RLMN - BACSU - GREMLIN Contacts

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RLMN - Probable dual-specificity RNA methyltransferase RlmN

UniProt:	O34617	Sequences: MAELNKTKVRKELRTERPSIYSFELDEIKQWLTDNGEKPFRAAQIFEWLYEKRVSSFEDMTNLSKDLREKLNTRFVLTTLKTAVKQTSQDGTMKFLFELHDGYTIETVLMRHEYGNSVCVTTQVGCRIGCTFCASTLGGLKRNLEAGEIVAQVVKVQKALDETDERVSSVVIMGIGEPFDNFNEMLAFLKIINHDKGLNIGARHITVSTSGIIPKIYEFADQQMQINFAISLHAPNTEIRSRLMPINRAYKLPDLMEAVKYYINKTGRRISFEYGLFGGVNDQVEHAEELADLLEGVKCHVNLIPVNYVPERDYVRTPRDQIFAFEKTLKSRGVNVTIRREQGHDIDAACGQLRAKERQDETR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	363 (336)
Sequences:	3176 (1748)
Seq/√Len:	95.4

ECOLI - RLMN
BACSU - RLMN

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
236_N	289_E	4.143	1.00
217_Y	261_Y	3.648	1.00
215_K	218_E	3.578	1.00
81_K	98_E	3.095	1.00
237_T	253_P	3.067	1.00
58_E	72_N	3.026	1.00
27_E	187_A	2.947	1.00
241_S	247_N	2.919	1.00
32_L	45_I	2.913	1.00
95_F	159_A	2.907	1.00
131_T	314_Y	2.702	1.00
291_A	332_R	2.609	1.00
172_I	188_F	2.509	1.00
301_V	334_V	2.485	1.00
127_R	180_D	2.450	1.00
256_M	293_L	2.448	1.00
37_E	70_K	2.432	1.00
278_G	315_V	2.375	1.00
56_S	59_D	2.361	1.00
221_D	261_Y	2.359	1.00
327_K	331_S	2.346	1.00
29_K	39_P	2.326	1.00
284_V	328_T	2.299	1.00
283_Q	286_H	2.266	1.00
260_K	297_V	2.233	1.00
30_Q	34_D	2.218	1.00
185_M	207_V	2.146	1.00
120_V	149_I	2.134	1.00
239_I	286_H	2.127	1.00
189_L	207_V	2.048	1.00
221_D	265_K	2.033	1.00
69_E	73_T	2.014	1.00
276_L	317_T	1.991	1.00
31_W	75_F	1.987	1.00
288_E	328_T	1.986	1.00
86_Q	347_D	1.952	1.00
237_T	247_N	1.920	1.00
235_P	286_H	1.910	1.00
47_E	62_N	1.896	1.00
127_R	140_L	1.884	1.00
259_V	270_I	1.846	1.00
88_S	345_D	1.840	1.00
214_P	250_Y	1.824	1.00
85_K	159_A	1.809	1.00
284_V	321_Q	1.808	1.00
170_V	192_I	1.800	1.00
128_I	210_S	1.776	1.00
33_T	39_P	1.773	1.00
235_P	289_E	1.772	1.00
48_W	62_N	1.755	1.00
118_V	156_V	1.753	1.00
236_N	239_I	1.748	1.00
31_W	35_N	1.726	1.00
278_G	318_P	1.715	1.00
83_A	98_E	1.704	1.00
48_W	60_M	1.664	1.00
179_F	219_F	1.659	1.00
172_I	185_M	1.642	1.00
29_K	43_A	1.633	1.00
47_E	51_E	1.618	1.00
55_S	158_K	1.593	1.00
172_I	207_V	1.578	1.00
47_E	52_K	1.572	1.00
25_L	194_H	1.544	1.00
32_L	67_L	1.529	1.00
202_A	225_Q	1.525	1.00
24_E	27_E	1.524	1.00
43_A	196_K	1.517	1.00
180_D	212_I	1.505	1.00
85_K	93_M	1.501	1.00
241_S	248_R	1.475	1.00
70_K	74_R	1.458	1.00
237_T	241_S	1.439	1.00
257_E	261_Y	1.432	1.00
95_F	156_V	1.431	1.00
217_Y	257_E	1.430	1.00
21_Y	151_A	1.418	0.99
20_I	57_F	1.395	0.99
230_I	255_L	1.392	0.99
347_D	356_K	1.387	0.99
182_F	218_E	1.359	0.99
98_E	104_T	1.356	0.99
122_T	172_I	1.355	0.99
122_T	185_M	1.353	0.99
80_L	151_A	1.353	0.99
26_D	29_K	1.344	0.99
288_E	332_R	1.342	0.99
326_E	330_K	1.341	0.99
286_H	289_E	1.339	0.99
272_F	299_C	1.338	0.99
284_V	324_A	1.335	0.99
