DUF3387 - PFAM28P - GREMLIN Contacts

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DUF3387 - Domain of unknown function (DUF3387)

PFAM:	PF11867	Sequences: SGGKGDPAIDQEEAVAVLLEKLEVVRDLFHGFDYSKFFKTGTPFERLALLPAAVEHILGLEDGKKRFLDLVRALSKAFALCVPHPEALEIRDEVAFFQAVRAALRKLTPTDRGKTPDIEEIEAAIRQLVDEAIVSEGVIDIFAAAGLKKPDISILSDEFLAEVKKMKHKNLAVELLKKLLNDEIKARLRKNPVQSRKFSERLEEIIERYNNRAITTAEVIEELIKLAKELREEEKRGEELGLSEEELAFYDALAKNDSAVDVLGDEKLKEIARELLETLRKNATIDWTKRESVRAKLRVLVKRLLRKYGYPPDKQEEATETVLEQAELLAKN	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	332 (325)
Sequences:	8326 (5011)
Seq/√Len:	277.9
META:	0.862

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
204_E	208_R	3.470	1.00
177_K	181_N	3.235	1.00
203_E	207_E	3.225	1.00
225_K	229_E	3.187	1.00
247_L	251_D	3.124	1.00
26_R	93_E	3.123	1.00
277_E	281_K	3.103	1.00
296_K	299_V	2.880	1.00
222_E	225_K	2.840	1.00
201_R	229_E	2.700	1.00
221_E	225_K	2.650	1.00
316_E	320_E	2.649	1.00
235_K	238_E	2.596	1.00
42_T	45_E	2.570	1.00
190_K	244_E	2.472	1.00
200_E	204_E	2.457	1.00
174_E	177_K	2.412	1.00
191_N	251_D	2.313	1.00
17_V	21_K	2.277	1.00
52_A	168_H	2.275	1.00
161_A	164_K	2.273	1.00
215_T	218_E	2.244	1.00
236_R	247_L	2.236	1.00
17_V	20_E	2.225	1.00
294_R	327_E	2.144	1.00
22_L	90_I	2.144	1.00
299_V	303_R	2.092	1.00
36_K	45_E	2.083	1.00
3_G	8_A	2.079	1.00
218_E	221_E	2.058	1.00
267_K	270_E	2.024	1.00
13_E	16_A	2.023	1.00
236_R	251_D	2.007	1.00
232_E	235_K	1.988	1.00
86_E	89_E	1.977	1.00
69_D	73_A	1.944	1.00
62_D	65_K	1.933	1.00
218_E	222_E	1.843	1.00
199_S	203_E	1.837	1.00
21_K	73_A	1.816	1.00
101_R	105_R	1.785	1.00
320_E	324_E	1.772	1.00
23_E	27_D	1.763	1.00
22_L	26_R	1.755	1.00
15_V	84_H	1.755	1.00
278_T	281_K	1.752	1.00
53_A	96_F	1.750	1.00
286_D	289_K	1.747	1.00
29_F	67_F	1.734	1.00
33_D	36_K	1.728	1.00
310_Y	318_A	1.728	1.00
96_F	100_V	1.716	1.00
60_L	63_G	1.708	1.00
274_E	307_K	1.698	1.00
208_R	222_E	1.689	1.00
225_K	228_K	1.670	1.00
54_V	103_A	1.660	1.00
278_T	300_L	1.651	1.00
257_D	261_D	1.643	1.00
204_E	207_E	1.627	1.00
55_E	170_N	1.591	1.00
151_D	154_I	1.571	1.00
311_P	314_K	1.558	1.00
310_Y	314_K	1.551	1.00
34_Y	97_F	1.549	1.00
192_P	328_L	1.539	1.00
207_E	211_N	1.504	1.00
65_K	69_D	1.499	1.00
235_K	239_E	1.496	1.00
72_R	76_K	1.457	1.00
24_V	70_L	1.453	1.00
75_S	98_Q	1.448	1.00
32_F	53_A	1.440	1.00
217_A	221_E	1.440	1.00
194_Q	233_E	1.429	1.00
5_G	8_A	1.413	1.00
315_Q	318_A	1.410	1.00
20_E	24_V	1.408	1.00
