DUF908 - PFAM28P - GREMLIN Contacts

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DUF908 - Domain of Unknown Function (DUF908)

PFAM:	PF06012	Sequences: DRELVLAILRFTRLLLENCTNRSLYNSSEHLNDLLNSTDLDVLLATLRLLLRLAQRYSASRRRSNSSHLHASLLANHYNILLDRLLSLAQPWGGKEEGLSSTTVNANDLVSLAPSDDSLPSEWGTVHFEYYPSSSSSSESSSVPSTPTPLRRSSSDESSSSGLKVIHIPDSDLSSESDLELLAKLVEQYDVPPELRFELLTRIRVAKAFSSGSLESRQQLLAIRLLAIANLAYVHSESDFQSKLFLYEPELINELAELLHPEDGVPLEIQTLALLALEALARYRSRLSDVLSALNAGVNHGILLSLLRKAVAD	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	313 (297)
Sequences:	515 (387)
Seq/√Len:	22.4
META:	0.217

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
37_S	43_L	6.606	1.00
12_T	25_Y	6.416	1.00
31_L	46_T	4.728	1.00
11_F	15_L	3.227	1.00
41_D	219_Q	3.174	1.00
130_Y	189_Y	2.977	1.00
185_L	191_V	2.926	0.99
7_A	10_R	2.871	0.99
140_S	159_S	2.640	0.99
217_R	221_L	2.559	0.98
177_S	180_E	2.465	0.98
225_L	258_L	2.394	0.98
275_L	288_S	2.355	0.97
178_D	203_I	2.289	0.97
257_E	308_R	2.223	0.96
112_L	209_F	2.166	0.96
150_L	154_S	2.164	0.96
6_L	42_V	2.147	0.95
178_D	207_K	2.143	0.95
25_Y	56_R	2.140	0.95
42_V	185_L	2.102	0.95
113_A	218_Q	2.082	0.94
2_R	39_D	2.042	0.94
120_P	123_W	2.022	0.94
16_L	49_L	2.008	0.93
149_P	152_R	1.995	0.93
6_L	41_D	1.988	0.93
2_R	6_L	1.964	0.92
134_S	138_S	1.881	0.91
301_G	308_R	1.852	0.90
266_P	311_V	1.843	0.90
130_Y	191_V	1.833	0.90
227_A	230_N	1.824	0.89
33_D	182_L	1.821	0.89
127_H	167_H	1.819	0.89
259_L	297_G	1.819	0.89
43_L	281_A	1.815	0.89
131_Y	162_G	1.794	0.89
147_P	151_R	1.792	0.88
217_R	224_R	1.791	0.88
146_T	151_R	1.781	0.88
228_I	251_L	1.778	0.88
168_I	236_S	1.746	0.87
292_S	306_L	1.742	0.87
250_E	290_V	1.731	0.87
300_H	308_R	1.665	0.84
290_V	301_G	1.661	0.84
225_L	233_Y	1.657	0.84
12_T	20_T	1.628	0.83
25_Y	228_I	1.620	0.83
49_L	241_Q	1.607	0.82
85_L	98_G	1.603	0.82
135_S	160_S	1.597	0.82
14_L	17_E	1.587	0.81
123_W	259_L	1.575	0.81
168_I	194_E	1.574	0.81
47_L	303_L	1.556	0.80
258_L	265_V	1.553	0.80
108_D	113_A	1.525	0.79
278_E	304_L	1.514	0.78
219_Q	223_I	1.492	0.77
19_C	54_A	1.489	0.77
113_A	221_L	1.481	0.77
136_S	141_S	1.470	0.76
295_N	302_I	1.440	0.74
15_L	22_R	1.416	0.73
13_R	28_S	1.388	0.72
22_R	56_R	1.386	0.72
299_N	305_S	1.379	0.71
134_S	140_S	1.374	0.71
126_V	206_A	1.374	0.71
6_L	45_A	1.368	0.71