323_F	326_E	1.318	0.99
201_G	204_H	1.311	0.99
25_L	29_K	1.295	0.99
251_K	254_D	1.281	0.99
326_E	336_V	1.280	0.99
138_G	355_A	1.280	0.99
97_F	107_T	1.278	0.99
278_G	321_Q	1.271	0.99
19_S	22_S	1.264	0.99
153_V	192_I	1.258	0.99
97_F	155_K	1.250	0.99
63_L	68_R	1.249	0.99
135_S	175_I	1.232	0.99
67_L	70_K	1.231	0.99
260_K	296_G	1.221	0.98
318_P	321_Q	1.216	0.98
146_A	184_E	1.211	0.98
41_R	44_Q	1.208	0.98
252_L	293_L	1.203	0.98
190_K	224_M	1.199	0.98
179_F	207_V	1.198	0.98
272_F	294_L	1.196	0.98
35_N	70_K	1.194	0.98
319_R	323_F	1.190	0.98
65_K	69_E	1.188	0.98
80_L	97_F	1.187	0.98
236_N	286_H	1.187	0.98
235_P	239_I	1.185	0.98
69_E	72_N	1.182	0.98
37_E	41_R	1.179	0.98
212_I	215_K	1.177	0.98
109_L	116_N	1.170	0.98
79_T	151_A	1.168	0.98
276_L	322_I	1.168	0.98
328_T	332_R	1.159	0.98
193_N	205_I	1.151	0.98
32_L	42_A	1.145	0.98
217_Y	221_D	1.145	0.98
54_V	59_D	1.145	0.98
87_T	93_M	1.143	0.98
18_P	75_F	1.141	0.98
23_F	31_W	1.133	0.97
237_T	251_K	1.132	0.97
109_L	156_V	1.129	0.97
272_F	297_V	1.129	0.97
213_I	258_A	1.127	0.97
193_N	202_A	1.123	0.97
182_F	190_K	1.120	0.97
66_D	69_E	1.119	0.97
234_A	239_I	1.118	0.97
220_A	261_Y	1.117	0.97
24_E	187_A	1.116	0.97
294_L	301_V	1.111	0.97
182_F	186_L	1.109	0.97
37_E	67_L	1.108	0.97
50_Y	198_L	1.092	0.97
103_Y	141_K	1.091	0.97
99_L	105_I	1.091	0.97
279_G	321_Q	1.083	0.97
322_I	338_I	1.077	0.97
323_F	338_I	1.075	0.97
99_L	124_V	1.075	0.97
241_S	244_M	1.073	0.96
107_T	156_V	1.072	0.96
256_M	297_V	1.066	0.96
57_F	76_V	1.062	0.96
40_F	44_Q	1.054	0.96
101_D	142_R	1.053	0.96
53_R	157_Q	1.051	0.96
193_N	201_G	1.045	0.96
140_L	180_D	1.045	0.96
149_I	188_F	1.043	0.96
146_A	187_A	1.040	0.96
25_L	43_A	1.040	0.96
45_I	63_L	1.037	0.96
238_E	242_R	1.037	0.96
254_D	257_E	1.035	0.96
25_L	42_A	1.034	0.96
118_V	167_V	1.033	0.96
24_E	190_K	1.029	0.96
52_K	62_N	1.020	0.95
193_N	225_Q	1.019	0.95
261_Y	265_K	1.019	0.95
29_K	33_T	1.019	0.95
256_M	259_V	1.019	0.95
61_T	64_S	1.016	0.95
37_E	66_D	1.012	0.95
31_W	34_D	1.011	0.95
140_L	143_N	1.011	0.95
316_R	344_H	1.007	0.95
284_V	288_E	1.003	0.95
82_T	85_K	1.002	0.95
277_F	280_V	1.000	0.95
20_I	75_F	0.999	0.95
43_A	62_N	0.997	0.95
117_S	169_S	0.997	0.95
287_A	328_T	0.995	0.95
61_T	68_R	0.993	0.95
247_N	251_K	0.989	0.94
26_D	190_K	0.980	0.94
157_Q	198_L	0.976	0.94
150_V	191_I	0.975	0.94
137_L	311_E	0.971	0.94
294_L	334_V	0.970	0.94
329_L	336_V	0.965	0.94
253_P	293_L	0.963	0.94
230_I	259_V	0.956	0.93
219_F	226_I	0.953	0.93
57_F	77_L	0.948	0.93
256_M	260_K	0.946	0.93
227_N	268_R	0.945	0.93
324_A	327_K	0.941	0.93
287_A	325_F	0.933	0.93
172_I	189_L	0.932	0.93
308_Y	344_H	0.926	0.92
128_I	180_D	0.926	0.92
206_T	229_A	0.925	0.92
212_I	246_I	0.923	0.92
33_T	38_K	0.922	0.92
57_F	60_M	0.920	0.92
263_I	298_K	0.918	0.92
291_A	334_V	0.917	0.92
172_I	192_I	0.915	0.92
