TRM1 - HALSA - GREMLIN Contacts

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TRM1 - tRNA (guanine(26)-N(2))-dimethyltransferase

UniProt:	P57705	Sequences: MDVSEGGVTVSVPTASGGGEGAADDVFFNATQELNRDLTVATLAAFREREPRAASYLDAMTASGIRGVRAANAGWDVTMADVDADAVELATSNLARNGLDGEVVARDANSLLHDHDRVLDVVDIDPFGSPMPFADAAFANARNLVCVTATDTAPLCGAHFESGVRKYSATPRNTNYHAEMGLRILLGALARTAARYDVGVTPILSHVSDHYVRTYLELDHRATDANAAVEQVGHVYHCQQCLSRDHEYGLVAAPRAECPRCGGHQVLTAGPLWLGPAHEEAFAASVREQLTREMGEASQAFHLLQTIEGELHEPTHYDQHRLYSQWGEPAVGMAEFLDQLRDAGLRASRTHFGGTTFKTDGGLAEVEAAVL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	371 (348)
Sequences:	680 (511)
Seq/√Len:	27.4

HALSA - TRM1
SULSO - TRM1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
233_G	274_L	5.629	1.00
201_T	279_E	5.010	1.00
346_R	360_D	4.801	1.00
238_C	241_C	4.480	1.00
241_C	258_C	4.348	1.00
67_G	79_M	4.138	1.00
238_C	261_C	4.060	1.00
39_T	70_A	3.548	1.00
238_C	258_C	3.495	1.00
88_E	91_T	3.476	1.00
201_T	217_E	3.298	1.00
345_L	362_G	3.096	1.00
169_A	184_I	3.016	1.00
121_V	146_C	3.010	1.00
130_P	149_A	2.881	1.00
78_T	119_L	2.854	1.00
283_A	304_L	2.844	1.00
61_T	67_G	2.700	1.00
189_L	216_L	2.608	0.99
258_C	261_C	2.586	0.99
241_C	261_C	2.538	0.99
42_T	286_V	2.384	0.99
42_T	282_F	2.371	0.99
61_T	79_M	2.367	0.99
350_T	356_T	2.309	0.98
201_T	219_D	2.227	0.98
190_A	273_W	2.178	0.98
162_S	166_K	2.157	0.98
188_A	192_T	2.138	0.97
186_L	216_L	2.115	0.97
362_G	365_E	2.055	0.97
111_L	119_L	2.023	0.96
92_S	95_A	1.967	0.96
203_I	282_F	1.953	0.96
181_G	185_L	1.923	0.95
112_L	140_N	1.915	0.95
59_A	108_A	1.914	0.95
224_D	227_A	1.878	0.94
134_A	188_A	1.870	0.94
41_A	290_L	1.869	0.94
283_A	307_I	1.851	0.94
134_A	189_L	1.850	0.94
112_L	137_A	1.837	0.94
32_Q	35_N	1.829	0.94
121_V	144_L	1.825	0.94
187_G	232_V	1.816	0.93
357_F	366_V	1.786	0.93
291_T	301_F	1.781	0.93
113_H	136_A	1.769	0.92
181_G	212_V	1.759	0.92
57_L	112_L	1.752	0.92
154_P	159_H	1.749	0.92
169_A	187_G	1.715	0.91
66_R	213_R	1.710	0.91
33_E	295_G	1.706	0.91
129_S	259_P	1.700	0.91
135_D	196_Y	1.679	0.90
192_T	195_R	1.676	0.90
95_A	100_D	1.674	0.90
200_V	218_L	1.671	0.90
284_A	308_E	1.638	0.89
138_F	145_V	1.633	0.89
185_L	222_A	1.610	0.88
142_R	219_D	1.607	0.88
56_Y	70_A	1.604	0.88
281_A	285_S	1.582	0.87
149_A	185_L	1.565	0.87
56_Y	74_G	1.556	0.86
176_Y	237_H	1.544	0.86
186_L	200_V	1.540	0.86
66_R	69_R	1.540	0.86
190_A	200_V	1.535	0.86
135_D	195_R	1.530	0.86
205_S	214_T	1.518	0.85
316_H	352_F	1.517	0.85
190_A	194_A	1.501	0.84
163_G	184_I	1.480	0.84
41_A	286_V	1.462	0.83
194_A	228_A	1.460	0.83
319_Q	355_T	1.456	0.83
109_N	113_H	1.449	0.82
102_E	105_A	1.432	0.81
236_Y	254_P	1.415	0.81
