DUF4856 - PFAM28P - GREMLIN Contacts

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DUF4856 - Domain of unknown function (DUF4856)

PFAM:	PF16148	Sequences: PATYSFERNGESTVSFSGQTTRLAMAEELISALKDTTLTEAKLLAMFANENGANPFSDADLNASGKQLRSKTAASSDYFSANTTESAAIKADFDSWITDQVAEVFPNWNTTASAGVAGQIADGSSTRYVNAKGLEYNQAFEKGLIGALMYDQILNNYLSTAVLDAGTNRADNDNGTLVEGKNYTTMEHKWDEAFGYLYGAPADPANPNLSFLNKYLNRVNGDSDFAGIADDIYDAFKLGRAAIVAKDYTVRDEQAAIIREELSKVIAARAVYYLQQGKAALANGDYADAFHALSEGYGFIYSLQFTRNPNTGAPYFSKAEVDAFLAQLMAGNGFWDVDRTPATLDAISEAIAAKFGFT	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	358 (353)
Sequences:	790 (667)
Seq/√Len:	35.5
META:	0.777

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
261_E	264_K	4.291	1.00
247_D	250_V	4.246	1.00
231_D	261_E	4.067	1.00
153_I	262_L	3.997	1.00
150_Y	262_L	3.966	1.00
167_T	171_D	3.818	1.00
113_S	116_V	3.722	1.00
40_E	44_L	3.569	1.00
230_D	234_D	3.556	1.00
254_Q	257_I	3.378	1.00
69_R	94_D	3.178	1.00
67_Q	70_S	2.961	1.00
175_G	246_K	2.876	1.00
93_F	143_G	2.823	1.00
178_V	185_T	2.820	1.00
318_K	322_D	2.814	1.00
241_A	245_A	2.770	1.00
187_E	244_V	2.749	1.00
29_L	140_F	2.740	1.00
49_N	55_P	2.663	1.00
275_Q	348_S	2.538	1.00
135_E	291_H	2.384	1.00
86_S	90_K	2.374	1.00
66_K	71_K	2.343	0.99
297_Y	325_L	2.331	0.99
145_I	212_L	2.317	0.99
46_M	49_N	2.310	0.99
320_E	354_K	2.307	0.99
198_Y	208_N	2.288	0.99
85_E	304_Q	2.287	0.99
130_N	136_Y	2.247	0.99
177_L	182_N	2.178	0.99
220_N	227_G	2.119	0.99
94_D	97_I	2.103	0.99
199_G	203_D	2.098	0.99
186_M	251_R	2.059	0.99
301_Y	305_F	2.012	0.98
18_G	192_E	2.003	0.98
317_S	320_E	1.943	0.98
250_V	253_E	1.933	0.98
171_D	178_V	1.923	0.98
170_A	174_N	1.910	0.98
190_W	239_G	1.908	0.98
231_D	264_K	1.905	0.98
41_A	45_A	1.898	0.98
59_A	63_A	1.895	0.98
278_K	345_D	1.834	0.97
134_L	139_A	1.810	0.97
52_G	55_P	1.807	0.97
12_S	182_N	1.797	0.97
38_L	42_K	1.780	0.96
99_D	103_E	1.775	0.96
295_E	299_F	1.737	0.96
22_R	192_E	1.732	0.96
49_N	52_G	1.722	0.96
214_K	296_G	1.713	0.96
45_A	49_N	1.687	0.95
30_I	141_E	1.687	0.95
45_A	51_N	1.683	0.95
78_Y	314_P	1.682	0.95
197_L	216_L	1.666	0.95
112_A	120_I	1.641	0.94
16_F	194_F	1.623	0.94
56_F	61_L	1.618	0.94
18_G	157_Y	1.602	0.94
238_L	250_V	1.544	0.92
18_G	22_R	1.518	0.92
