Alpha-E - PFAM28P - GREMLIN Contacts

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Alpha-E - A predicted alpha-helical domain with a conserved ER motif.

PFAM:	PF04168	Sequences: MLSRVADNLFWLGRYLERAENTARLLRVNLRLLLDPAEEWRPLLAALGDLEAFAERYGEATAENVLRFLLFDPDNPSSILSCLRAARENARAVRDRLSSEMWEALNELYLELRERLRDPEFLDRVKERSALFSGLTDETMTRDEGWRFLRLGRRLERADNTARLLDVKYHLLEVGDYLQWEALLRSASAFEAYRRRYRGRITPARVADFLLLDPDFPRSLAFCLDRLEEHLAALAPRYGRGGRSSEAERLAGRLRARLRYADIDELLEGLHEFLDELQARLNALSDAISRTYF	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	293 (292)
Sequences:	13996 (9310)
Seq/√Len:	544.8
META:	0.844

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
252_G	260_Y	3.516	1.00
166_D	271_H	3.329	1.00
257_R	280_R	3.215	1.00
10_F	285_S	3.103	1.00
151_L	227_L	2.777	1.00
147_R	230_H	2.762	1.00
56_R	74_D	2.733	1.00
257_R	276_E	2.623	1.00
196_R	213_D	2.573	1.00
61_T	64_N	2.542	1.00
158_A	281_L	2.453	1.00
255_R	259_R	2.450	1.00
228_E	255_R	2.413	1.00
70_L	122_L	2.376	1.00
52_A	68_F	2.341	1.00
147_R	233_A	2.309	1.00
253_R	257_R	2.257	1.00
111_E	124_R	2.214	1.00
232_A	248_E	2.205	1.00
202_T	205_R	2.183	1.00
262_D	265_E	2.182	1.00
189_A	216_F	2.170	1.00
228_E	232_A	2.147	1.00
101_M	136_T	2.077	1.00
45_A	50_L	2.069	1.00
73_P	84_R	2.054	1.00
256_A	260_Y	2.042	1.00
162_A	220_L	2.036	1.00
214_P	225_D	1.951	1.00
101_M	132_F	1.916	1.00
221_A	225_D	1.910	1.00
211_L	220_L	1.906	1.00
276_E	280_R	1.892	1.00
252_G	256_A	1.838	1.00
197_Y	208_D	1.833	1.00
250_L	287_A	1.813	1.00
193_Y	205_R	1.800	1.00
180_W	206_V	1.781	1.00
13_G	149_L	1.778	1.00
54_A	60_A	1.754	1.00
143_D	195_R	1.753	1.00
154_R	223_C	1.727	1.00
207_A	211_L	1.688	1.00
225_D	255_R	1.657	1.00
141_T	192_A	1.654	1.00
68_F	72_D	1.653	1.00
226_R	229_E	1.605	1.00
90_A	97_L	1.584	1.00
154_R	226_R	1.584	1.00
212_L	266_L	1.583	1.00
27_R	126_K	1.570	1.00
286_D	290_R	1.553	1.00
41_R	45_A	1.550	1.00
283_A	286_D	1.536	1.00
204_A	264_D	1.532	1.00
192_A	209_F	1.532	1.00
98_S	139_T	1.520	1.00
221_A	259_R	1.520	1.00
250_L	283_A	1.517	1.00
271_H	275_D	1.515	1.00
162_A	278_Q	1.507	1.00
90_A	105_L	1.501	1.00
247_A	291_T	1.494	1.00
287_A	290_R	1.480	1.00
251_A	284_L	1.458	1.00
220_L	277_L	1.457	1.00
48_G	53_F	1.436	1.00
50_L	54_A	1.435	1.00
251_A	255_R	1.416	1.00
16_L	132_F	1.412	1.00
150_R	230_H	1.400	1.00
84_R	88_E	1.394	1.00
207_A	263_I	1.390	1.00
187_A	210_L	1.386	1.00
136_T	149_L	1.375	1.00
245_S	248_E	1.358	1.00
17_E	157_R	1.353	1.00
70_L	79_I	1.349	1.00
53_F	60_A	1.339	1.00
228_E	251_A	1.335	1.00
253_R	280_R	1.332	1.00
150_R	154_R	1.331	1.00
224_L	255_R	1.328	1.00
227_L	251_A	1.327	1.00
124_R	128_R	1.315	1.00
52_A	56_R	1.310	1.00
229_E	233_A	1.308	1.00
161_T	187_A	1.308	1.00
224_L	254_L	1.306	1.00
9_L	149_L	1.303	1.00
166_D	275_D	1.297	1.00
249_R	260_Y	1.296	1.00