27_F	37_D	1.398	0.80
29_N	35_N	1.395	0.80
156_C	177_H	1.387	0.79
126_P	211_Y	1.386	0.79
345_L	360_D	1.386	0.79
199_G	228_A	1.381	0.79
43_L	146_C	1.367	0.78
153_A	159_H	1.349	0.77
39_T	146_C	1.346	0.77
337_L	347_A	1.345	0.77
185_L	212_V	1.327	0.76
185_L	214_T	1.319	0.76
35_N	211_Y	1.318	0.76
163_G	171_P	1.307	0.75
206_H	215_Y	1.301	0.75
46_F	144_L	1.299	0.75
37_D	69_R	1.271	0.73
186_L	202_P	1.259	0.72
113_H	139_A	1.257	0.72
123_D	213_R	1.249	0.72
122_V	140_N	1.248	0.72
200_V	216_L	1.241	0.71
152_T	212_V	1.233	0.71
209_D	299_Q	1.221	0.70
345_L	361_G	1.220	0.70
27_F	69_R	1.214	0.69
147_V	189_L	1.214	0.69
80_A	90_A	1.211	0.69
344_G	361_G	1.211	0.69
42_T	45_A	1.192	0.68
33_E	296_E	1.191	0.68
58_D	349_R	1.187	0.68
66_R	123_D	1.186	0.68
190_A	228_A	1.175	0.67
28_F	63_S	1.167	0.66
165_R	225_A	1.163	0.66
288_E	292_R	1.160	0.66
35_N	39_T	1.149	0.65
200_V	338_D	1.144	0.65
337_L	367_E	1.143	0.65
255_R	266_V	1.138	0.64
319_Q	336_F	1.122	0.63
214_T	268_T	1.117	0.63
70_A	121_V	1.113	0.63
84_A	122_V	1.109	0.62
222_A	226_N	1.104	0.62
43_L	121_V	1.100	0.62
69_R	123_D	1.099	0.62
70_A	146_C	1.092	0.61
44_A	122_V	1.090	0.61
76_D	102_E	1.087	0.61
97_N	211_Y	1.087	0.61
45_A	286_V	1.084	0.60
342_D	365_E	1.080	0.60
237_H	242_L	1.080	0.60
98_G	182_L	1.068	0.59
338_D	341_R	1.067	0.59
325_Q	367_E	1.067	0.59
137_A	145_V	1.061	0.59
345_L	365_E	1.058	0.59
278_H	307_I	1.055	0.58
99_L	103_V	1.051	0.58
190_A	275_G	1.049	0.58
182_L	205_S	1.039	0.57
313_E	360_D	1.037	0.57
57_L	111_L	1.035	0.57
99_L	102_E	1.030	0.56
310_E	358_K	1.023	0.56
68_V	72_N	1.023	0.56
301_F	305_Q	1.022	0.56
152_T	181_G	1.016	0.55
38_L	204_L	1.015	0.55
47_R	285_S	1.015	0.55
153_A	158_A	1.015	0.55
141_A	145_V	1.005	0.55
60_M	108_A	1.004	0.55
42_T	46_F	1.004	0.55
326_W	367_E	1.004	0.55
29_N	126_P	1.004	0.55
159_H	162_S	1.003	0.54
69_R	213_R	0.999	0.54
65_I	302_H	0.992	0.54
138_F	141_A	0.990	0.53
278_H	358_K	0.988	0.53
328_E	331_V	0.987	0.53
37_D	66_R	0.986	0.53
324_S	329_P	0.979	0.53
170_T	229_V	0.978	0.53
110_S	114_D	0.978	0.53
154_P	163_G	0.978	0.53
187_G	191_R	0.976	0.52
129_S	132_P	0.975	0.52
206_H	307_I	0.965	0.52
27_F	36_R	0.965	0.52
138_F	193_A	0.961	0.51
240_Q	263_G	0.958	0.51
26_V	86_A	0.957	0.51
153_A	185_L	0.945	0.50
90_A	358_K	0.945	0.50
320_H	355_T	0.943	0.50
272_L	307_I	0.941	0.50
341_R	347_A	0.940	0.50
110_S	113_H	0.937	0.49
130_P	232_V	0.936	0.49
87_V	103_V	0.935	0.49
280_E	312_H	0.934	0.49
86_A	126_P	0.931	0.49
205_S	278_H	0.927	0.49
88_E	345_L	0.923	0.48
339_Q	369_A	0.922	0.48
27_F	66_R	0.920	0.48
138_F	198_V	0.920	0.48
235_V	269_A	0.918	0.48
85_D	88_E	0.918	0.48
279_E	339_Q	0.912	0.48
61_T	90_A	0.910	0.47