316_F	324_F	1.511	0.92
51_N	55_P	1.492	0.91
200_A	213_N	1.489	0.91
139_A	334_F	1.485	0.91
171_D	176_T	1.483	0.91
162_V	189_K	1.473	0.90
24_A	200_A	1.471	0.90
212_L	266_I	1.465	0.90
233_Y	237_K	1.437	0.89
316_F	354_K	1.417	0.89
159_S	259_R	1.411	0.88
33_L	140_F	1.391	0.88
45_A	55_P	1.381	0.87
220_N	226_A	1.380	0.87
170_A	173_D	1.376	0.87
353_A	356_G	1.369	0.87
156_N	162_V	1.368	0.87
276_Q	292_A	1.354	0.86
68_L	148_L	1.352	0.86
40_E	98_T	1.333	0.85
263_S	306_T	1.327	0.85
39_T	42_K	1.326	0.85
19_Q	192_E	1.325	0.85
19_Q	157_Y	1.324	0.85
316_F	320_E	1.322	0.85
27_E	210_S	1.316	0.85
23_L	149_M	1.308	0.84
236_F	258_I	1.307	0.84
120_I	287_A	1.301	0.84
120_I	129_V	1.299	0.84
167_T	170_A	1.278	0.83
323_A	326_A	1.256	0.82
154_L	262_L	1.254	0.82
350_A	354_K	1.241	0.81
201_P	204_P	1.238	0.81
275_Q	278_K	1.233	0.80
346_A	350_A	1.231	0.80
306_T	315_Y	1.218	0.80
138_Q	299_F	1.215	0.79
264_K	268_A	1.209	0.79
200_A	203_D	1.208	0.79
76_S	165_A	1.208	0.79
2_A	237_K	1.199	0.79
178_V	181_K	1.195	0.78
157_Y	192_E	1.192	0.78
120_I	286_Y	1.191	0.78
68_L	149_M	1.186	0.78
203_D	206_N	1.186	0.78
56_F	62_N	1.182	0.78
72_T	148_L	1.174	0.77
186_M	252_D	1.171	0.77
68_L	72_T	1.168	0.77
11_E	182_N	1.166	0.77
48_A	69_R	1.165	0.77
194_F	207_P	1.164	0.76
99_D	136_Y	1.163	0.76
322_D	325_L	1.149	0.76
225_F	357_F	1.149	0.76
343_T	347_I	1.139	0.75
119_Q	126_T	1.139	0.75
44_L	94_D	1.138	0.75
250_V	254_Q	1.134	0.75
92_D	301_Y	1.133	0.74
13_T	182_N	1.129	0.74
26_A	141_E	1.127	0.74
26_A	29_L	1.127	0.74
50_E	55_P	1.126	0.74
16_F	20_T	1.108	0.73
304_Q	322_D	1.106	0.73
260_E	264_K	1.104	0.73
327_Q	331_G	1.101	0.72
154_L	263_S	1.096	0.72
122_D	285_D	1.096	0.72
40_E	46_M	1.095	0.72
322_D	326_A	1.094	0.72
331_G	347_I	1.093	0.72
273_Y	295_E	1.086	0.71
248_Y	251_R	1.083	0.71
25_M	61_L	1.083	0.71
24_A	58_D	1.080	0.71
90_K	97_I	1.072	0.70
321_V	325_L	1.069	0.70
87_A	91_A	1.064	0.70
43_L	46_M	1.063	0.70
200_A	267_A	1.059	0.69
337_V	343_T	1.058	0.69
134_L	297_Y	1.057	0.69
291_H	299_F	1.056	0.69
16_F	19_Q	1.056	0.69
19_Q	152_Q	1.052	0.69
337_V	344_L	1.050	0.69
332_N	336_D	1.049	0.69
327_Q	330_A	1.047	0.68
214_K	292_A	1.043	0.68
173_D	176_T	1.040	0.68
122_D	287_A	1.036	0.68
32_A	35_D	1.033	0.67