233_E	237_G	1.386	1.00
282_N	300_L	1.376	1.00
19_L	90_I	1.370	1.00
45_E	48_A	1.369	1.00
274_E	277_E	1.368	1.00
68_L	101_R	1.365	1.00
324_E	327_E	1.364	1.00
64_K	68_L	1.362	1.00
283_A	297_L	1.355	1.00
315_Q	319_T	1.345	1.00
18_L	90_I	1.344	1.00
214_I	218_E	1.336	1.00
21_K	24_V	1.329	1.00
68_L	105_R	1.319	1.00
90_I	94_V	1.317	1.00
317_E	320_E	1.307	1.00
196_R	204_E	1.300	1.00
266_E	270_E	1.297	1.00
74_L	94_V	1.296	1.00
22_L	93_E	1.296	1.00
197_K	200_E	1.294	1.00
302_K	306_R	1.294	1.00
36_K	52_A	1.294	1.00
184_I	202_L	1.293	1.00
153_S	156_S	1.292	1.00
229_E	232_E	1.284	1.00
232_E	239_E	1.282	1.00
296_K	300_L	1.277	1.00
28_L	67_F	1.268	1.00
25_V	97_F	1.261	1.00
291_E	294_R	1.261	1.00
32_F	52_A	1.260	1.00
9_I	13_E	1.259	1.00
71_V	97_F	1.259	1.00
254_A	257_D	1.255	1.00
282_N	285_I	1.249	1.00
282_N	297_L	1.237	1.00
188_L	195_S	1.235	1.00
207_E	210_N	1.222	1.00
270_E	274_E	1.215	1.00
308_Y	311_P	1.212	1.00
34_Y	37_F	1.207	1.00
18_L	22_L	1.192	1.00
314_K	318_A	1.189	1.00
21_K	70_L	1.185	1.00
254_A	261_D	1.185	1.00
34_Y	93_E	1.178	1.00
36_K	41_G	1.170	1.00
196_R	200_E	1.161	1.00
103_A	107_L	1.159	1.00
161_A	165_K	1.150	1.00
37_F	49_L	1.142	1.00
18_L	74_L	1.140	1.00
278_T	304_L	1.132	1.00
71_V	75_S	1.131	1.00
16_A	19_L	1.130	1.00
70_L	73_A	1.118	1.00
182_D	186_A	1.112	1.00
231_R	235_K	1.112	1.00
158_E	161_A	1.111	1.00
243_S	246_E	1.106	1.00
317_E	321_T	1.104	1.00
300_L	304_L	1.100	1.00
32_F	37_F	1.099	1.00
267_K	308_Y	1.096	1.00
157_D	161_A	1.095	1.00
223_L	301_V	1.095	1.00
48_A	52_A	1.090	1.00
11_Q	83_P	1.090	1.00
6_D	13_E	1.084	1.00
87_A	90_I	1.083	1.00
63_G	66_R	1.081	1.00
144_A	147_L	1.078	1.00
273_R	277_E	1.078	1.00
25_V	74_L	1.069	1.00
57_I	63_G	1.068	1.00
12_E	86_E	1.064	1.00
3_G	7_P	1.050	1.00
102_A	106_K	1.049	1.00
276_L	279_L	1.048	1.00
226_L	230_L	1.048	1.00
162_E	165_K	1.046	1.00
187_R	234_E	1.041	1.00
55_E	58_L	1.031	1.00
19_L	89_E	1.028	1.00
25_V	70_L	1.020	1.00
255_K	260_V	1.016	1.00
213_A	216_T	1.013	1.00
41_G	49_L	1.010	1.00
311_P	318_A	1.007	1.00
24_V	27_D	1.002	1.00
310_Y	313_D	0.996	1.00
157_D	228_K	0.994	1.00
29_F	53_A	0.981	1.00
26_R	35_S	0.978	1.00
59_G	63_G	0.971	1.00
15_V	18_L	0.969	1.00
140_D	145_A	0.966	1.00
298_R	302_K	0.959	1.00
270_E	273_R	0.952	1.00
201_R	205_I	0.946	1.00
12_E	16_A	0.943	1.00
227_A	231_R	0.941	1.00
233_E	236_R	0.936	1.00
104_L	108_T	0.932	1.00
78_F	94_V	0.931	1.00
104_L	107_L	0.930	1.00
205_I	226_L	0.928	1.00
10_D	13_E	0.927	1.00
