - Protein of unknown function (DUF1620)

PFAM:	PF07774	Sequences: SENWFVYSYFNDKAKRYELVVVELYESSIPNDRGPLSSLPHVLSQSYIFPEPISALAVTQTRQGITSKQLLVATESGQIVGIPRRLLDPRRPVRDPTPAEKEEGLIPYDPVLPIDPKWVLTHNREVAGVRGIITSPALLESTSLVFAYGLDLFGTRVAPSKTFDVLGEDFNKVQLLLTVVALAVGVLVTRPLVRRKQLNARW	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	202 (202)
Sequences:	545 (428)
Seq/√Len:	30.1
META:	0.29

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
59_T	157_V	5.969	1.00
49_F	53_I	3.800	1.00
21_V	84_R	3.516	1.00
184_V	188_V	3.415	1.00
11_N	18_E	2.869	1.00
8_S	56_L	2.868	1.00
69_Q	81_G	2.713	1.00
67_S	160_S	2.611	1.00
22_V	42_V	2.495	0.99
49_F	84_R	2.481	0.99
8_S	17_Y	2.445	0.99
116_P	171_N	2.398	0.99
158_A	162_T	2.353	0.99
88_D	103_E	2.253	0.99
55_A	73_A	2.245	0.99
52_P	75_E	2.176	0.98
92_P	105_L	2.142	0.98
146_F	154_G	2.117	0.98
25_Y	45_Q	2.076	0.98
189_T	192_L	1.988	0.97
73_A	129_V	1.928	0.96
8_S	49_F	1.868	0.96
79_I	147_A	1.841	0.95
181_A	185_G	1.834	0.95
95_D	107_P	1.817	0.95
128_G	148_Y	1.815	0.95
20_V	46_S	1.752	0.94
91_R	108_Y	1.703	0.93
56_L	190_R	1.693	0.93
9_Y	18_E	1.658	0.92
8_S	53_I	1.637	0.91
79_I	126_V	1.613	0.91
5_F	22_V	1.606	0.91
23_E	47_Y	1.602	0.90
78_Q	121_T	1.596	0.90
6_V	87_L	1.571	0.90
49_F	80_V	1.561	0.89
56_L	71_L	1.554	0.89
91_R	105_L	1.530	0.88
177_L	181_A	1.528	0.88
71_L	81_G	1.515	0.88
72_V	132_I	1.515	0.88
178_T	182_L	1.460	0.86
82_I	200_A	1.453	0.85
90_R	108_Y	1.451	0.85
23_E	102_E	1.417	0.84
86_L	106_I	1.398	0.83
145_V	157_V	1.392	0.83
86_L	112_L	1.387	0.83
79_I	146_F	1.378	0.82
176_L	180_V	1.363	0.81
24_L	42_V	1.355	0.81
46_S	137_A	1.354	0.81
94_R	97_T	1.336	0.80
48_I	120_L	1.334	0.80
160_S	178_T	1.329	0.80
18_E	172_K	1.327	0.80
120_L	145_V	1.321	0.79
71_L	158_A	1.310	0.79
51_E	114_I	1.305	0.79
5_F	21_V	1.305	0.79
197_Q	200_A	1.293	0.78
144_L	154_G	1.285	0.77
72_V	82_I	1.283	0.77
179_V	183_A	1.276	0.77
23_E	113_P	1.272	0.77
134_T	143_S	1.246	0.75
32_D	36_L	1.237	0.75
13_K	16_R	1.236	0.75
9_Y	22_V	1.233	0.74
109_D	121_T	1.232	0.74
71_L	180_V	1.229	0.74
24_L	177_L	1.223	0.74
156_R	163_F	1.181	0.71
196_K	202_W	1.175	0.71
49_F	120_L	1.172	0.71
164_D	170_F	1.172	0.71
78_Q	83_P	1.162	0.70
90_R	103_E	1.158	0.70
54_S	77_G	1.156	0.69
24_L	54_S	1.147	0.69
27_S	34_G	1.141	0.68
15_K	27_S	1.140	0.68
179_V	182_L	1.127	0.67
24_L	39_L	1.124	0.67
21_V	134_T	1.117	0.67
129_V	147_A	1.108	0.66
70_L	168_E	1.094	0.65
176_L	179_V	1.092	0.65
23_E	174_Q	1.080	0.64
47_Y	88_D	1.056	0.62
170_F	175_L	1.050	0.62
120_L	157_V	1.046	0.62
26_E	40_P	1.038	0.61
90_R	105_L	1.027	0.60
134_T	147_A	1.008	0.59