108_A	112_L	0.910	0.47
35_N	148_T	0.910	0.47
303_L	307_I	0.904	0.47
343_A	365_E	0.893	0.46
144_L	358_K	0.892	0.46
67_G	133_F	0.888	0.46
85_D	360_D	0.888	0.46
194_A	275_G	0.887	0.46
58_D	68_V	0.884	0.45
182_L	304_L	0.883	0.45
88_E	92_S	0.882	0.45
60_M	133_F	0.877	0.45
95_A	217_E	0.872	0.45
161_E	226_N	0.871	0.44
190_A	216_L	0.870	0.44
35_N	62_A	0.869	0.44
69_R	73_A	0.868	0.44
120_D	146_C	0.865	0.44
149_A	165_R	0.860	0.44
27_F	123_D	0.858	0.43
281_A	284_A	0.857	0.43
72_N	99_L	0.857	0.43
63_S	329_P	0.856	0.43
79_M	122_V	0.851	0.43
38_L	74_G	0.851	0.43
284_A	288_E	0.848	0.43
106_R	111_L	0.844	0.42
161_E	196_Y	0.844	0.42
29_N	32_Q	0.841	0.42
172_R	269_A	0.840	0.42
97_N	126_P	0.838	0.42
33_E	297_A	0.838	0.42
273_W	343_A	0.834	0.42
178_A	207_V	0.832	0.42
31_T	112_L	0.831	0.41
59_A	112_L	0.829	0.41
250_L	253_A	0.825	0.41
123_D	150_T	0.825	0.41
143_N	151_D	0.822	0.41
243_S	266_V	0.817	0.40
34_L	296_E	0.813	0.40
348_S	351_H	0.813	0.40
319_Q	357_F	0.810	0.40
100_D	360_D	0.805	0.40
210_H	342_D	0.803	0.39
189_L	192_T	0.800	0.39
43_L	56_Y	0.796	0.39
32_Q	211_Y	0.790	0.38
333_M	349_R	0.786	0.38
211_Y	215_Y	0.783	0.38
171_P	184_I	0.783	0.38
339_Q	342_D	0.781	0.38
98_G	304_L	0.781	0.38
320_H	324_S	0.777	0.38
155_L	185_L	0.769	0.37
184_I	212_V	0.766	0.37
340_L	361_G	0.766	0.37
77_V	141_A	0.766	0.37
32_Q	302_H	0.766	0.37
287_R	305_Q	0.761	0.36
127_F	187_G	0.757	0.36
32_Q	210_H	0.756	0.36
130_P	169_A	0.756	0.36
129_S	250_L	0.746	0.35
39_T	154_P	0.742	0.35
340_L	369_A	0.739	0.35
258_C	262_G	0.738	0.35
276_P	362_G	0.736	0.35
63_S	157_G	0.735	0.35
301_F	347_A	0.735	0.35
42_T	134_A	0.734	0.35
141_A	218_L	0.731	0.34
124_I	140_N	0.731	0.34
298_S	301_F	0.729	0.34
262_G	266_V	0.729	0.34
343_A	368_A	0.728	0.34
148_T	167_Y	0.728	0.34
149_A	163_G	0.728	0.34
163_G	330_A	0.726	0.34
186_L	190_A	0.722	0.34
278_H	283_A	0.721	0.34
35_N	126_P	0.721	0.34
208_S	216_L	0.720	0.34
144_L	276_P	0.718	0.33
77_V	94_L	0.717	0.33
29_N	86_A	0.717	0.33
134_A	192_T	0.716	0.33
210_H	302_H	0.711	0.33
132_P	136_A	0.710	0.33
31_T	209_D	0.710	0.33
55_S	279_E	0.709	0.33
190_A	232_V	0.709	0.33
190_A	199_G	0.706	0.33
83_D	250_L	0.704	0.33
23_A	322_L	0.704	0.33
63_S	83_D	0.704	0.33
27_F	128_G	0.702	0.32
112_L	119_L	0.702	0.32
134_A	214_T	0.702	0.32
158_A	175_N	0.701	0.32
298_S	334_A	0.700	0.32
94_L	124_I	0.700	0.32
239_Q	265_Q	0.697	0.32
342_D	362_G	0.690	0.32
50_E	122_V	0.689	0.32
163_G	169_A	0.689	0.32
97_N	282_F	0.686	0.31
231_Q	333_M	0.686	0.31
287_R	362_G	0.686	0.31
310_E	348_S	0.685	0.31
322_L	336_F	0.683	0.31
319_Q	354_G	0.682	0.31
243_S	363_L	0.680	0.31
334_A	349_R	0.679	0.31
26_V	133_F	0.678	0.31
