Vmethyltransf - PFAM28P - GREMLIN Contacts

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Vmethyltransf - Viral methyltransferase

PFAM:	PF01660	Sequences: FPYALSPEQKELLSKLGIYFSPFSATPHSHPVAKALENLLYEVLPSYLPKDVTFVDIGGNKLRHLKRGRSNVSLHCCNPLLDARDAARYTNRAFSLRSYLSRLKDKDRSKELDPFCLNTFEDCDVKAKTPYAFAHDSLYDISPEDLADALERHGALETLYATLVFPPELLFGDKESLNPELYTFWIRGGKFIFYPDGSLGESYTHPLSNLLSWLTTSKIVLPGGFVYSVELLESRGAHHLFSITRGDLLTPLFPDKRSFGPFEAVLVPKDFVPRVLNYARCKPVPKTTYEKLLSYLRSLKKRVVINGKTVRSGWDIDPDLLPDLAVAIYLMAKLRQLIDK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	340 (326)
Sequences:	506 (419)
Seq/√Len:	23.2
META:	0.265

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
132_A	155_A	4.528	1.00
138_L	161_A	4.438	1.00
56_D	59_G	4.121	1.00
227_Y	243_I	3.969	1.00
34_K	37_E	3.701	1.00
132_A	159_L	3.574	1.00
5_L	9_Q	3.503	1.00
234_S	239_H	3.393	1.00
150_L	227_Y	3.321	1.00
193_F	196_D	3.194	1.00
121_E	145_D	3.133	1.00
161_A	241_F	2.733	0.99
161_A	243_I	2.645	0.99
6_S	9_Q	2.599	0.99
37_E	40_L	2.578	0.99
193_F	237_A	2.575	0.99
275_V	296_L	2.530	0.99
30_H	88_R	2.520	0.98
143_P	213_W	2.516	0.98
296_L	325_A	2.351	0.98
126_K	154_G	2.346	0.98
229_V	243_I	2.323	0.97
75_H	123_C	2.293	0.97
88_R	203_Y	2.280	0.97
136_D	238_H	2.245	0.97
333_K	336_Q	2.225	0.97
120_F	149_A	2.212	0.96
166_P	169_L	2.139	0.96
11_E	15_K	2.124	0.95
101_S	104_K	2.101	0.95
55_V	153_H	2.075	0.95
146_L	219_I	2.071	0.95
53_T	222_P	2.066	0.95
37_E	59_G	2.027	0.94
176_S	185_W	1.980	0.93
34_K	136_D	1.972	0.93
37_E	79_P	1.917	0.92
311_R	314_W	1.891	0.92
116_C	123_C	1.888	0.92
123_C	127_A	1.884	0.92
34_K	38_N	1.855	0.91
98_S	103_L	1.854	0.91
331_M	335_R	1.849	0.91
134_A	137_S	1.844	0.91
77_C	123_C	1.844	0.91
146_L	213_W	1.817	0.90
191_F	195_P	1.802	0.90
190_K	204_T	1.798	0.90
139_Y	205_H	1.789	0.89
37_E	61_K	1.763	0.89
56_D	64_H	1.749	0.88
84_R	132_A	1.732	0.88
134_A	159_L	1.685	0.86
136_D	168_E	1.685	0.86
37_E	56_D	1.677	0.86
13_L	167_P	1.677	0.86
56_D	139_Y	1.663	0.85
119_T	122_D	1.662	0.85
44_L	240_L	1.660	0.85
33_A	196_D	1.653	0.85
41_Y	135_H	1.635	0.84
18_I	35_A	1.634	0.84
140_D	205_H	1.633	0.84
172_G	207_L	1.607	0.83
316_I	324_L	1.601	0.83
166_P	176_S	1.599	0.83
55_V	132_A	1.582	0.82
229_V	241_F	1.571	0.82
160_Y	240_L	1.560	0.81
79_P	227_Y	1.526	0.80
30_H	203_Y	1.516	0.79
200_G	217_S	1.514	0.79
332_A	336_Q	1.513	0.79
58_G	140_D	1.485	0.78
58_G	139_Y	1.482	0.78
56_D	79_P	1.468	0.77
213_W	227_Y	1.432	0.75
29_S	201_E	1.431	0.75
44_L	133_F	1.429	0.75