82_I	136_P	0.994	0.58
160_S	202_W	0.994	0.58
6_V	70_L	0.993	0.58
136_P	184_V	0.992	0.57
194_R	197_Q	0.980	0.56
125_E	129_V	0.980	0.56
126_V	187_L	0.971	0.56
45_Q	112_L	0.970	0.56
167_G	178_T	0.962	0.55
5_F	24_L	0.962	0.55
172_K	193_V	0.956	0.55
88_D	160_S	0.956	0.55
88_D	147_A	0.953	0.54
46_S	158_A	0.949	0.54
58_V	201_R	0.942	0.54
97_T	100_E	0.940	0.53
19_L	87_L	0.935	0.53
13_K	18_E	0.934	0.53
70_L	86_L	0.932	0.53
115_D	172_K	0.926	0.52
24_L	184_V	0.924	0.52
1_S	4_W	0.923	0.52
107_P	168_E	0.908	0.51
16_R	174_Q	0.907	0.51
19_L	85_R	0.903	0.50
156_R	159_P	0.903	0.50
125_E	179_V	0.903	0.50
198_L	202_W	0.897	0.50
97_T	103_E	0.894	0.50
127_A	176_L	0.894	0.50
59_T	81_G	0.893	0.50
11_N	183_A	0.892	0.50
6_V	21_V	0.889	0.49
49_F	82_I	0.885	0.49
198_L	201_R	0.883	0.49
23_E	45_Q	0.882	0.49
195_R	199_N	0.880	0.49
21_V	89_P	0.876	0.48
173_V	184_V	0.875	0.48
177_L	194_R	0.872	0.48
178_T	191_P	0.871	0.48
19_L	53_I	0.870	0.48
43_L	102_E	0.866	0.47
131_G	187_L	0.862	0.47
1_S	40_P	0.858	0.47
120_L	132_I	0.841	0.45
98_P	101_K	0.836	0.45
44_S	121_T	0.826	0.44
11_N	68_K	0.824	0.44
48_I	119_V	0.821	0.44
62_R	117_K	0.819	0.44
55_A	132_I	0.802	0.42
47_Y	91_R	0.797	0.42
130_R	147_A	0.795	0.42
4_W	64_G	0.793	0.42
55_A	72_V	0.791	0.42
1_S	67_S	0.790	0.41
173_V	180_V	0.790	0.41
27_S	31_N	0.788	0.41
67_S	145_V	0.784	0.41
5_F	174_Q	0.775	0.40
66_T	153_F	0.771	0.40
21_V	58_V	0.764	0.39
125_E	137_A	0.763	0.39
7_Y	11_N	0.763	0.39
59_T	180_V	0.759	0.39
171_N	175_L	0.755	0.39
64_G	182_L	0.755	0.39
21_V	101_K	0.746	0.38
51_E	76_S	0.745	0.38
2_E	66_T	0.744	0.38
152_L	192_L	0.741	0.38
48_I	110_P	0.741	0.38
190_R	194_R	0.738	0.38
42_V	189_T	0.735	0.37
25_Y	169_D	0.734	0.37
174_Q	178_T	0.733	0.37
146_F	152_L	0.733	0.37
167_G	175_L	0.726	0.37
71_L	128_G	0.723	0.36
81_G	120_L	0.722	0.36
142_T	196_K	0.719	0.36
19_L	192_L	0.716	0.36
131_G	148_Y	0.714	0.36
174_Q	191_P	0.710	0.35
96_P	100_E	0.708	0.35
87_L	182_L	0.704	0.35
168_E	189_T	0.701	0.35
1_S	74_T	0.700	0.35
102_E	151_D	0.699	0.35
97_T	102_E	0.699	0.35
100_E	186_V	0.694	0.34
48_I	184_V	0.692	0.34
132_I	154_G	0.692	0.34
86_L	99_A	0.691	0.34
13_K	123_N	0.689	0.34
5_F	177_L	0.688	0.34
22_V	161_K	0.685	0.34
134_T	148_Y	0.674	0.33
42_V	76_S	0.672	0.33
2_E	65_I	0.672	0.33
22_V	25_Y	0.668	0.32
152_L	165_V	0.667	0.32
77_G	125_E	0.666	0.32
99_A	150_L	0.656	0.32
180_V	184_V	0.653	0.31
52_P	89_P	0.651	0.31
130_R	152_L	0.649	0.31
12_D	176_L	0.645	0.31
97_T	101_K	0.644	0.31
78_Q	175_L	0.644	0.31
62_R	102_E	0.642	0.31
92_P	126_V	0.639	0.30
13_K	52_P	0.638	0.30
7_Y	14_A	0.637	0.30