27_F	213_R	0.677	0.31
155_L	310_E	0.676	0.31
87_V	323_Y	0.676	0.31
135_D	192_T	0.674	0.31
132_P	148_T	0.673	0.30
91_T	265_Q	0.672	0.30
321_R	325_Q	0.671	0.30
186_L	189_L	0.670	0.30
29_N	211_Y	0.670	0.30
272_L	315_T	0.669	0.30
122_V	357_F	0.669	0.30
37_D	213_R	0.666	0.30
81_D	108_A	0.666	0.30
345_L	359_T	0.665	0.30
81_D	86_A	0.665	0.30
95_A	116_D	0.665	0.30
103_V	348_S	0.664	0.30
84_A	103_V	0.664	0.30
151_D	179_E	0.663	0.30
178_A	316_H	0.662	0.30
176_Y	322_L	0.660	0.30
276_P	360_D	0.659	0.30
43_L	332_G	0.659	0.30
29_N	97_N	0.658	0.30
147_V	195_R	0.658	0.30
54_A	75_W	0.657	0.29
74_G	121_V	0.654	0.29
152_T	185_L	0.652	0.29
236_Y	253_A	0.652	0.29
66_R	73_A	0.650	0.29
123_D	157_G	0.650	0.29
360_D	364_A	0.650	0.29
144_L	148_T	0.647	0.29
66_R	125_D	0.646	0.29
85_D	186_L	0.645	0.29
31_T	68_V	0.645	0.29
323_Y	331_V	0.644	0.29
87_V	90_A	0.642	0.29
29_N	36_R	0.642	0.29
31_T	67_G	0.641	0.28
187_G	356_T	0.641	0.28
336_F	339_Q	0.640	0.28
299_Q	302_H	0.640	0.28
63_S	120_D	0.640	0.28
251_V	254_P	0.640	0.28
313_E	346_R	0.639	0.28
100_D	306_T	0.636	0.28
62_A	66_R	0.635	0.28
333_M	347_A	0.632	0.28
157_G	235_V	0.632	0.28
203_I	358_K	0.631	0.28
130_P	164_V	0.631	0.28
163_G	310_E	0.631	0.28
56_Y	107_D	0.630	0.28
69_R	128_G	0.628	0.28
46_F	369_A	0.628	0.28
165_R	313_E	0.628	0.28
287_R	301_F	0.627	0.28
296_E	299_Q	0.626	0.28
317_Y	363_L	0.626	0.28
152_T	242_L	0.623	0.27
200_V	205_S	0.622	0.27
156_C	160_F	0.620	0.27
33_E	40_V	0.619	0.27
58_D	74_G	0.618	0.27
129_S	245_D	0.617	0.27
58_D	155_L	0.615	0.27
164_V	170_T	0.614	0.27
125_D	151_D	0.614	0.27
21_G	25_D	0.614	0.27
351_H	357_F	0.613	0.27
147_V	221_R	0.612	0.27
190_A	233_G	0.609	0.27
90_A	347_A	0.609	0.27
163_G	347_A	0.608	0.26
92_S	220_H	0.608	0.26
56_Y	178_A	0.606	0.26
32_Q	39_T	0.606	0.26
124_I	364_A	0.605	0.26
131_M	279_E	0.604	0.26
156_C	318_D	0.603	0.26
173_N	177_H	0.602	0.26
293_E	306_T	0.602	0.26
147_V	286_V	0.602	0.26
74_G	331_V	0.601	0.26
129_S	166_K	0.600	0.26
282_F	286_V	0.600	0.26
130_P	165_R	0.599	0.26
160_F	164_V	0.599	0.26
125_D	213_R	0.598	0.26
47_R	91_T	0.597	0.26
245_D	250_L	0.597	0.26
293_E	298_S	0.596	0.26
127_F	132_P	0.592	0.26
37_D	123_D	0.591	0.25
269_A	283_A	0.591	0.25
130_P	320_H	0.591	0.25
105_A	189_L	0.590	0.25
46_F	217_E	0.589	0.25
123_D	202_P	0.588	0.25
67_G	318_D	0.587	0.25
39_T	211_Y	0.587	0.25
341_R	365_E	0.587	0.25
70_A	144_L	0.586	0.25
137_A	147_V	0.585	0.25
92_S	293_E	0.583	0.25
66_R	81_D	0.581	0.25
141_A	355_T	0.580	0.25
74_G	77_V	0.579	0.25
19_G	366_V	0.579	0.25
70_A	197_D	0.578	0.25
217_E	343_A	0.578	0.25
125_D	157_G	0.574	0.25
109_N	366_V	0.574	0.25
351_H	358_K	0.573	0.24
55_S	369_A	0.572	0.24
