UPF0118 - PFAM28P - GREMLIN Contacts

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UPF0118 - Domain of unknown function DUF20

PFAM:	PF01594	Sequences: VLLLLLLLLLLLALLWLLRPVLLPLLLALLLAYLLNPLVRRLERRGLPRGLAALLVLLLLLLLLVLLLALLVPLLVSQAAELAENLPAYLDRLQEWLADLPELLPELGPDLEQLLDSLSDALSSLLGSLLGGLLSLLGSLGGFLLNLVLVLVLLFFLLLDGERLRRRLLRLLPRRRRERVRRLLREIDRTLGGYLRGQLLVALIQGVLTGIGLWILGVPYALLLGVLAGLLNFIPYVGPIIGAIPAALLALLTGGPTAALIVLIVFLVVQQLEGNVLRPRLMGRSVGLHPLVVLLALLGGGALFGILGLLLAVPLAAVLKVLLREYR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	327 (322)
Sequences:	99878 (76545)
Seq/√Len:	4265.7
META:	0.841

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
210_G	225_G	5.239	1.00
212_G	265_V	4.506	1.00
296_A	316_A	3.004	1.00
209_T	228_A	2.905	1.00
210_G	214_W	2.809	1.00
41_R	45_R	2.701	1.00
206_G	229_G	2.626	1.00
257_T	261_I	2.622	1.00
12_L	16_W	2.614	1.00
16_W	19_R	2.465	1.00
33_Y	188_D	2.419	1.00
270_Q	274_G	2.307	1.00
48_P	51_L	2.239	1.00
41_R	44_R	2.233	1.00
199_L	233_F	2.227	1.00
15_L	18_L	2.183	1.00
85_N	88_A	2.176	1.00
206_G	225_G	2.070	1.00
36_N	40_R	2.054	1.00
96_W	100_L	2.045	1.00
169_L	181_R	2.027	1.00
31_L	154_L	1.980	1.00
320_K	324_R	1.937	1.00
260_L	264_I	1.924	1.00
227_L	231_L	1.885	1.00
280_R	284_R	1.855	1.00
13_A	16_W	1.844	1.00
249_L	253_T	1.814	1.00
117_S	120_D	1.812	1.00
50_G	54_L	1.775	1.00
210_G	221_A	1.769	1.00
53_A	57_L	1.762	1.00
65_V	69_A	1.697	1.00
214_W	221_A	1.677	1.00
250_A	254_G	1.677	1.00
258_A	261_I	1.673	1.00
121_A	124_S	1.668	1.00
125_L	128_S	1.651	1.00
92_R	96_W	1.636	1.00
155_F	159_L	1.618	1.00
213_L	218_V	1.611	1.00
47_L	55_L	1.603	1.00
88_A	92_R	1.602	1.00
124_S	127_G	1.596	1.00
197_G	281_L	1.573	1.00
94_Q	98_A	1.567	1.00
187_I	318_V	1.558	1.00
50_G	159_L	1.549	1.00
261_I	264_I	1.546	1.00
172_L	180_V	1.514	1.00
15_L	19_R	1.509	1.00
98_A	101_P	1.495	1.00
92_R	95_E	1.485	1.00
113_Q	116_D	1.485	1.00
24_P	28_A	1.483	1.00
96_W	99_D	1.479	1.00
91_D	94_Q	1.478	1.00
301_G	309_L	1.477	1.00
81_E	85_N	1.470	1.00
206_G	210_G	1.461	1.00
267_L	271_Q	1.460	1.00
35_L	158_L	1.451	1.00
211_I	214_W	1.449	1.00
83_A	87_P	1.447	1.00
208_L	269_V	1.437	1.00
80_A	84_E	1.434	1.00
224_L	246_A	1.429	1.00
121_A	126_L	1.424	1.00
100_L	103_L	1.422	1.00
91_D	95_E	1.421	1.00
120_D	123_S	1.405	1.00
153_L	291_L	1.403	1.00
103_L	106_E	1.401	1.00
270_Q	273_E	1.400	1.00
205_Q	232_N	1.399	1.00
261_I	265_V	1.395	1.00
150_V	154_L	1.385	1.00
28_A	154_L	1.381	1.00