177_L	184_V	0.634	0.30
8_S	19_L	0.634	0.30
27_S	163_F	0.634	0.30
69_Q	157_V	0.632	0.30
44_S	137_A	0.631	0.30
140_E	149_G	0.631	0.30
111_V	171_N	0.629	0.30
56_L	185_G	0.625	0.30
134_T	201_R	0.621	0.29
91_R	103_E	0.620	0.29
21_V	177_L	0.620	0.29
84_R	101_K	0.619	0.29
50_P	142_T	0.618	0.29
24_L	158_A	0.617	0.29
57_A	121_T	0.616	0.29
25_Y	30_P	0.616	0.29
57_A	131_G	0.615	0.29
184_V	187_L	0.614	0.29
40_P	151_D	0.610	0.29
162_T	190_R	0.609	0.28
7_Y	53_I	0.607	0.28
70_L	196_K	0.606	0.28
12_D	75_E	0.604	0.28
51_E	55_A	0.604	0.28
94_R	100_E	0.601	0.28
29_I	52_P	0.600	0.28
14_A	17_Y	0.599	0.28
84_R	173_V	0.597	0.28
150_L	156_R	0.596	0.28
34_G	39_L	0.595	0.28
139_L	160_S	0.594	0.28
46_S	112_L	0.591	0.27
184_V	196_K	0.590	0.27
112_L	138_L	0.589	0.27
64_G	185_G	0.588	0.27
27_S	107_P	0.587	0.27
62_R	192_L	0.587	0.27
138_L	175_L	0.585	0.27
162_T	178_T	0.584	0.27
162_T	169_D	0.582	0.27
79_I	97_T	0.582	0.27
3_N	14_A	0.579	0.27
95_D	195_R	0.577	0.26
53_I	145_V	0.576	0.26
7_Y	120_L	0.573	0.26
7_Y	20_V	0.571	0.26
56_L	135_S	0.570	0.26
172_K	191_P	0.567	0.26
6_V	78_Q	0.567	0.26
82_I	106_I	0.566	0.26
19_L	70_L	0.565	0.26
113_P	168_E	0.564	0.26
110_P	142_T	0.562	0.26
68_K	155_T	0.561	0.25
101_K	130_R	0.560	0.25
83_P	121_T	0.555	0.25
107_P	112_L	0.555	0.25
20_V	165_V	0.551	0.25
76_S	82_I	0.551	0.25
166_L	171_N	0.551	0.25
21_V	174_Q	0.549	0.25
39_L	77_G	0.545	0.25
79_I	179_V	0.545	0.25
70_L	76_S	0.544	0.24
56_L	136_P	0.544	0.24
22_V	44_S	0.541	0.24
171_N	201_R	0.541	0.24
180_V	188_V	0.540	0.24
30_P	191_P	0.539	0.24
3_N	65_I	0.538	0.24
193_V	201_R	0.537	0.24
61_T	129_V	0.536	0.24
109_D	114_I	0.534	0.24
45_Q	190_R	0.533	0.24
159_P	163_F	0.533	0.24
7_Y	139_L	0.532	0.24
88_D	126_V	0.532	0.24
33_R	124_R	0.530	0.24
22_V	72_V	0.528	0.24
121_T	175_L	0.525	0.23
53_I	70_L	0.523	0.23
87_L	200_A	0.522	0.23
122_H	161_K	0.517	0.23
5_F	163_F	0.516	0.23
129_V	169_D	0.513	0.23
87_L	93_V	0.512	0.23
30_P	33_R	0.512	0.23
20_V	44_S	0.511	0.23
74_T	183_A	0.509	0.22
75_E	157_V	0.505	0.22
95_D	100_E	0.503	0.22
24_L	38_S	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
2mofA	1	0.1881	3.1	0.97	Contact Map
1eo6A	2	0.2277	3.1	0.97	Contact Map
4jcwA	2	0.3911	2.9	0.97	Contact Map
4eoyA	1	0.2178	2.8	0.971	Contact Map
2oajA	1	0.3564	2.7	0.971	Contact Map
2zjdA	1	0.2327	2.5	0.972	Contact Map
3h9dA	2	0.2228	2.3	0.972	Contact Map
5cxdA	3	0.302	2.2	0.972	Contact Map
4hwkA	3	0.1683	2.1	0.973	Contact Map
2ls4A	1	0.1188	2	0.973	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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