72_R	101_R	0.927	1.00
260_V	263_L	0.925	1.00
311_P	315_Q	0.924	1.00
173_V	219_V	0.917	1.00
143_A	148_K	0.916	1.00
159_F	162_E	0.916	1.00
256_N	313_D	0.914	1.00
41_G	45_E	0.913	1.00
94_V	98_Q	0.910	1.00
11_Q	81_C	0.903	1.00
36_K	49_L	0.903	1.00
257_D	314_K	0.902	1.00
282_N	296_K	0.900	1.00
144_A	148_K	0.897	1.00
97_F	101_R	0.896	1.00
82_V	87_A	0.896	1.00
44_F	48_A	0.893	1.00
105_R	108_T	0.893	1.00
25_V	29_F	0.892	1.00
26_R	34_Y	0.891	1.00
64_K	174_E	0.886	1.00
6_D	9_I	0.884	1.00
256_N	259_A	0.883	1.00
270_E	308_Y	0.881	1.00
62_D	66_R	0.877	1.00
29_F	100_V	0.876	1.00
260_V	264_G	0.874	1.00
50_L	53_A	0.874	1.00
156_S	159_F	0.865	1.00
254_A	260_V	0.862	1.00
246_E	273_R	0.862	1.00
69_D	186_A	0.860	1.00
22_L	97_F	0.858	1.00
23_E	26_R	0.851	1.00
49_L	52_A	0.850	1.00
274_E	278_T	0.850	1.00
98_Q	102_A	0.848	1.00
174_E	178_K	0.838	1.00
297_L	304_L	0.837	1.00
127_Q	131_E	0.833	1.00
237_G	247_L	0.831	1.00
224_I	228_K	0.830	1.00
156_S	160_L	0.827	1.00
232_E	236_R	0.825	1.00
318_A	321_T	0.824	0.99
135_S	138_V	0.824	0.99
99_A	103_A	0.824	0.99
124_A	127_Q	0.823	0.99
268_L	272_A	0.820	0.99
127_Q	130_D	0.817	0.99
93_E	97_F	0.814	0.99
32_F	49_L	0.813	0.99
319_T	323_L	0.813	0.99
3_G	10_D	0.813	0.99
16_A	20_E	0.810	0.99
116_P	120_E	0.809	0.99
303_R	306_R	0.808	0.99
28_L	66_R	0.800	0.99
278_T	307_K	0.798	0.99
310_Y	315_Q	0.795	0.99
140_D	143_A	0.794	0.99
141_I	145_A	0.793	0.99
159_F	163_V	0.793	0.99
255_K	261_D	0.790	0.99
228_K	232_E	0.788	0.99
312_P	318_A	0.786	0.99
196_R	201_R	0.784	0.99
50_L	99_A	0.780	0.99
50_L	54_V	0.779	0.99
314_K	319_T	0.774	0.99
229_E	294_R	0.773	0.99
190_K	245_E	0.772	0.99
145_A	150_P	0.772	0.99
15_V	19_L	0.771	0.99
121_I	129_V	0.770	0.99
102_A	105_R	0.769	0.99
290_R	293_V	0.768	0.99
55_E	59_G	0.767	0.99
228_K	231_R	0.767	0.99
11_Q	82_V	0.765	0.99
18_L	87_A	0.761	0.99
124_A	129_V	0.761	0.99
29_F	32_F	0.760	0.99
264_G	267_K	0.759	0.99
142_F	145_A	0.758	0.99
196_R	324_E	0.757	0.99
109_P	113_G	0.756	0.99
301_V	323_L	0.755	0.99
308_Y	312_P	0.751	0.99
183_E	186_A	0.750	0.99
29_F	34_Y	0.749	0.99
19_L	86_E	0.747	0.99
11_Q	84_H	0.745	0.99
51_P	54_V	0.743	0.99
123_A	126_R	0.742	0.99
68_L	72_R	0.737	0.99
297_L	301_V	0.737	0.99
15_V	86_E	0.736	0.99
214_I	217_A	0.734	0.99
145_A	149_K	0.734	0.99
264_G	268_L	0.732	0.99
11_Q	14_A	0.732	0.99
257_D	260_V	0.732	0.99
271_I	304_L	0.731	0.99
34_Y	38_F	0.729	0.99
300_L	303_R	0.727	0.99
95_A	99_A	0.726	0.99
157_D	160_L	0.724	0.99