96_W	140_F	1.025	0.67
56_F	59_A	1.013	0.66
119_Q	287_A	1.007	0.65
349_E	352_A	1.002	0.65
19_Q	188_H	1.001	0.65
164_D	186_M	0.999	0.65
220_N	229_A	0.993	0.64
47_F	52_G	0.992	0.64
157_Y	188_H	0.992	0.64
134_L	334_F	0.985	0.64
146_G	302_S	0.983	0.63
331_G	336_D	0.982	0.63
194_F	216_L	0.981	0.63
273_Y	291_H	0.980	0.63
139_A	297_Y	0.972	0.63
340_T	343_T	0.971	0.62
327_Q	350_A	0.968	0.62
163_L	255_A	0.967	0.62
151_D	155_N	0.962	0.62
164_D	251_R	0.962	0.62
24_A	210_S	0.959	0.62
219_V	269_R	0.955	0.61
200_A	204_P	0.954	0.61
121_A	124_S	0.953	0.61
330_A	334_F	0.946	0.60
256_A	310_N	0.941	0.60
255_A	258_I	0.936	0.60
160_T	164_D	0.934	0.59
57_S	60_D	0.931	0.59
242_A	247_D	0.929	0.59
329_M	337_V	0.919	0.58
39_T	49_N	0.914	0.58
328_L	347_I	0.914	0.58
19_Q	22_R	0.914	0.58
202_A	209_L	0.913	0.58
20_T	24_A	0.913	0.58
165_A	189_K	0.912	0.58
1_P	4_Y	0.907	0.57
343_T	348_S	0.905	0.57
211_F	301_Y	0.905	0.57
291_H	295_E	0.902	0.57
184_T	195_G	0.899	0.57
248_Y	252_D	0.893	0.56
327_Q	346_A	0.892	0.56
29_L	68_L	0.892	0.56
55_P	62_N	0.885	0.55
274_L	300_I	0.884	0.55
169_R	173_D	0.878	0.55
214_K	218_R	0.874	0.54
222_D	225_F	0.870	0.54
268_A	277_G	0.870	0.54
278_K	348_S	0.867	0.54
203_D	209_L	0.861	0.53
112_A	118_G	0.861	0.53
153_I	177_L	0.857	0.53
48_A	55_P	0.855	0.53
153_I	197_L	0.853	0.53
327_Q	347_I	0.850	0.52
31_S	34_K	0.847	0.52
234_D	237_K	0.846	0.52
29_L	43_L	0.844	0.52
137_N	141_E	0.843	0.52
171_D	185_T	0.843	0.52
77_D	159_S	0.841	0.52
71_K	74_A	0.840	0.51
208_N	216_L	0.840	0.51
163_L	189_K	0.840	0.51
201_P	208_N	0.838	0.51
238_L	245_A	0.836	0.51
13_T	183_Y	0.836	0.51
92_D	96_W	0.835	0.51
342_A	346_A	0.832	0.51
60_D	63_A	0.831	0.51
132_K	331_G	0.830	0.51
208_N	217_N	0.827	0.50
235_A	254_Q	0.821	0.50
40_E	102_A	0.820	0.50
43_L	47_F	0.820	0.50
45_A	48_A	0.818	0.50
149_M	298_G	0.817	0.49
59_A	62_N	0.810	0.49
156_N	163_L	0.809	0.49
151_D	156_N	0.808	0.49
18_G	188_H	0.808	0.49
127_R	269_R	0.804	0.48
111_T	119_Q	0.803	0.48
245_A	250_V	0.802	0.48
160_T	259_R	0.802	0.48
3_T	6_F	0.801	0.48
293_L	297_Y	0.800	0.48
38_L	49_N	0.795	0.48
22_R	157_Y	0.794	0.47
324_F	350_A	0.794	0.47
194_F	305_F	0.793	0.47
58_D	61_L	0.793	0.47
274_L	278_K	0.791	0.47
349_E	353_A	0.786	0.47