163_L	193_F	1.417	0.75
223_G	274_R	1.416	0.75
160_Y	242_S	1.408	0.74
151_E	221_L	1.392	0.73
111_E	114_P	1.391	0.73
243_I	293_L	1.380	0.73
140_D	210_L	1.370	0.72
136_D	139_Y	1.368	0.72
317_D	320_L	1.366	0.72
81_L	119_T	1.361	0.72
218_K	247_D	1.351	0.71
269_K	292_L	1.347	0.71
34_K	61_K	1.340	0.70
310_V	318_P	1.335	0.70
107_D	110_K	1.334	0.70
126_K	189_G	1.319	0.69
309_T	325_A	1.316	0.69
136_D	195_P	1.303	0.68
82_D	140_D	1.283	0.67
316_I	321_L	1.274	0.66
166_P	237_A	1.264	0.66
12_L	15_K	1.263	0.66
251_P	327_A	1.253	0.65
33_A	205_H	1.230	0.64
61_K	309_T	1.228	0.63
106_K	110_K	1.226	0.63
136_D	182_Y	1.226	0.63
198_S	201_E	1.219	0.63
312_S	316_I	1.215	0.63
7_P	187_R	1.211	0.62
135_H	205_H	1.211	0.62
323_D	326_V	1.204	0.62
151_E	223_G	1.204	0.62
59_G	76_C	1.202	0.62
39_L	304_V	1.198	0.61
192_I	202_S	1.196	0.61
322_P	326_V	1.186	0.61
161_A	314_W	1.182	0.60
5_L	274_R	1.176	0.60
196_D	199_L	1.170	0.60
138_L	168_E	1.164	0.59
82_D	298_S	1.159	0.59
5_L	292_L	1.142	0.58
58_G	75_H	1.140	0.58
204_T	256_K	1.126	0.57
36_L	238_H	1.119	0.56
119_T	210_L	1.115	0.56
320_L	327_A	1.111	0.56
13_L	32_V	1.101	0.55
84_R	241_F	1.093	0.54
33_A	193_F	1.082	0.54
59_G	64_H	1.073	0.53
100_L	104_K	1.065	0.52
294_S	335_R	1.059	0.52
123_C	140_D	1.058	0.52
9_Q	13_L	1.050	0.51
309_T	333_K	1.036	0.50
44_L	57_I	1.033	0.50
273_P	292_L	1.033	0.50
219_I	229_V	1.031	0.50
165_F	179_P	1.021	0.49
139_Y	210_L	1.019	0.49
108_R	114_P	1.019	0.49
29_S	45_P	1.018	0.49
148_D	152_R	1.012	0.49
229_V	236_G	1.010	0.49
312_S	326_V	1.009	0.48
279_A	292_L	1.008	0.48
77_C	116_C	1.006	0.48
3_Y	86_A	1.006	0.48
218_K	228_S	1.003	0.48
323_D	327_A	0.996	0.48
227_Y	307_G	0.987	0.47
137_S	205_H	0.986	0.47
59_G	134_A	0.983	0.47
332_A	335_R	0.983	0.47
77_C	140_D	0.976	0.46
58_G	77_C	0.973	0.46
163_L	216_T	0.972	0.46
208_S	319_D	0.971	0.46
162_T	310_V	0.970	0.46
313_G	321_L	0.968	0.46
133_F	223_G	0.966	0.45
315_D	328_I	0.965	0.45
101_S	111_E	0.962	0.45
36_L	136_D	0.957	0.45
173_D	184_F	0.954	0.45
140_D	230_E	0.950	0.44
317_D	324_L	0.945	0.44
121_E	144_E	0.943	0.44
164_V	314_W	0.942	0.44
327_A	332_A	0.942	0.44
26_T	75_H	0.927	0.43
57_I	123_C	0.926	0.43
194_Y	197_G	0.923	0.43
194_Y	258_S	0.913	0.42
136_D	239_H	0.905	0.41
98_S	190_K	0.904	0.41
84_R	230_E	0.900	0.41
169_L	207_L	0.899	0.41
230_E	246_G	0.896	0.41
200_G	273_P	0.891	0.40
221_L	224_G	0.889	0.40
79_P	210_L	0.888	0.40
11_E	269_K	0.887	0.40
8_E	12_L	0.886	0.40
95_S	99_Y	0.883	0.40
317_D	326_V	0.880	0.40
165_F	213_W	0.873	0.39