186_E	325_E	1.379	1.00
160_D	289_H	1.373	1.00
88_A	91_D	1.369	1.00
250_A	253_T	1.362	1.00
225_G	229_G	1.362	1.00
221_A	225_G	1.358	1.00
160_D	163_R	1.354	1.00
213_L	228_A	1.352	1.00
300_G	304_F	1.350	1.00
101_P	104_L	1.349	1.00
74_L	78_Q	1.349	1.00
32_A	157_L	1.339	1.00
101_P	105_P	1.330	1.00
257_T	260_L	1.325	1.00
112_E	115_L	1.325	1.00
254_G	258_A	1.321	1.00
202_A	232_N	1.317	1.00
137_L	141_G	1.317	1.00
296_A	300_G	1.306	1.00
119_S	123_S	1.304	1.00
205_Q	269_V	1.302	1.00
247_A	263_L	1.301	1.00
104_L	107_L	1.297	1.00
103_L	107_L	1.294	1.00
292_V	316_A	1.289	1.00
229_G	233_F	1.286	1.00
81_E	84_E	1.281	1.00
231_L	242_G	1.276	1.00
241_I	245_P	1.276	1.00
256_P	260_L	1.272	1.00
95_E	99_D	1.272	1.00
209_T	213_L	1.265	1.00
14_L	18_L	1.262	1.00
216_L	261_I	1.251	1.00
251_L	255_G	1.247	1.00
38_L	56_V	1.240	1.00
263_L	267_L	1.237	1.00
133_L	136_L	1.232	1.00
201_V	273_E	1.227	1.00
115_L	118_L	1.223	1.00
110_D	113_Q	1.218	1.00
133_L	137_L	1.213	1.00
31_L	150_V	1.207	1.00
256_P	259_A	1.201	1.00
116_D	119_S	1.198	1.00
165_R	169_L	1.197	1.00
11_L	14_L	1.193	1.00
232_N	239_P	1.189	1.00
300_G	316_A	1.188	1.00
36_N	49_R	1.187	1.00
90_L	94_Q	1.186	1.00
53_A	155_F	1.172	1.00
262_V	266_F	1.167	1.00
251_L	259_A	1.159	1.00
12_L	15_L	1.156	1.00
186_E	324_R	1.151	1.00
25_L	295_L	1.150	1.00
192_G	196_R	1.147	1.00
63_L	67_L	1.146	1.00
265_V	269_V	1.141	1.00
99_D	102_E	1.140	1.00
97_L	101_P	1.140	1.00
111_L	114_L	1.134	1.00
38_L	41_R	1.131	1.00
190_T	317_A	1.127	1.00
212_G	216_L	1.123	1.00
39_V	56_V	1.113	1.00
163_R	167_R	1.110	1.00
13_A	17_L	1.105	1.00
271_Q	275_N	1.100	1.00
264_I	268_V	1.095	1.00
117_S	121_A	1.094	1.00
52_A	56_V	1.093	1.00
277_L	281_L	1.089	1.00
166_R	170_R	1.088	1.00
120_D	124_S	1.087	1.00
77_S	81_E	1.086	1.00
247_A	259_A	1.082	1.00
212_G	269_V	1.080	1.00
153_L	157_L	1.079	1.00
36_N	161_G	1.070	1.00
110_D	115_L	1.070	1.00
90_L	93_L	1.062	1.00
116_D	120_D	1.062	1.00
102_E	105_P	1.060	1.00
111_L	117_S	1.054	1.00
210_G	222_L	1.044	1.00
255_G	258_A	1.040	1.00
198_Q	278_R	1.038	1.00
57_L	154_L	1.036	1.00
280_R	283_G	1.036	1.00
202_A	233_F	1.031	1.00
99_D	103_L	1.030	1.00
7_L	11_L	1.028	1.00
207_V	210_G	1.028	1.00
115_L	121_A	1.027	1.00
182_R	186_E	1.026	1.00
250_A	255_G	1.024	1.00
78_Q	81_E	1.018	1.00
66_L	70_L	1.015	1.00
251_L	254_G	1.015	1.00
122_L	125_L	1.012	1.00
203_L	229_G	1.009	1.00
211_I	215_I	1.007	1.00
39_V	53_A	0.999	1.00
182_R	325_E	0.999	1.00
50_G	155_F	0.998	1.00