18_G	66_K	0.785	0.47
256_A	259_R	0.784	0.47
238_L	241_A	0.783	0.47
269_R	275_Q	0.782	0.46
272_Y	276_Q	0.774	0.46
16_F	265_V	0.773	0.46
264_K	356_G	0.771	0.45
41_A	44_L	0.770	0.45
138_Q	303_L	0.770	0.45
304_Q	321_V	0.769	0.45
163_L	251_R	0.767	0.45
138_Q	144_L	0.767	0.45
218_R	272_Y	0.766	0.45
211_F	296_G	0.764	0.45
71_K	192_E	0.764	0.45
56_F	63_A	0.761	0.45
44_L	48_A	0.760	0.45
276_Q	282_A	0.759	0.44
255_A	259_R	0.758	0.44
216_L	232_I	0.757	0.44
150_Y	266_I	0.757	0.44
57_S	62_N	0.756	0.44
203_D	207_P	0.755	0.44
33_L	96_W	0.754	0.44
335_W	351_I	0.753	0.44
198_Y	306_T	0.751	0.44
25_M	63_A	0.749	0.44
273_Y	299_F	0.749	0.44
134_L	300_I	0.745	0.43
249_T	253_E	0.742	0.43
139_A	298_G	0.740	0.43
58_D	63_A	0.738	0.43
238_L	254_Q	0.737	0.43
333_G	336_D	0.733	0.42
57_S	246_K	0.731	0.42
117_A	304_Q	0.730	0.42
141_E	211_F	0.729	0.42
18_G	71_K	0.726	0.42
175_G	178_V	0.725	0.42
38_L	46_M	0.719	0.41
25_M	55_P	0.718	0.41
29_L	250_V	0.717	0.41
173_D	246_K	0.717	0.41
203_D	234_D	0.715	0.41
218_R	292_A	0.715	0.41
226_A	267_A	0.714	0.41
232_I	262_L	0.713	0.41
230_D	313_A	0.712	0.40
262_L	265_V	0.712	0.40
167_T	174_N	0.711	0.40
300_I	314_P	0.710	0.40
33_L	97_I	0.709	0.40
135_E	143_G	0.708	0.40
135_E	295_E	0.707	0.40
17_S	21_T	0.702	0.40
158_L	254_Q	0.700	0.40
235_A	257_I	0.698	0.39
324_F	347_I	0.696	0.39
135_E	273_Y	0.695	0.39
205_A	208_N	0.694	0.39
342_A	356_G	0.694	0.39
304_Q	315_Y	0.693	0.39
1_P	6_F	0.693	0.39
309_P	314_P	0.690	0.39
198_Y	203_D	0.689	0.39
33_L	38_L	0.686	0.38
69_R	86_S	0.686	0.38
142_K	295_E	0.683	0.38
10_G	13_T	0.683	0.38
201_P	206_N	0.682	0.38
49_N	65_G	0.682	0.38
196_Y	199_G	0.680	0.38
238_L	253_E	0.680	0.38
124_S	285_D	0.679	0.38
331_G	334_F	0.679	0.38
269_R	272_Y	0.678	0.38
270_A	300_I	0.675	0.37
347_I	350_A	0.675	0.37
345_D	348_S	0.674	0.37
114_A	332_N	0.673	0.37
176_T	319_A	0.673	0.37
193_A	301_Y	0.672	0.37
199_G	204_P	0.672	0.37
111_T	121_A	0.671	0.37
186_M	248_Y	0.670	0.37
236_F	256_A	0.668	0.37
272_Y	275_Q	0.667	0.37
36_T	108_W	0.665	0.37
61_L	64_S	0.665	0.37
48_A	51_N	0.664	0.37
142_K	299_F	0.664	0.37
217_N	221_G	0.663	0.36
23_L	77_D	0.663	0.36
194_F	233_Y	0.663	0.36
306_T	309_P	0.662	0.36
39_T	46_M	0.662	0.36
304_Q	318_K	0.661	0.36