201_I	206_V	1.289	1.00
254_L	284_L	1.284	1.00
56_R	72_D	1.279	1.00
57_Y	64_N	1.270	1.00
21_N	160_N	1.270	1.00
108_L	128_R	1.260	1.00
269_G	272_E	1.257	1.00
7_D	293_F	1.242	1.00
12_L	90_A	1.241	1.00
107_E	127_E	1.229	1.00
249_R	252_G	1.229	1.00
287_A	291_T	1.228	1.00
41_R	54_A	1.228	1.00
214_P	221_A	1.228	1.00
123_D	127_E	1.223	1.00
16_L	129_S	1.217	1.00
85_A	88_E	1.207	1.00
263_I	267_L	1.207	1.00
161_T	220_L	1.202	1.00
162_A	277_L	1.201	1.00
166_D	278_Q	1.195	1.00
280_R	283_A	1.195	1.00
48_G	51_E	1.195	1.00
12_L	97_L	1.185	1.00
228_E	248_E	1.176	1.00
41_R	50_L	1.176	1.00
163_R	278_Q	1.167	1.00
224_L	281_L	1.165	1.00
193_Y	201_I	1.162	1.00
283_A	287_A	1.159	1.00
83_L	112_L	1.159	1.00
154_R	222_F	1.155	1.00
158_A	220_L	1.152	1.00
73_P	80_L	1.125	1.00
78_S	81_S	1.120	1.00
52_A	55_E	1.119	1.00
150_R	226_R	1.116	1.00
83_L	108_L	1.112	1.00
9_L	145_G	1.111	1.00
151_L	288_I	1.110	1.00
246_E	250_L	1.105	1.00
197_Y	205_R	1.096	1.00
68_F	75_N	1.082	1.00
107_E	111_E	1.079	1.00
84_R	113_R	1.074	1.00
80_L	112_L	1.071	1.00
97_L	101_M	1.069	1.00
54_A	58_G	1.067	1.00
250_L	284_L	1.065	1.00
161_T	218_R	1.064	1.00
162_A	274_L	1.055	1.00
207_A	267_L	1.044	1.00
289_S	293_F	1.043	1.00
275_D	278_Q	1.041	1.00
191_E	195_R	1.039	1.00
181_E	190_F	1.038	1.00
193_Y	202_T	1.035	1.00
11_W	15_Y	1.029	1.00
168_K	179_Q	1.024	1.00
142_R	146_W	1.017	1.00
104_A	127_E	1.014	1.00
193_Y	209_F	1.012	1.00
47_L	50_L	1.006	1.00
264_D	267_L	1.003	1.00
214_P	259_R	1.002	1.00
19_A	82_C	1.001	1.00
254_L	280_R	0.993	1.00
99_S	191_E	0.993	1.00
39_E	42_P	0.988	1.00
228_E	252_G	0.988	1.00
261_A	273_F	0.987	1.00
44_L	60_A	0.984	1.00
104_A	135_L	0.979	1.00
246_E	290_R	0.979	1.00
16_L	86_A	0.978	1.00
150_R	153_R	0.975	1.00
104_A	131_L	0.975	1.00
44_L	53_F	0.971	1.00
235_A	248_E	0.969	1.00
49_D	52_A	0.968	1.00
246_E	262_D	0.962	1.00
45_A	48_G	0.961	1.00
180_W	203_P	0.956	1.00
137_D	146_W	0.955	1.00
53_F	68_F	0.954	1.00
159_D	163_R	0.946	1.00
81_S	85_A	0.944	1.00
112_L	121_F	0.938	1.00
155_L	284_L	0.934	1.00
111_E	128_R	0.933	1.00
226_R	230_H	0.927	1.00
32_L	185_R	0.927	1.00
278_Q	282_N	0.926	1.00
64_N	67_R	0.925	1.00
284_L	288_I	0.923	1.00
67_R	71_F	0.921	1.00
244_S	248_E	0.921	1.00
245_S	291_T	0.919	1.00
62_A	65_V	0.917	1.00
47_L	51_E	0.915	1.00
40_W	48_G	0.914	1.00
27_R	31_R	0.913	1.00
105_L	132_F	0.913	1.00
46_A	51_E	0.907	1.00
87_R	106_N	0.905	1.00
229_E	232_A	0.905	1.00
208_D	212_L	0.896	1.00
275_D	279_A	0.895	1.00
50_L	53_F	0.883	1.00
80_L	109_Y	0.879	1.00
40_W	51_E	0.878	1.00
11_W	14_R	0.874	1.00
247_A	250_L	0.873	1.00
225_D	228_E	0.873	1.00
44_L	49_D	0.873	1.00
80_L	113_R	0.871	1.00
26_L	70_L	0.869	1.00
158_A	223_C	0.868	1.00
63_E	67_R	0.868	1.00
250_L	280_R	0.866	1.00
169_Y	203_P	0.865	1.00
67_R	72_D	0.861	1.00
277_L	281_L	0.858	1.00