11_F	14_L	1.367	0.70
88_L	256_A	1.358	0.70
12_T	27_S	1.339	0.69
53_L	294_L	1.338	0.69
182_L	200_L	1.325	0.68
16_L	46_T	1.325	0.68
154_S	159_S	1.311	0.67
27_S	31_L	1.295	0.66
278_E	295_N	1.286	0.66
291_L	296_A	1.283	0.65
93_G	99_L	1.262	0.64
98_G	112_L	1.259	0.64
88_L	274_L	1.256	0.64
294_L	307_L	1.253	0.64
166_I	199_L	1.249	0.63
136_S	142_S	1.249	0.63
297_G	300_H	1.247	0.63
166_I	173_L	1.247	0.63
115_S	154_S	1.243	0.63
300_H	307_L	1.239	0.63
144_P	148_T	1.238	0.63
28_S	53_L	1.229	0.62
27_S	301_G	1.227	0.62
59_A	62_R	1.225	0.62
116_D	269_I	1.221	0.62
295_N	298_V	1.209	0.61
16_L	225_L	1.205	0.60
15_L	56_R	1.202	0.60
138_S	141_S	1.201	0.60
295_N	304_L	1.197	0.60
57_Y	226_L	1.196	0.60
42_V	249_P	1.195	0.60
2_R	37_S	1.191	0.60
182_L	306_L	1.178	0.59
26_N	45_A	1.176	0.59
230_N	233_Y	1.176	0.59
158_S	166_I	1.173	0.58
165_V	182_L	1.163	0.58
12_T	55_Q	1.160	0.58
203_I	272_L	1.155	0.57
95_K	99_L	1.152	0.57
44_L	219_Q	1.147	0.57
157_E	212_G	1.145	0.56
171_S	174_S	1.141	0.56
295_N	301_G	1.139	0.56
130_Y	266_P	1.128	0.55
265_V	271_T	1.123	0.55
142_S	184_K	1.122	0.55
25_Y	94_G	1.122	0.55
84_R	200_L	1.119	0.55
244_L	251_L	1.118	0.55
112_L	254_E	1.117	0.55
222_A	228_I	1.112	0.54
281_A	291_L	1.109	0.54
258_L	294_L	1.108	0.54
250_E	266_P	1.095	0.53
2_R	213_S	1.092	0.53
62_R	245_F	1.091	0.53
142_S	158_S	1.090	0.53
141_S	155_S	1.079	0.52
230_N	234_V	1.076	0.52
256_A	304_L	1.070	0.51
252_I	293_A	1.064	0.51
82_L	249_P	1.062	0.51
295_N	299_N	1.055	0.50
171_S	175_S	1.051	0.50
145_S	148_T	1.046	0.50
22_R	49_L	1.040	0.49
10_R	18_N	1.037	0.49
42_V	203_I	1.035	0.49
28_S	92_W	1.033	0.49
219_Q	234_V	1.031	0.49
137_S	228_I	1.030	0.49
223_I	226_L	1.028	0.48
148_T	152_R	1.024	0.48
150_L	155_S	1.017	0.48
225_L	231_L	1.012	0.47
2_R	199_L	1.006	0.47
60_S	63_R	1.000	0.47
5_V	162_G	0.998	0.46
199_L	204_R	0.997	0.46
166_I	185_L	0.993	0.46
191_V	216_S	0.982	0.45
138_S	158_S	0.982	0.45
110_V	302_I	0.981	0.45
282_R	296_A	0.978	0.45
220_L	236_S	0.978	0.45
250_E	275_L	0.974	0.45
26_N	302_I	0.973	0.45
90_Q	93_G	0.961	0.44
143_V	158_S	0.957	0.44
218_Q	226_L	0.957	0.44
204_R	224_R	0.950	0.43
294_L	301_G	0.944	0.43
147_P	153_S	0.938	0.42
44_L	48_R	0.937	0.42
5_V	311_V	0.936	0.42
8_I	273_A	0.927	0.42
148_T	151_R	0.922	0.41
114_P	136_S	0.921	0.41
29_E	33_D	0.920	0.41