123_A	127_Q	0.723	0.99
17_V	77_A	0.723	0.99
100_V	104_L	0.720	0.99
21_K	25_V	0.720	0.99
221_E	224_I	0.718	0.99
24_V	28_L	0.718	0.99
22_L	29_F	0.717	0.99
29_F	97_F	0.717	0.99
214_I	219_V	0.714	0.99
309_G	314_K	0.712	0.99
193_V	321_T	0.711	0.99
24_V	30_H	0.711	0.99
64_K	108_T	0.708	0.98
8_A	11_Q	0.708	0.98
54_V	107_L	0.708	0.98
234_E	244_E	0.707	0.98
267_K	309_G	0.705	0.98
71_V	101_R	0.704	0.98
141_I	144_A	0.702	0.98
321_T	324_E	0.702	0.98
55_E	171_L	0.701	0.98
48_A	51_P	0.696	0.98
51_P	103_A	0.696	0.98
269_K	273_R	0.695	0.98
71_V	98_Q	0.693	0.98
18_L	94_V	0.693	0.98
324_E	328_L	0.693	0.98
83_P	88_L	0.691	0.98
117_D	120_E	0.690	0.98
55_E	168_H	0.689	0.98
201_R	204_E	0.687	0.98
259_A	262_V	0.687	0.98
299_V	302_K	0.687	0.98
283_A	330_A	0.685	0.98
4_K	8_A	0.684	0.98
233_E	238_E	0.682	0.98
271_I	274_E	0.681	0.98
318_A	322_V	0.680	0.98
293_V	297_L	0.679	0.98
316_E	319_T	0.679	0.98
214_I	222_E	0.677	0.98
19_L	26_R	0.676	0.98
224_I	227_A	0.675	0.98
36_K	40_T	0.674	0.98
278_T	282_N	0.671	0.98
187_R	195_S	0.670	0.98
46_R	50_L	0.667	0.98
153_S	157_D	0.664	0.98
219_V	222_E	0.663	0.98
67_F	97_F	0.661	0.98
29_F	57_I	0.661	0.98
310_Y	319_T	0.658	0.98
280_R	285_I	0.657	0.98
147_L	150_P	0.654	0.97
133_I	206_I	0.654	0.97
272_A	282_N	0.653	0.97
236_R	239_E	0.653	0.97
38_F	49_L	0.653	0.97
294_R	298_R	0.652	0.97
32_F	35_S	0.652	0.97
101_R	104_L	0.650	0.97
166_M	172_A	0.650	0.97
4_K	7_P	0.649	0.97
113_G	116_P	0.647	0.97
47_L	50_L	0.645	0.97
61_E	64_K	0.643	0.97
24_V	66_R	0.643	0.97
205_I	219_V	0.636	0.97
311_P	319_T	0.632	0.97
103_A	106_K	0.631	0.97
309_G	318_A	0.630	0.97
194_Q	236_R	0.630	0.97
73_A	76_K	0.628	0.97
244_E	247_L	0.628	0.97
271_I	278_T	0.627	0.97
312_P	315_Q	0.625	0.97
279_L	283_A	0.625	0.97
291_E	298_R	0.625	0.97
290_R	297_L	0.623	0.97
314_K	317_E	0.622	0.97
200_E	203_E	0.622	0.97
99_A	102_A	0.622	0.97
255_K	321_T	0.620	0.97
3_G	6_D	0.619	0.96
61_E	65_K	0.619	0.96
295_A	298_R	0.618	0.96
275_L	304_L	0.618	0.96
256_N	260_V	0.616	0.96
69_D	72_R	0.616	0.96
53_A	100_V	0.616	0.96
57_I	60_L	0.615	0.96
217_A	220_I	0.615	0.96
41_G	46_R	0.613	0.96
3_G	9_I	0.613	0.96
250_Y	254_A	0.613	0.96
88_L	91_R	0.609	0.96
47_L	51_P	0.609	0.96
18_L	25_V	0.607	0.96
183_E	187_R	0.605	0.96
68_L	104_L	0.605	0.96
44_F	47_L	0.602	0.96
299_V	306_R	0.601	0.96
283_A	288_T	0.601	0.96
192_P	321_T	0.601	0.96
276_L	280_R	0.600	0.96
98_Q	101_R	0.599	0.96
96_F	99_A	0.596	0.96
242_L	246_E	0.596	0.96
48_A	167_K	0.593	0.96