75_H	79_P	0.871	0.39
124_D	127_A	0.871	0.39
29_S	162_T	0.870	0.39
161_A	227_Y	0.870	0.39
178_N	299_L	0.870	0.39
150_L	156_L	0.870	0.39
7_P	25_A	0.870	0.39
79_P	150_L	0.865	0.39
58_G	61_K	0.863	0.38
54_F	283_P	0.861	0.38
123_C	152_R	0.858	0.38
97_R	102_R	0.857	0.38
165_F	210_L	0.857	0.38
15_K	187_R	0.856	0.38
118_N	124_D	0.856	0.38
103_L	106_K	0.853	0.38
292_L	325_A	0.850	0.38
97_R	101_S	0.849	0.38
132_A	191_F	0.844	0.37
251_P	318_P	0.843	0.37
102_R	105_D	0.841	0.37
184_F	214_L	0.840	0.37
87_A	91_N	0.831	0.36
308_K	313_G	0.830	0.36
320_L	325_A	0.826	0.36
5_L	160_Y	0.825	0.36
254_P	260_G	0.822	0.36
58_G	123_C	0.821	0.36
321_L	325_A	0.820	0.36
58_G	79_P	0.820	0.36
284_V	287_T	0.819	0.36
303_V	306_N	0.818	0.36
37_E	58_G	0.814	0.35
138_L	314_W	0.813	0.35
9_Q	14_S	0.813	0.35
224_G	294_S	0.811	0.35
147_A	219_I	0.806	0.35
33_A	181_L	0.805	0.35
170_L	267_V	0.804	0.35
255_D	258_S	0.804	0.35
158_T	242_S	0.803	0.35
179_P	318_P	0.802	0.35
320_L	328_I	0.802	0.35
95_S	105_D	0.800	0.34
37_E	135_H	0.800	0.34
103_L	113_D	0.795	0.34
35_A	48_L	0.794	0.34
243_I	259_F	0.793	0.34
71_N	167_P	0.789	0.34
77_C	81_L	0.787	0.34
109_S	114_P	0.787	0.34
219_I	227_Y	0.786	0.34
109_S	113_D	0.782	0.33
196_D	205_H	0.779	0.33
142_S	213_W	0.777	0.33
310_V	316_I	0.776	0.33
195_P	198_S	0.772	0.33
6_S	122_D	0.770	0.33
310_V	336_Q	0.768	0.32
111_E	179_P	0.768	0.32
97_R	105_D	0.767	0.32
102_R	106_K	0.767	0.32
8_E	163_L	0.766	0.32
309_T	322_P	0.766	0.32
139_Y	278_Y	0.763	0.32
293_L	297_R	0.763	0.32
187_R	247_D	0.762	0.32
105_D	111_E	0.760	0.32
114_P	118_N	0.759	0.32
297_R	301_K	0.759	0.32
34_K	40_L	0.758	0.32
308_K	323_D	0.755	0.32
310_V	314_W	0.753	0.31
155_A	159_L	0.753	0.31
7_P	14_S	0.749	0.31
302_R	305_I	0.747	0.31
110_K	113_D	0.746	0.31
115_F	327_A	0.745	0.31
155_A	158_T	0.742	0.31
44_L	162_T	0.742	0.31
116_C	140_D	0.741	0.31
325_A	328_I	0.741	0.31
62_L	162_T	0.739	0.31
141_I	149_A	0.736	0.30
311_R	320_L	0.735	0.30
163_L	245_R	0.732	0.30
169_L	185_W	0.732	0.30
32_V	233_E	0.732	0.30
134_A	213_W	0.731	0.30
260_G	304_V	0.728	0.30
198_S	236_G	0.728	0.30
4_A	12_L	0.728	0.30
34_K	301_K	0.726	0.30
301_K	307_G	0.724	0.30
292_L	296_L	0.724	0.30
16_L	236_G	0.720	0.30
239_H	306_N	0.718	0.29
251_P	321_L	0.712	0.29
185_W	202_S	0.711	0.29
59_G	79_P	0.708	0.29
233_E	267_V	0.707	0.29
295_Y	299_L	0.705	0.29
57_I	77_C	0.704	0.29
48_L	250_T	0.704	0.29
6_S	14_S	0.704	0.29
165_F	172_G	0.704	0.29
79_P	119_T	0.701	0.28
56_D	135_H	0.698	0.28