256_A	295_N	0.920	0.41
44_L	223_I	0.918	0.41
58_S	245_F	0.918	0.41
10_R	45_A	0.913	0.41
19_C	226_L	0.912	0.41
14_L	22_R	0.908	0.40
5_V	142_S	0.908	0.40
150_L	153_S	0.905	0.40
13_R	290_V	0.903	0.40
217_R	236_S	0.892	0.39
252_I	286_R	0.890	0.39
88_L	307_L	0.886	0.39
265_V	269_I	0.883	0.39
278_E	298_V	0.878	0.38
222_A	272_L	0.870	0.38
34_L	84_R	0.869	0.38
30_H	306_L	0.864	0.37
137_S	140_S	0.863	0.37
135_S	138_S	0.861	0.37
251_L	298_V	0.859	0.37
225_L	234_V	0.857	0.37
295_N	306_L	0.856	0.37
220_L	229_A	0.856	0.37
26_N	159_S	0.854	0.37
265_V	292_S	0.853	0.37
245_F	249_P	0.849	0.37
138_S	150_L	0.849	0.37
31_L	35_L	0.847	0.36
18_N	88_L	0.845	0.36
222_A	269_I	0.844	0.36
131_Y	257_E	0.844	0.36
45_A	238_S	0.841	0.36
200_L	280_L	0.841	0.36
288_S	296_A	0.841	0.36
259_L	289_D	0.840	0.36
274_L	290_V	0.839	0.36
50_L	244_L	0.834	0.36
253_N	259_L	0.830	0.35
241_Q	307_L	0.828	0.35
89_A	274_L	0.825	0.35
206_A	209_F	0.823	0.35
265_V	293_A	0.822	0.35
183_A	265_V	0.821	0.35
237_E	240_F	0.820	0.35
284_R	307_L	0.818	0.35
296_A	304_L	0.817	0.35
146_T	227_A	0.816	0.34
146_T	150_L	0.810	0.34
143_V	146_T	0.808	0.34
7_A	140_S	0.808	0.34
116_D	119_L	0.807	0.34
24_L	127_H	0.805	0.34
46_T	200_L	0.804	0.34
277_L	286_R	0.800	0.33
142_S	180_E	0.798	0.33
89_A	206_A	0.797	0.33
23_S	56_R	0.797	0.33
30_H	37_S	0.794	0.33
272_L	275_L	0.793	0.33
51_L	282_R	0.789	0.33
15_L	258_L	0.788	0.33
22_R	232_A	0.785	0.33
19_C	56_R	0.776	0.32
15_L	19_C	0.775	0.32
92_W	248_E	0.775	0.32
47_L	226_L	0.775	0.32
25_Y	197_F	0.774	0.32
130_Y	185_L	0.773	0.32
5_V	157_E	0.773	0.32
266_P	281_A	0.772	0.32
284_R	287_L	0.769	0.32
258_L	267_L	0.769	0.32
143_V	154_S	0.768	0.32
10_R	13_R	0.762	0.31
217_R	258_L	0.760	0.31
168_I	174_S	0.760	0.31
265_V	273_A	0.755	0.31
145_S	158_S	0.752	0.31
43_L	55_Q	0.750	0.30
217_R	301_G	0.750	0.30
144_P	149_P	0.748	0.30
86_L	173_L	0.744	0.30
222_A	255_L	0.744	0.30
278_E	306_L	0.743	0.30
182_L	203_I	0.743	0.30
111_S	133_S	0.741	0.30
19_C	29_E	0.741	0.30
143_V	155_S	0.740	0.30
47_L	204_R	0.740	0.30
170_D	174_S	0.738	0.30
97_E	201_T	0.732	0.29
138_S	157_E	0.732	0.29
299_N	307_L	0.731	0.29
141_S	221_L	0.729	0.29
203_I	307_L	0.729	0.29
59_A	63_R	0.727	0.29
182_L	192_P	0.727	0.29
56_R	299_N	0.726	0.29
192_P	280_L	0.724	0.29
281_A	292_S	0.724	0.29