126_L	129_L	0.990	1.00
79_A	83_A	0.988	1.00
61_L	65_V	0.987	1.00
5_L	9_L	0.979	1.00
174_R	177_R	0.974	1.00
228_A	242_G	0.971	1.00
247_A	251_L	0.963	1.00
89_Y	93_L	0.962	1.00
201_V	232_N	0.957	1.00
232_N	273_E	0.956	1.00
179_R	182_R	0.955	1.00
104_L	108_G	0.955	1.00
123_S	127_G	0.955	1.00
125_L	129_L	0.951	1.00
199_L	203_L	0.950	1.00
14_L	17_L	0.950	1.00
219_P	253_T	0.941	1.00
118_L	121_A	0.940	1.00
181_R	185_R	0.933	1.00
97_L	104_L	0.933	1.00
183_L	322_L	0.932	1.00
98_A	102_E	0.931	1.00
132_G	136_L	0.929	1.00
216_L	262_V	0.926	1.00
43_E	49_R	0.926	1.00
259_A	263_L	0.920	1.00
202_A	206_G	0.920	1.00
50_G	53_A	0.917	1.00
212_G	261_I	0.916	1.00
142_G	146_N	0.915	1.00
39_V	49_R	0.912	1.00
114_L	117_S	0.911	1.00
288_L	316_A	0.910	1.00
201_V	278_R	0.903	1.00
121_A	125_L	0.898	1.00
95_E	98_A	0.895	1.00
130_L	133_L	0.894	1.00
156_F	160_D	0.894	1.00
63_L	66_L	0.892	1.00
40_R	162_E	0.891	1.00
115_L	119_S	0.889	1.00
47_L	51_L	0.889	1.00
193_G	196_R	0.888	1.00
278_R	282_M	0.875	1.00
112_E	116_D	0.875	1.00
198_Q	202_A	0.874	1.00
100_L	104_L	0.874	1.00
306_I	309_L	0.873	1.00
193_G	285_S	0.872	1.00
246_A	250_A	0.870	1.00
161_G	165_R	0.864	1.00
136_L	140_L	0.859	1.00
39_V	158_L	0.855	1.00
286_V	313_V	0.855	1.00
11_L	15_L	0.854	1.00
124_S	128_S	0.852	1.00
53_A	67_L	0.851	1.00
232_N	278_R	0.851	1.00
173_P	176_R	0.850	1.00
154_L	158_L	0.846	1.00
292_V	320_K	0.846	1.00
113_Q	117_S	0.842	1.00
13_A	19_R	0.841	1.00
205_Q	209_T	0.840	1.00
187_I	190_T	0.839	1.00
297_L	309_L	0.838	1.00
28_A	153_L	0.837	1.00
69_A	73_P	0.836	1.00
243_A	247_A	0.834	1.00
245_P	248_L	0.828	1.00
78_Q	82_L	0.828	1.00
274_G	278_R	0.827	1.00
207_V	211_I	0.826	1.00
242_G	246_A	0.825	1.00
218_V	250_A	0.824	1.00
32_A	154_L	0.823	1.00
153_L	295_L	0.820	1.00
85_N	89_Y	0.818	1.00
173_P	177_R	0.817	1.00
8_L	12_L	0.816	1.00
169_L	177_R	0.812	1.00
111_L	115_L	0.812	1.00
205_Q	239_P	0.810	1.00
76_V	79_A	0.809	1.00
29_L	157_L	0.807	1.00
198_Q	233_F	0.806	1.00
220_Y	223_L	0.799	1.00
12_L	19_R	0.798	1.00
6_L	10_L	0.794	1.00
167_R	170_R	0.793	1.00
185_R	189_R	0.793	1.00
89_Y	92_R	0.792	1.00
96_W	101_P	0.791	1.00
130_L	134_L	0.789	1.00
28_A	32_A	0.788	1.00
188_D	192_G	0.785	1.00
45_R	48_P	0.784	1.00
186_E	321_V	0.784	1.00
97_L	100_L	0.783	1.00
201_V	277_L	0.782	1.00
163_R	166_R	0.782	1.00
196_R	200_L	0.781	1.00
213_L	224_L	0.778	1.00
8_L	11_L	0.775	1.00
43_E	52_A	0.768	1.00
10_L	14_L	0.765	1.00
176_R	179_R	0.762	1.00