188_G	266_L	0.695	0.28
293_L	321_L	0.695	0.28
313_G	320_L	0.694	0.28
299_L	302_R	0.694	0.28
171_F	289_Y	0.693	0.28
33_A	139_Y	0.693	0.28
308_K	328_I	0.691	0.28
96_L	175_E	0.691	0.28
59_G	139_Y	0.690	0.28
81_L	180_E	0.689	0.28
150_L	245_R	0.687	0.28
142_S	158_T	0.687	0.28
98_S	111_E	0.686	0.28
26_T	261_P	0.685	0.28
34_K	58_G	0.685	0.28
290_E	297_R	0.685	0.28
161_A	287_T	0.684	0.27
262_F	276_L	0.683	0.27
79_P	137_S	0.683	0.27
27_P	147_A	0.681	0.27
136_D	164_V	0.679	0.27
322_P	335_R	0.679	0.27
99_Y	105_D	0.678	0.27
171_F	215_T	0.676	0.27
324_L	328_I	0.676	0.27
315_D	326_V	0.675	0.27
214_L	328_I	0.674	0.27
85_D	88_R	0.672	0.27
289_Y	293_L	0.672	0.27
231_L	239_H	0.671	0.27
316_I	326_V	0.670	0.27
42_E	223_G	0.667	0.27
161_A	271_F	0.666	0.26
310_V	313_G	0.664	0.26
249_L	267_V	0.658	0.26
166_P	314_W	0.655	0.26
195_P	295_Y	0.653	0.26
85_D	164_V	0.652	0.26
201_E	305_I	0.652	0.26
134_A	138_L	0.649	0.26
145_D	169_L	0.646	0.25
256_K	259_F	0.644	0.25
132_A	169_L	0.643	0.25
77_C	142_S	0.642	0.25
174_K	183_T	0.639	0.25
211_L	268_P	0.639	0.25
10_K	29_S	0.639	0.25
314_W	326_V	0.637	0.25
100_L	109_S	0.635	0.25
136_D	140_D	0.635	0.25
96_L	102_R	0.634	0.25
121_E	125_V	0.633	0.25
56_D	77_C	0.632	0.25
149_A	205_H	0.631	0.25
212_S	227_Y	0.631	0.25
31_P	166_P	0.630	0.25
136_D	166_P	0.630	0.25
63_R	141_I	0.630	0.25
61_K	136_D	0.628	0.24
97_R	130_P	0.628	0.24
78_N	89_Y	0.626	0.24
15_K	192_I	0.623	0.24
16_L	20_F	0.623	0.24
102_R	109_S	0.622	0.24
231_L	241_F	0.621	0.24
95_S	100_L	0.619	0.24
115_F	322_P	0.618	0.24
4_A	147_A	0.615	0.24
5_L	154_G	0.614	0.24
132_A	140_D	0.614	0.24
99_Y	104_K	0.613	0.24
67_R	84_R	0.613	0.24
278_Y	281_C	0.608	0.23
145_D	163_L	0.607	0.23
162_T	238_H	0.607	0.23
138_L	159_L	0.607	0.23
323_D	328_I	0.606	0.23
322_P	325_A	0.605	0.23
320_L	323_D	0.603	0.23
75_H	142_S	0.603	0.23
61_K	162_T	0.603	0.23
75_H	140_D	0.602	0.23
109_S	112_L	0.602	0.23
71_N	297_R	0.601	0.23
59_G	90_T	0.601	0.23
319_D	324_L	0.600	0.23
116_C	121_E	0.600	0.23
40_L	162_T	0.599	0.23
309_T	312_S	0.596	0.23
104_K	179_P	0.596	0.23
173_D	215_T	0.594	0.23
96_L	100_L	0.593	0.23
310_V	321_L	0.593	0.23
240_L	250_T	0.592	0.23
79_P	140_D	0.591	0.23
177_L	181_L	0.590	0.23
108_R	111_E	0.589	0.23
29_S	43_V	0.589	0.23
178_N	226_V	0.589	0.23
26_T	63_R	0.588	0.22
114_P	189_G	0.587	0.22
120_F	134_A	0.587	0.22
51_D	145_D	0.587	0.22
93_A	115_F	0.586	0.22
135_H	139_Y	0.585	0.22
164_V	238_H	0.585	0.22
167_P	274_R	0.584	0.22
113_D	159_L	0.583	0.22
306_N	315_D	0.583	0.22