146_G	149_K	0.591	0.95
90_I	93_E	0.587	0.95
312_P	316_E	0.587	0.95
308_Y	313_D	0.586	0.95
163_V	166_M	0.585	0.95
35_S	38_F	0.584	0.95
142_F	146_G	0.584	0.95
122_E	125_I	0.581	0.95
277_E	280_R	0.581	0.95
254_A	317_E	0.580	0.95
157_D	231_R	0.579	0.95
191_N	233_E	0.578	0.95
262_V	265_D	0.577	0.95
280_R	284_T	0.577	0.95
285_I	290_R	0.575	0.95
178_K	182_D	0.574	0.95
315_Q	323_L	0.573	0.95
309_G	315_Q	0.571	0.95
54_V	104_L	0.569	0.94
321_T	328_L	0.568	0.94
70_L	125_I	0.568	0.94
297_L	330_A	0.564	0.94
234_E	247_L	0.561	0.94
272_A	279_L	0.561	0.94
269_K	279_L	0.559	0.94
164_K	224_I	0.559	0.94
187_R	233_E	0.558	0.94
266_E	269_K	0.558	0.94
318_A	325_Q	0.558	0.94
140_D	146_G	0.557	0.94
66_R	70_L	0.555	0.94
208_R	211_N	0.552	0.93
31_G	34_Y	0.550	0.93
81_C	84_H	0.549	0.93
28_L	60_L	0.549	0.93
306_R	315_Q	0.547	0.93
95_A	98_Q	0.546	0.93
234_E	237_G	0.545	0.93
297_L	300_L	0.544	0.93
75_S	79_A	0.543	0.93
32_F	36_K	0.542	0.93
19_L	23_E	0.542	0.93
276_L	329_L	0.541	0.93
258_S	313_D	0.540	0.93
308_Y	315_Q	0.539	0.93
278_T	283_A	0.535	0.92
320_E	327_E	0.535	0.92
25_V	28_L	0.534	0.92
130_D	135_S	0.528	0.92
21_K	28_L	0.528	0.92
216_T	220_I	0.528	0.92
258_S	261_D	0.527	0.92
183_E	234_E	0.526	0.92
173_V	214_I	0.526	0.92
52_A	167_K	0.523	0.92
267_K	274_E	0.522	0.91
72_R	184_I	0.521	0.91
20_E	23_E	0.521	0.91
109_P	114_K	0.517	0.91
141_I	149_K	0.516	0.91
183_E	231_R	0.516	0.91
318_A	323_L	0.516	0.91
58_L	61_E	0.513	0.91
313_D	318_A	0.511	0.91
216_T	219_V	0.511	0.91
180_L	202_L	0.510	0.91
28_L	57_I	0.510	0.91
30_H	35_S	0.509	0.90
128_L	131_E	0.508	0.90
171_L	175_L	0.507	0.90
22_L	74_L	0.507	0.90
96_F	101_R	0.507	0.90
37_F	46_R	0.506	0.90
101_R	106_K	0.506	0.90
313_D	319_T	0.506	0.90
14_A	21_K	0.505	0.90
74_L	97_F	0.505	0.90
67_F	105_R	0.504	0.90
206_I	210_N	0.504	0.90
237_G	240_L	0.502	0.90
35_S	40_T	0.501	0.90
152_I	155_L	0.501	0.90
97_F	103_A	0.501	0.90
140_D	144_A	0.500	0.90

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
2w00A	1	0.3916	36.9	0.948	Contact Map
3evyA	1	0.2259	33.4	0.949	Contact Map
2cr7A	1	0.241	21.7	0.954	Contact Map
4uxvA	1	0.8404	17	0.956	Contact Map
1ug3A	1	0.5663	16.9	0.956	Contact Map
2o8pA	2	0.4307	16.7	0.956	Contact Map
1h99A	2	0.5361	12.2	0.959	Contact Map
2clyA	1	0.3133	10	0.96	Contact Map
4uosA	1	0.4488	9.6	0.961	Contact Map
2w9yA	1	0.3855	8.8	0.961	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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