129_V	136_Y	0.660	0.36
297_Y	334_F	0.660	0.36
66_K	157_Y	0.660	0.36
320_E	325_L	0.660	0.36
194_F	204_P	0.655	0.36
104_V	107_N	0.653	0.36
346_A	349_E	0.650	0.35
134_L	329_M	0.647	0.35
296_G	300_I	0.644	0.35
232_I	258_I	0.643	0.35
16_F	216_L	0.642	0.35
122_D	127_R	0.641	0.35
107_N	110_T	0.641	0.35
114_A	317_S	0.636	0.34
1_P	13_T	0.636	0.34
297_Y	329_M	0.636	0.34
189_K	193_A	0.635	0.34
345_D	349_E	0.634	0.34
229_A	233_Y	0.632	0.34
117_A	174_N	0.632	0.34
326_A	329_M	0.632	0.34
193_A	211_F	0.630	0.34
69_R	90_K	0.628	0.34
201_P	209_L	0.628	0.34
166_G	171_D	0.628	0.34
114_A	333_G	0.626	0.34
268_A	292_A	0.625	0.34
40_E	47_F	0.625	0.34
26_A	68_L	0.625	0.34
46_M	61_L	0.624	0.33
215_Y	295_E	0.624	0.33
40_E	49_N	0.624	0.33
214_K	268_A	0.623	0.33
258_I	266_I	0.623	0.33
120_I	301_Y	0.620	0.33
110_T	116_V	0.619	0.33
319_A	342_A	0.619	0.33
75_S	151_D	0.618	0.33
171_D	177_L	0.618	0.33
153_I	212_L	0.617	0.33
219_V	290_F	0.617	0.33
23_L	28_E	0.616	0.33
137_N	298_G	0.616	0.33
202_A	207_P	0.615	0.33
55_P	61_L	0.614	0.33
308_N	313_A	0.612	0.33
153_I	254_Q	0.611	0.32
47_F	72_T	0.611	0.32
329_M	333_G	0.611	0.32
231_D	234_D	0.610	0.32
243_I	251_R	0.610	0.32
218_R	221_G	0.608	0.32
20_T	199_G	0.607	0.32
228_I	265_V	0.607	0.32
352_A	357_F	0.606	0.32
68_L	296_G	0.606	0.32
97_I	124_S	0.605	0.32
121_A	287_A	0.604	0.32
123_G	270_A	0.601	0.32
280_A	292_A	0.600	0.32
76_S	80_S	0.599	0.32
285_D	288_D	0.598	0.31
257_I	261_E	0.596	0.31
138_Q	141_E	0.596	0.31
326_A	346_A	0.595	0.31
98_T	102_A	0.594	0.31
318_K	321_V	0.593	0.31
99_D	356_G	0.591	0.31
32_A	46_M	0.591	0.31
51_N	54_N	0.588	0.31
66_K	70_S	0.588	0.31
114_A	336_D	0.586	0.31
112_A	129_V	0.584	0.30
260_E	315_Y	0.583	0.30
19_Q	66_K	0.583	0.30
297_Y	347_I	0.581	0.30
113_S	166_G	0.581	0.30
15_S	181_K	0.580	0.30
159_S	300_I	0.579	0.30
119_Q	122_D	0.578	0.30
45_A	52_G	0.576	0.30
103_E	106_P	0.575	0.30
180_G	346_A	0.574	0.30
71_K	157_Y	0.572	0.30
201_P	207_P	0.571	0.29
194_F	258_I	0.571	0.29
277_G	281_L	0.570	0.29
300_I	321_V	0.569	0.29
205_A	209_L	0.569	0.29
178_V	183_Y	0.568	0.29
53_A	68_L	0.566	0.29
140_F	297_Y	0.565	0.29
48_A	52_G	0.565	0.29
266_I	302_S	0.564	0.29
225_F	228_I	0.561	0.29
317_S	354_K	0.561	0.29
237_K	241_A	0.560	0.29