139_Y	203_Y	0.582	0.22
121_E	274_R	0.580	0.22
18_I	181_L	0.580	0.22
191_F	205_H	0.578	0.22
15_K	185_W	0.577	0.22
98_S	106_K	0.572	0.22
312_S	318_P	0.571	0.22
27_P	84_R	0.568	0.22
311_R	328_I	0.567	0.21
56_D	140_D	0.566	0.21
251_P	317_D	0.565	0.21
58_G	137_S	0.565	0.21
51_D	138_L	0.564	0.21
146_L	324_L	0.564	0.21
5_L	10_K	0.562	0.21
99_Y	267_V	0.562	0.21
64_H	75_H	0.562	0.21
145_D	177_L	0.561	0.21
18_I	22_P	0.560	0.21
155_A	187_R	0.558	0.21
206_P	224_G	0.558	0.21
322_P	328_I	0.557	0.21
185_W	197_G	0.556	0.21
316_I	320_L	0.556	0.21
5_L	147_A	0.556	0.21
14_S	186_I	0.556	0.21
313_G	324_L	0.555	0.21
87_A	207_L	0.548	0.21
22_P	139_Y	0.547	0.21
33_A	56_D	0.546	0.20
143_P	215_T	0.544	0.20
127_A	244_T	0.544	0.20
49_P	298_S	0.544	0.20
93_A	97_R	0.543	0.20
149_A	152_R	0.542	0.20
79_P	306_N	0.541	0.20
4_A	15_K	0.541	0.20
287_T	291_K	0.539	0.20
3_Y	10_K	0.537	0.20
103_L	111_E	0.537	0.20
3_Y	209_N	0.535	0.20
124_D	319_D	0.533	0.20
134_A	219_I	0.533	0.20
193_F	200_G	0.533	0.20
141_I	197_G	0.532	0.20
144_E	267_V	0.531	0.20
239_H	322_P	0.531	0.20
40_L	56_D	0.529	0.20
9_Q	12_L	0.529	0.20
301_K	316_I	0.526	0.20
87_A	242_S	0.525	0.20
310_V	323_D	0.525	0.20
36_L	227_Y	0.525	0.20
216_T	244_T	0.523	0.19
155_A	220_V	0.523	0.19
311_R	319_D	0.523	0.19
31_P	307_G	0.523	0.19
123_C	272_V	0.523	0.19
194_Y	263_E	0.521	0.19
212_S	215_T	0.519	0.19
172_G	222_P	0.519	0.19
105_D	109_S	0.519	0.19
140_D	206_P	0.518	0.19
95_S	103_L	0.515	0.19
34_K	259_F	0.514	0.19
57_I	302_R	0.514	0.19
31_P	149_A	0.513	0.19
9_Q	217_S	0.513	0.19
190_K	255_D	0.512	0.19
84_R	136_D	0.512	0.19
26_T	131_Y	0.510	0.19
162_T	324_L	0.509	0.19
6_S	223_G	0.509	0.19
302_R	307_G	0.507	0.19
119_T	222_P	0.507	0.19
102_R	190_K	0.505	0.19
189_G	284_V	0.504	0.19
311_R	321_L	0.503	0.19
139_Y	302_R	0.503	0.19
37_E	238_H	0.502	0.19
97_R	159_L	0.502	0.19
3_Y	286_K	0.502	0.19
178_N	189_G	0.500	0.18
107_D	111_E	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
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
3hnrA	1	0.5382	18.5	0.96	Contact Map
2gsvA	3	0.2	11.7	0.963	Contact Map
1x93A	2	0.1176	8.6	0.966	Contact Map
2zkoA	2	0.0735	7.7	0.966	Contact Map
2lf0A	1	0.1441	7.4	0.967	Contact Map
3p9cA	2	0.6088	6.9	0.967	Contact Map
1zg3A	2	0.6206	6.8	0.967	Contact Map
2knjA	1	0.0882	5.6	0.968	Contact Map
3reoA	2	0.6294	5.3	0.969	Contact Map
3mczA	2	0.6412	5.2	0.969	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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