87_P	91_D	0.761	1.00
307_L	311_L	0.758	1.00
319_L	323_L	0.757	1.00
183_L	187_I	0.756	1.00
213_L	262_V	0.756	1.00
78_Q	83_A	0.755	1.00
143_F	147_L	0.750	1.00
240_I	244_I	0.747	1.00
180_V	184_L	0.746	1.00
200_L	204_I	0.746	1.00
178_E	182_R	0.743	1.00
68_L	72_V	0.742	1.00
165_R	181_R	0.740	1.00
193_G	197_G	0.737	1.00
93_L	96_W	0.736	1.00
150_V	153_L	0.736	1.00
32_A	36_N	0.735	1.00
268_V	271_Q	0.734	1.00
162_E	166_R	0.728	1.00
42_L	56_V	0.728	1.00
110_D	114_L	0.727	1.00
216_L	258_A	0.727	1.00
101_P	108_G	0.727	1.00
204_I	277_L	0.726	1.00
227_L	245_P	0.725	1.00
295_L	299_G	0.721	1.00
167_R	171_L	0.718	1.00
80_A	83_A	0.717	1.00
47_L	52_A	0.717	1.00
25_L	153_L	0.716	1.00
54_L	58_L	0.716	1.00
216_L	265_V	0.714	1.00
259_A	266_F	0.710	1.00
105_P	108_G	0.710	1.00
201_V	282_M	0.708	1.00
10_L	13_A	0.706	1.00
248_L	252_L	0.705	1.00
52_A	55_L	0.705	1.00
276_V	280_R	0.705	1.00
94_Q	100_L	0.705	1.00
40_R	43_E	0.704	1.00
14_L	19_R	0.703	1.00
203_L	207_V	0.702	1.00
27_L	150_V	0.701	1.00
84_E	87_P	0.701	1.00
135_S	138_G	0.700	1.00
166_R	181_R	0.699	1.00
179_R	325_E	0.696	1.00
51_L	54_L	0.692	1.00
134_L	137_L	0.686	1.00
264_I	267_L	0.686	1.00
186_E	190_T	0.685	1.00
147_L	151_L	0.685	1.00
123_S	126_L	0.684	1.00
75_L	79_A	0.684	1.00
139_S	142_G	0.682	1.00
300_G	315_L	0.682	1.00
114_L	118_L	0.679	1.00
288_L	292_V	0.675	1.00
119_S	122_L	0.674	1.00
76_V	80_A	0.673	1.00
24_P	33_Y	0.672	1.00
101_P	107_L	0.669	1.00
13_A	18_L	0.668	1.00
289_H	320_K	0.667	1.00
98_A	108_G	0.666	1.00
289_H	292_V	0.666	1.00
9_L	13_A	0.664	1.00
177_R	180_V	0.663	1.00
39_V	52_A	0.663	1.00
9_L	16_W	0.663	1.00
126_L	130_L	0.657	1.00
262_V	265_V	0.655	1.00
316_A	320_K	0.655	1.00
72_V	76_V	0.655	1.00
247_A	250_A	0.655	1.00
214_W	217_G	0.655	1.00
250_A	262_V	0.652	1.00
103_L	108_G	0.649	1.00
205_Q	273_E	0.646	1.00
232_N	270_Q	0.646	1.00
179_R	183_L	0.645	1.00
201_V	205_Q	0.644	1.00
44_R	47_L	0.643	1.00
129_L	132_G	0.642	1.00
272_L	277_L	0.642	1.00
73_P	77_S	0.642	1.00
272_L	276_V	0.641	1.00
239_P	243_A	0.635	1.00
186_E	189_R	0.634	1.00
172_L	176_R	0.632	1.00
240_I	243_A	0.631	1.00
24_P	146_N	0.631	1.00
42_L	45_R	0.630	1.00
258_A	262_V	0.629	1.00
49_R	53_A	0.627	1.00
82_L	86_L	0.624	1.00
35_L	154_L	0.623	1.00
12_L	18_L	0.622	1.00
100_L	108_G	0.620	1.00
246_A	249_L	0.616	1.00
243_A	266_F	0.613	1.00
66_L	69_A	0.613	1.00
209_T	269_V	0.611	1.00
149_L	153_L	0.610	1.00
212_G	215_I	0.609	1.00
189_R	193_G	0.603	1.00