150_Y	154_L	0.560	0.29
291_H	296_G	0.558	0.29
135_E	214_K	0.558	0.29
351_I	354_K	0.557	0.28
44_L	69_R	0.556	0.28
86_S	94_D	0.554	0.28
18_G	196_Y	0.553	0.28
262_L	289_A	0.552	0.28
304_Q	309_P	0.551	0.28
72_T	144_L	0.550	0.28
174_N	177_L	0.550	0.28
60_D	78_Y	0.549	0.28
197_L	232_I	0.549	0.28
14_V	18_G	0.549	0.28
342_A	345_D	0.548	0.28
152_Q	157_Y	0.548	0.28
76_S	83_T	0.547	0.28
48_A	59_A	0.546	0.28
47_F	51_N	0.544	0.28
137_N	148_L	0.544	0.28
112_A	155_N	0.544	0.28
53_A	56_F	0.543	0.28
98_T	317_S	0.543	0.28
32_A	36_T	0.542	0.27
328_L	333_G	0.541	0.27
11_E	179_E	0.541	0.27
299_F	303_L	0.541	0.27
22_R	273_Y	0.540	0.27
212_L	229_A	0.540	0.27
54_N	246_K	0.539	0.27
73_A	254_Q	0.539	0.27
69_R	91_A	0.539	0.27
18_G	152_Q	0.537	0.27
39_T	48_A	0.537	0.27
306_T	321_V	0.535	0.27
317_S	334_F	0.535	0.27
79_F	82_N	0.535	0.27
166_G	314_P	0.534	0.27
2_A	230_D	0.533	0.27
319_A	330_A	0.532	0.27
7_E	14_V	0.531	0.27
121_A	281_L	0.531	0.27
349_E	356_G	0.530	0.27
315_Y	318_K	0.530	0.27
45_A	50_E	0.528	0.26
330_A	343_T	0.528	0.26
4_Y	8_R	0.527	0.26
38_L	50_E	0.526	0.26
165_A	168_N	0.525	0.26
33_L	49_N	0.524	0.26
201_P	233_Y	0.524	0.26
173_D	182_N	0.523	0.26
153_I	236_F	0.523	0.26
334_F	354_K	0.521	0.26
163_L	186_M	0.520	0.26
307_R	310_N	0.520	0.26
144_L	187_E	0.520	0.26
142_K	215_Y	0.519	0.26
127_R	225_F	0.519	0.26
158_L	258_I	0.519	0.26
141_E	150_Y	0.518	0.26
194_F	201_P	0.518	0.26
300_I	319_A	0.516	0.26
92_D	143_G	0.516	0.26
137_N	216_L	0.515	0.26
328_L	336_D	0.514	0.26
105_F	108_W	0.513	0.25
7_E	12_S	0.509	0.25
85_E	318_K	0.508	0.25
8_R	244_V	0.507	0.25
315_Y	321_V	0.506	0.25
26_A	148_L	0.506	0.25
9_N	13_T	0.503	0.25
191_D	240_R	0.500	0.25
45_A	62_N	0.500	0.25

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
4fzpA	2	0.2263	24.3	0.973	Contact Map
3pzpA	1	0.1536	17	0.975	Contact Map
3hxaA	5	0.1061	10.1	0.977	Contact Map
1dd4C	7	0.0894	8.3	0.978	Contact Map
4wilA	4	0.1061	6.5	0.979	Contact Map
2oo2A	2	0.2123	6.4	0.979	Contact Map
4f3lB	1	0.2933	5.3	0.98	Contact Map
2hiyA	2	0.1732	5	0.98	Contact Map
3dr4A	2	0.1369	4.7	0.98	Contact Map
2v6uA	4	0.1117	4.4	0.981	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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