116_D	183_A	0.722	0.29
133_S	184_K	0.719	0.29
223_I	230_N	0.719	0.29
283_Y	299_N	0.711	0.28
86_L	266_P	0.710	0.28
256_A	306_L	0.708	0.28
135_S	141_S	0.707	0.28
128_F	191_V	0.707	0.28
299_N	302_I	0.707	0.28
118_S	223_I	0.699	0.28
233_Y	279_A	0.699	0.28
41_D	284_R	0.699	0.28
34_L	223_I	0.699	0.28
23_S	28_S	0.696	0.27
261_P	298_V	0.696	0.27
155_S	158_S	0.695	0.27
281_A	304_L	0.692	0.27
200_L	250_E	0.692	0.27
137_S	157_E	0.692	0.27
204_R	225_L	0.691	0.27
274_L	286_R	0.690	0.27
18_N	52_R	0.688	0.27
33_D	142_S	0.688	0.27
50_L	254_E	0.687	0.27
45_A	98_G	0.686	0.27
27_S	126_V	0.685	0.27
141_S	159_S	0.683	0.27
291_L	307_L	0.681	0.27
53_L	60_S	0.675	0.26
109_L	209_F	0.673	0.26
298_V	308_R	0.673	0.26
302_I	310_A	0.672	0.26
144_P	151_R	0.669	0.26
218_Q	227_A	0.667	0.26
88_L	249_P	0.666	0.26
202_R	225_L	0.659	0.25
155_S	238_S	0.658	0.25
9_L	34_L	0.656	0.25
298_V	304_L	0.656	0.25
143_V	147_P	0.654	0.25
93_G	98_G	0.653	0.25
252_I	269_I	0.653	0.25
6_L	39_D	0.652	0.25
43_L	182_L	0.651	0.25
137_S	160_S	0.650	0.25
236_S	273_A	0.650	0.25
245_F	248_E	0.649	0.25
15_L	251_L	0.648	0.25
42_V	132_P	0.647	0.25
28_S	294_L	0.643	0.25
84_R	229_A	0.643	0.25
169_P	243_K	0.638	0.24
155_S	161_S	0.638	0.24
11_F	283_Y	0.638	0.24
201_T	209_F	0.637	0.24
128_F	133_S	0.637	0.24
223_I	235_H	0.635	0.24
30_H	47_L	0.635	0.24
292_S	296_A	0.635	0.24
42_V	276_A	0.635	0.24
145_S	291_L	0.633	0.24
271_T	281_A	0.632	0.24
19_C	30_H	0.631	0.24
19_C	310_A	0.631	0.24
115_S	215_E	0.627	0.24
145_S	155_S	0.627	0.24
290_V	296_A	0.622	0.24
148_T	153_S	0.621	0.24
299_N	304_L	0.620	0.23
40_L	220_L	0.619	0.23
141_S	158_S	0.617	0.23
79_N	258_L	0.617	0.23
220_L	227_A	0.616	0.23
186_V	191_V	0.615	0.23
180_E	202_R	0.614	0.23
191_V	195_L	0.613	0.23
17_E	204_R	0.611	0.23
140_S	150_L	0.610	0.23
5_V	114_P	0.609	0.23
23_S	231_L	0.607	0.23
138_S	264_G	0.605	0.23
221_L	224_R	0.605	0.23
92_W	98_G	0.605	0.23
154_S	157_E	0.603	0.23
124_G	175_S	0.603	0.23
134_S	143_V	0.602	0.23
174_S	180_E	0.601	0.23
30_H	51_L	0.598	0.22
118_S	126_V	0.598	0.22
38_T	200_L	0.595	0.22
199_L	297_G	0.595	0.22
22_R	55_Q	0.594	0.22
217_R	270_Q	0.593	0.22
63_R	168_I	0.592	0.22
163_L	245_F	0.591	0.22
199_L	280_L	0.590	0.22
181_L	309_K	0.587	0.22
18_N	186_V	0.586	0.22
155_S	159_S	0.586	0.22
36_N	266_P	0.583	0.22