32_A	158_L	0.599	1.00
194_Y	198_Q	0.598	1.00
42_L	47_L	0.597	1.00
70_L	74_L	0.595	1.00
259_A	262_V	0.595	1.00
114_L	119_S	0.594	1.00
98_A	104_L	0.593	1.00
198_Q	201_V	0.592	1.00
202_A	229_G	0.591	1.00
196_R	285_S	0.590	1.00
202_A	205_Q	0.589	1.00
101_P	106_E	0.589	1.00
185_R	188_D	0.586	1.00
127_G	131_G	0.586	1.00
165_R	185_R	0.585	1.00
146_N	150_V	0.584	1.00
100_L	107_L	0.583	1.00
177_R	181_R	0.581	1.00
283_G	293_V	0.581	1.00
273_E	278_R	0.580	1.00
259_A	265_V	0.579	1.00
282_M	286_V	0.579	1.00
253_T	256_P	0.576	1.00
7_L	15_L	0.575	1.00
169_L	172_L	0.574	1.00
293_V	313_V	0.574	1.00
288_L	293_V	0.573	1.00
121_A	128_S	0.573	1.00
128_S	132_G	0.571	1.00
265_V	268_V	0.571	1.00
246_A	262_V	0.571	1.00
97_L	103_L	0.570	1.00
268_V	272_L	0.570	1.00
59_L	62_L	0.569	1.00
119_S	125_L	0.568	1.00
121_A	127_G	0.567	1.00
249_L	254_G	0.566	1.00
266_F	270_Q	0.563	1.00
97_L	102_E	0.562	1.00
206_G	209_T	0.561	1.00
89_Y	96_W	0.559	1.00
299_G	302_A	0.558	1.00
77_S	80_A	0.554	1.00
29_L	161_G	0.551	1.00
141_G	145_L	0.550	1.00
208_L	212_G	0.548	1.00
48_P	52_A	0.548	1.00
283_G	287_G	0.543	1.00
252_L	255_G	0.542	1.00
117_S	122_L	0.542	1.00
5_L	16_W	0.541	1.00
102_E	106_E	0.541	1.00
41_R	46_G	0.540	1.00
85_N	219_P	0.535	1.00
257_T	264_I	0.532	1.00
75_L	78_Q	0.532	1.00
184_L	188_D	0.531	1.00
249_L	252_L	0.529	1.00
90_L	96_W	0.529	1.00
118_L	124_S	0.528	1.00
204_I	208_L	0.526	1.00
49_R	162_E	0.522	1.00
239_P	270_Q	0.522	1.00
239_P	274_G	0.515	1.00
138_G	141_G	0.515	1.00
6_L	15_L	0.515	1.00
164_L	167_R	0.514	1.00
166_R	169_L	0.513	1.00
29_L	32_A	0.512	1.00
9_L	12_L	0.511	1.00
67_L	71_L	0.511	1.00
277_L	280_R	0.511	1.00
129_L	133_L	0.510	1.00
132_G	135_S	0.509	1.00
312_A	316_A	0.509	1.00
48_P	53_A	0.509	1.00
290_P	294_L	0.509	1.00
4_L	8_L	0.509	1.00
227_L	242_G	0.507	1.00
65_V	68_L	0.506	1.00
199_L	202_A	0.506	1.00
213_L	266_F	0.505	1.00
209_T	212_G	0.504	1.00
42_L	59_L	0.500	1.00

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
3rvyA	3	0.2202	11.7	0.95	Contact Map
4bgnA	3	0.2599	11.5	0.951	Contact Map
2ksdA	1	0.1651	9.4	0.952	Contact Map
2kv5A	1	0.1009	3.5	0.961	Contact Map
3bz1X	1	0.1131	2.7	0.963	Contact Map
1qp6A	2	0.107	2.7	0.963	Contact Map
3j2wE	1	0.1407	2.5	0.964	Contact Map
3bo0B	1	0.1988	2.3	0.965	Contact Map
4dx5A	3	0.4648	2.1	0.965	Contact Map
3w4tA	1	0.633	2.1	0.965	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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