204_A	267_L	0.858	1.00
20_E	24_R	0.856	1.00
141_T	213_D	0.850	1.00
133_S	153_R	0.849	1.00
53_F	57_Y	0.849	1.00
282_N	286_D	0.848	1.00
286_D	289_S	0.848	1.00
87_R	109_Y	0.844	1.00
151_L	234_L	0.842	1.00
133_S	138_E	0.839	1.00
104_A	128_R	0.838	1.00
53_F	64_N	0.838	1.00
246_E	249_R	0.836	1.00
88_E	91_R	0.835	1.00
276_E	279_A	0.834	1.00
158_A	224_L	0.833	1.00
225_D	259_R	0.832	1.00
285_S	289_S	0.827	1.00
130_A	135_L	0.826	1.00
47_L	53_F	0.820	1.00
137_D	150_R	0.819	1.00
19_A	129_S	0.816	1.00
250_L	253_R	0.811	1.00
211_L	274_L	0.810	1.00
243_R	248_E	0.802	1.00
27_R	123_D	0.800	1.00
151_L	230_H	0.798	1.00
266_L	269_G	0.797	1.00
137_D	153_R	0.793	1.00
159_D	162_A	0.783	1.00
159_D	278_Q	0.782	1.00
44_L	51_E	0.782	1.00
125_V	129_S	0.782	1.00
8_N	89_N	0.778	1.00
261_A	265_E	0.774	1.00
123_D	126_K	0.772	1.00
59_E	64_N	0.771	1.00
168_K	172_L	0.770	1.00
159_D	282_N	0.765	1.00
261_A	266_L	0.763	1.00
164_L	186_S	0.760	1.00
98_S	101_M	0.753	1.00
205_R	208_D	0.752	1.00
104_A	132_F	0.749	1.00
58_G	61_T	0.749	1.00
129_S	133_S	0.749	1.00
170_H	271_H	0.737	1.00
235_A	245_S	0.736	1.00
208_D	213_D	0.733	1.00
165_L	274_L	0.730	1.00
263_I	266_L	0.729	1.00
20_E	218_R	0.725	1.00
157_R	218_R	0.723	1.00
230_H	233_A	0.722	1.00
8_N	92_A	0.721	1.00
38_E	41_R	0.719	1.00
37_A	41_R	0.717	1.00
197_Y	213_D	0.715	1.00
238_Y	241_G	0.714	1.00
15_Y	85_A	0.713	1.00
40_W	43_L	0.712	1.00
77_S	82_C	0.712	1.00
166_D	170_H	0.710	1.00
111_E	114_E	0.710	1.00
41_R	60_A	0.708	1.00
252_G	255_R	0.705	1.00
51_E	54_A	0.704	1.00
168_K	183_L	0.699	1.00
86_A	105_L	0.696	1.00
144_E	147_R	0.692	1.00
235_A	292_Y	0.686	1.00
29_N	32_L	0.686	1.00
70_L	121_F	0.685	1.00
65_V	75_N	0.685	1.00
42_P	50_L	0.682	1.00
120_E	124_R	0.682	1.00
227_L	284_L	0.681	1.00
170_H	275_D	0.680	1.00
48_G	52_A	0.678	1.00
248_E	252_G	0.678	1.00
212_L	261_A	0.676	1.00
160_N	164_L	0.672	1.00
249_R	262_D	0.672	1.00
133_S	137_D	0.671	1.00
40_W	47_L	0.670	1.00
261_A	267_L	0.670	1.00
279_A	282_N	0.670	1.00
43_L	48_G	0.668	1.00
103_E	123_D	0.667	1.00
33_L	36_P	0.664	1.00
143_D	215_D	0.664	1.00
7_D	11_W	0.659	1.00
54_A	57_Y	0.658	1.00
141_T	196_R	0.655	1.00
146_W	153_R	0.655	1.00
247_A	287_A	0.653	1.00
85_A	89_N	0.652	1.00
19_A	83_L	0.647	1.00
224_L	227_L	0.644	1.00
239_G	242_G	0.644	1.00
257_R	261_A	0.642	1.00
100_E	188_S	0.642	1.00
231_L	247_A	0.639	1.00
249_R	256_A	0.638	1.00
254_L	257_R	0.629	1.00
209_F	216_F	0.629	1.00
96_R	145_G	0.628	1.00
43_L	46_A	0.627	1.00
44_L	48_G	0.626	1.00
38_E	45_A	0.623	1.00
139_T	188_S	0.622	1.00
42_P	45_A	0.619	1.00
73_P	113_R	0.618	1.00
13_G	153_R	0.616	1.00
165_L	210_L	0.614	1.00
137_D	142_R	0.609	1.00
80_L	84_R	0.607	1.00
165_L	211_L	0.605	1.00
250_L	254_L	0.604	1.00
144_E	234_L	0.604	1.00
154_R	227_L	0.603	1.00
15_Y	89_N	0.601	1.00
185_R	190_F	0.597	1.00