92_W	112_L	0.580	0.22
136_S	263_D	0.578	0.21
37_S	200_L	0.574	0.21
94_G	261_P	0.574	0.21
239_D	306_L	0.573	0.21
113_A	311_V	0.572	0.21
115_S	266_P	0.570	0.21
8_I	215_E	0.567	0.21
140_S	158_S	0.567	0.21
38_T	173_L	0.566	0.21
304_L	310_A	0.565	0.21
222_A	234_V	0.565	0.21
42_V	160_S	0.563	0.21
163_L	259_L	0.562	0.21
42_V	238_S	0.558	0.21
89_A	273_A	0.558	0.21
3_E	173_L	0.553	0.20
144_P	152_R	0.552	0.20
142_S	167_H	0.551	0.20
43_L	46_T	0.550	0.20
304_L	308_R	0.549	0.20
187_E	236_S	0.549	0.20
11_F	303_L	0.549	0.20
5_V	166_I	0.549	0.20
258_L	261_P	0.548	0.20
137_S	190_D	0.546	0.20
111_S	120_P	0.545	0.20
3_E	288_S	0.544	0.20
114_P	117_D	0.543	0.20
2_R	203_I	0.543	0.20
37_S	237_E	0.541	0.20
146_T	155_S	0.541	0.20
162_G	251_L	0.540	0.20
35_L	232_A	0.540	0.20
49_L	300_H	0.540	0.20
81_L	107_N	0.539	0.20
71_A	74_L	0.537	0.20
138_S	156_D	0.536	0.20
220_L	284_R	0.535	0.20
139_E	177_S	0.531	0.19
125_T	181_L	0.531	0.19
134_S	196_R	0.530	0.19
137_S	141_S	0.530	0.19
38_T	254_E	0.528	0.19
128_F	138_S	0.527	0.19
93_G	304_L	0.527	0.19
29_E	125_T	0.526	0.19
78_Y	83_D	0.526	0.19
248_E	262_E	0.525	0.19
127_H	232_A	0.525	0.19
110_V	258_L	0.521	0.19
278_E	308_R	0.518	0.19
56_R	60_S	0.516	0.19
206_A	303_L	0.516	0.19
24_L	27_S	0.514	0.19
7_A	186_V	0.514	0.19
15_L	257_E	0.512	0.19
124_G	220_L	0.512	0.19
56_R	231_L	0.512	0.19
213_S	221_L	0.511	0.19
128_F	134_S	0.510	0.18
73_L	168_I	0.510	0.18
79_N	230_N	0.509	0.18
176_E	184_K	0.509	0.18
5_V	9_L	0.503	0.18
60_S	230_N	0.503	0.18
8_I	21_N	0.502	0.18
12_T	19_C	0.502	0.18
140_S	145_S	0.502	0.18
3_E	210_S	0.502	0.18
47_L	271_T	0.500	0.18
7_A	221_L	0.500	0.18
220_L	226_L	0.500	0.18

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
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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
4i2zA	1	0.8562	50.4	0.951	Contact Map
2z6hA	3	0.8658	42	0.954	Contact Map
4uafB	1	0.4601	34.3	0.956	Contact Map
4db6A	1	0.4313	31.6	0.957	Contact Map
2z6gA	1	0.8243	31.2	0.957	Contact Map
4ev8A	1	0.1693	25.9	0.958	Contact Map
4plqA	1	0.4441	25.6	0.958	Contact Map
4r0zA	1	0.3706	23.2	0.959	Contact Map
3ldzA	1	0.2588	22.9	0.96	Contact Map
1xm9A	1	0.2013	21.4	0.96	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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