192_T	220_H	0.571	0.24
189_L	214_T	0.564	0.24
32_Q	43_L	0.564	0.24
80_A	104_V	0.564	0.24
32_Q	127_F	0.563	0.24
87_V	107_D	0.563	0.24
168_S	182_L	0.563	0.24
130_P	206_H	0.560	0.24
62_A	195_R	0.560	0.24
184_I	317_Y	0.559	0.24
55_S	182_L	0.559	0.24
99_L	369_A	0.559	0.24
269_A	365_E	0.559	0.24
69_R	202_P	0.556	0.24
148_T	211_Y	0.556	0.24
123_D	128_G	0.555	0.23
92_S	96_R	0.555	0.23
125_D	150_T	0.553	0.23
199_G	219_D	0.551	0.23
114_D	134_A	0.551	0.23
236_Y	261_C	0.551	0.23
167_Y	179_E	0.548	0.23
165_R	365_E	0.547	0.23
137_A	271_P	0.547	0.23
260_R	304_L	0.545	0.23
45_A	283_A	0.544	0.23
163_G	177_H	0.543	0.23
277_A	308_E	0.542	0.23
78_T	111_L	0.539	0.23
243_S	261_C	0.538	0.23
186_L	203_I	0.538	0.23
133_F	139_A	0.537	0.22
171_P	176_Y	0.537	0.22
58_D	77_V	0.535	0.22
62_A	186_L	0.533	0.22
72_N	357_F	0.533	0.22
130_P	188_A	0.533	0.22
156_C	319_Q	0.532	0.22
83_D	353_G	0.532	0.22
84_A	292_R	0.531	0.22
135_D	361_G	0.530	0.22
61_T	73_A	0.530	0.22
94_L	279_E	0.529	0.22
25_D	170_T	0.529	0.22
278_H	296_E	0.527	0.22
114_D	189_L	0.527	0.22
128_G	150_T	0.527	0.22
56_Y	163_G	0.526	0.22
135_D	147_V	0.526	0.22
197_D	350_T	0.525	0.22
318_D	355_T	0.524	0.22
233_G	275_G	0.524	0.22
230_E	332_G	0.524	0.22
109_N	131_M	0.523	0.22
347_A	358_K	0.522	0.22
117_R	277_A	0.522	0.22
306_T	341_R	0.522	0.22
56_Y	143_N	0.521	0.22
21_G	24_D	0.521	0.22
285_S	291_T	0.521	0.22
267_L	294_M	0.520	0.22
218_L	281_A	0.519	0.22
146_C	215_Y	0.518	0.22
338_D	350_T	0.517	0.21
214_T	300_A	0.516	0.21
27_F	125_D	0.515	0.21
143_N	163_G	0.510	0.21
69_R	125_D	0.510	0.21
27_F	73_A	0.510	0.21
99_L	326_W	0.509	0.21
62_A	65_I	0.508	0.21
62_A	107_D	0.508	0.21
200_V	269_A	0.508	0.21
334_A	360_D	0.508	0.21
40_V	73_A	0.507	0.21
79_M	204_L	0.507	0.21
158_A	177_H	0.506	0.21
178_A	221_R	0.506	0.21
231_Q	275_G	0.506	0.21
172_R	323_Y	0.505	0.21
66_R	202_P	0.505	0.21
69_R	310_E	0.505	0.21
273_W	290_L	0.504	0.21
234_H	336_F	0.503	0.21
199_G	203_I	0.503	0.21
73_A	123_D	0.503	0.21
60_M	129_S	0.503	0.21
208_S	303_L	0.502	0.21
120_D	144_L	0.502	0.21
191_R	224_D	0.501	0.21
124_I	366_V	0.500	0.21
57_L	217_E	0.500	0.21

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
2dulA	2	0.9272	100	0.341	Contact Map
3axsA	2	0.9784	100	0.395	Contact Map
3k6rA	1	0.4987	98.8	0.915	Contact Map
2yx1A	2	0.4825	98.8	0.915	Contact Map
2igtA	4	0.5229	98.8	0.915	Contact Map
3c0kA	2	0.4825	98.7	0.918	Contact Map
3v97A	1	0.4852	98.7	0.919	Contact Map
1wxxA	2	0.5256	98.6	0.919	Contact Map
3bt7A	1	0.4852	98.6	0.92	Contact Map
3vseA	1	0.5418	98.6	0.921	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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