17_E	218_R	0.596	1.00
71_F	112_L	0.595	1.00
49_D	77_S	0.595	1.00
141_T	209_F	0.594	1.00
15_Y	18_R	0.593	1.00
65_V	68_F	0.592	1.00
268_E	276_E	0.592	1.00
185_R	188_S	0.592	1.00
90_A	98_S	0.590	1.00
164_L	187_A	0.588	1.00
75_N	81_S	0.587	1.00
257_R	273_F	0.584	0.99
232_A	252_G	0.584	0.99
39_E	48_G	0.582	0.99
224_L	258_L	0.580	0.99
43_L	50_L	0.580	0.99
22_T	25_L	0.579	0.99
44_L	52_A	0.578	0.99
127_E	131_L	0.578	0.99
12_L	132_F	0.576	0.99
257_R	260_Y	0.575	0.99
249_R	253_R	0.574	0.99
192_A	216_F	0.571	0.99
20_E	130_A	0.569	0.99
6_A	148_F	0.568	0.99
72_D	75_N	0.568	0.99
279_A	283_A	0.568	0.99
138_E	218_R	0.567	0.99
43_L	47_L	0.566	0.99
72_D	78_S	0.566	0.99
5_V	93_V	0.566	0.99
220_L	274_L	0.565	0.99
46_A	52_A	0.564	0.99
221_A	255_R	0.560	0.99
101_M	135_L	0.559	0.99
253_R	276_E	0.557	0.99
228_E	259_R	0.556	0.99
207_A	270_L	0.555	0.99
22_T	160_N	0.553	0.99
37_A	59_E	0.553	0.99
51_E	55_E	0.551	0.99
82_C	86_A	0.550	0.99
192_A	195_R	0.549	0.99
169_Y	180_W	0.549	0.99
5_V	95_D	0.548	0.99
43_L	53_F	0.548	0.99
42_P	47_L	0.548	0.99
45_A	49_D	0.545	0.99
222_F	226_R	0.544	0.99
39_E	46_A	0.544	0.99
39_E	47_L	0.543	0.99
196_R	215_D	0.543	0.99
145_G	153_R	0.541	0.99
141_T	215_D	0.541	0.99
76_P	81_S	0.540	0.99
253_R	260_Y	0.540	0.99
225_D	229_E	0.539	0.99
23_A	79_I	0.538	0.99
272_E	279_A	0.537	0.99
23_A	125_V	0.536	0.99
116_L	119_P	0.531	0.99
106_N	109_Y	0.529	0.99
214_P	219_S	0.528	0.99
282_N	285_S	0.527	0.99
158_A	277_L	0.526	0.99
49_D	53_F	0.525	0.99
231_L	251_A	0.525	0.99
53_F	61_T	0.524	0.99
101_M	140_M	0.524	0.99
251_A	256_A	0.523	0.99
55_E	58_G	0.522	0.99
142_R	150_R	0.522	0.99
89_N	93_V	0.520	0.99
94_R	102_W	0.520	0.99
147_R	215_D	0.520	0.99
250_L	255_R	0.518	0.99
260_Y	264_D	0.518	0.99
20_E	188_S	0.518	0.99
132_F	136_T	0.517	0.99
168_K	171_L	0.515	0.99
7_D	289_S	0.515	0.99
266_L	273_F	0.515	0.99
244_S	252_G	0.515	0.99
159_D	281_L	0.515	0.99
203_P	207_A	0.514	0.99
133_S	154_R	0.513	0.99
107_E	128_R	0.512	0.99
17_E	153_R	0.508	0.99
259_R	262_D	0.505	0.99
12_L	149_L	0.505	0.99
112_L	125_V	0.505	0.99
95_D	98_S	0.504	0.99
247_A	251_A	0.504	0.99
161_T	210_L	0.503	0.99
180_W	193_Y	0.503	0.99
263_I	269_G	0.503	0.99
245_S	260_Y	0.503	0.99
109_Y	112_L	0.502	0.98
133_S	136_T	0.502	0.98
192_A	196_R	0.500	0.98

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
4ab7A	3	0.1809	14.8	0.961	Contact Map
2qx5A	1	0.471	7.2	0.966	Contact Map
1sumB	2	0.1741	6.8	0.966	Contact Map
1iapA	1	0.3276	5.8	0.967	Contact Map
1x3aA	1	0.116	5.6	0.968	Contact Map
1v9vA	1	0.2048	3.1	0.971	Contact Map
2dc3A	2	0.4334	2.7	0.972	Contact Map
4nboA	1	0.256	2.7	0.972	Contact Map
3sk3A	2	0.2048	2.6	0.973	Contact Map
1dvpA	2	0.4334	2.6	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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