83_A	104_T	0.914	0.92
66_D	70_K	0.913	0.92
239_I	289_E	0.908	0.92
183_N	218_E	0.907	0.91
80_L	155_K	0.905	0.91
56_S	72_N	0.905	0.91
80_L	107_T	0.904	0.91
22_S	147_G	0.894	0.91
216_I	230_I	0.893	0.91
275_G	306_V	0.890	0.91
107_T	118_V	0.889	0.91
43_A	47_E	0.888	0.91
185_M	189_L	0.887	0.91
142_R	148_E	0.884	0.90
93_M	159_A	0.877	0.90
134_A	347_D	0.876	0.90
18_P	23_F	0.875	0.90
317_T	322_I	0.872	0.90
97_F	156_V	0.865	0.89
252_L	257_E	0.865	0.89
327_K	330_K	0.861	0.89
320_D	324_A	0.860	0.89
115_G	135_S	0.849	0.89
239_I	242_R	0.848	0.89
111_R	165_E	0.844	0.88
282_D	317_T	0.844	0.88
195_D	199_N	0.841	0.88
48_W	52_K	0.840	0.88
223_Q	265_K	0.839	0.88
252_L	256_M	0.839	0.88
138_G	354_R	0.838	0.88
30_Q	33_T	0.834	0.88
32_L	35_N	0.834	0.88
89_Q	345_D	0.829	0.87
96_L	354_R	0.828	0.87
210_S	244_M	0.824	0.87
84_V	357_E	0.824	0.87
21_Y	50_Y	0.823	0.87
79_T	158_K	0.819	0.87
115_G	342_Q	0.817	0.87
186_L	219_F	0.817	0.87
277_F	306_V	0.814	0.86
306_V	312_R	0.814	0.86
26_D	30_Q	0.811	0.86
128_I	246_I	0.810	0.86
308_Y	315_V	0.799	0.85
234_A	237_T	0.797	0.85
154_V	198_L	0.797	0.85
289_E	292_D	0.796	0.85
114_Y	169_S	0.792	0.85
305_P	341_E	0.790	0.85
50_Y	154_V	0.787	0.84
241_S	251_K	0.786	0.84
186_L	190_K	0.786	0.84
80_L	99_L	0.784	0.84
192_I	198_L	0.784	0.84
57_F	71_L	0.783	0.84
134_A	309_V	0.783	0.84
259_V	272_F	0.781	0.84
291_A	329_L	0.778	0.84
217_Y	258_A	0.778	0.84
48_W	54_V	0.771	0.83
22_S	145_E	0.771	0.83
170_V	200_I	0.771	0.83
54_V	60_M	0.764	0.83
155_K	158_K	0.762	0.83
170_V	205_I	0.761	0.82
45_I	57_F	0.757	0.82
18_P	31_W	0.755	0.82
190_K	223_Q	0.755	0.82
131_T	137_L	0.753	0.82
341_E	344_H	0.752	0.82
31_W	74_R	0.751	0.82
206_T	271_S	0.749	0.81
150_V	154_V	0.747	0.81
46_F	191_I	0.744	0.81
49_L	77_L	0.744	0.81
137_L	312_R	0.743	0.81
35_N	74_R	0.743	0.81
63_L	67_L	0.743	0.81
57_F	75_F	0.742	0.81
85_K	95_F	0.741	0.81
317_T	321_Q	0.739	0.81
111_R	116_N	0.737	0.80
321_Q	324_A	0.737	0.80
92_T	110_M	0.736	0.80
138_G	175_I	0.732	0.80
323_F	327_K	0.731	0.80
207_V	226_I	0.730	0.80
179_F	215_K	0.727	0.80
210_S	246_I	0.722	0.79
300_H	337_T	0.722	0.79
134_A	310_P	0.720	0.79
316_R	322_I	0.719	0.79
216_I	258_A	0.718	0.79
233_H	244_M	0.716	0.78
41_R	64_S	0.711	0.78
39_P	42_A	0.709	0.78
135_S	138_G	0.707	0.78
46_F	50_Y	0.705	0.77
330_K	336_V	0.705	0.77
38_K	64_S	0.704	0.77
38_K	41_R	0.703	0.77
80_L	105_I	0.696	0.76
218_E	221_D	0.695	0.76
292_D	332_R	0.693	0.76
150_V	192_I	0.693	0.76
114_Y	135_S	0.692	0.76
292_D	295_E	0.691	0.76
55_S	59_D	0.690	0.76
306_V	309_V	0.690	0.76
128_I	212_I	0.687	0.76
217_Y	254_D	0.684	0.75
157_Q	167_V	0.682	0.75
252_L	255_L	0.681	0.75
186_L	226_I	0.681	0.75
137_L	309_V	0.681	0.75
135_S	169_S	0.680	0.75
70_K	73_T	0.680	0.75
135_S	172_I	0.680	0.75
291_A	328_T	0.680	0.75
320_D	323_F	0.676	0.74
86_Q	356_K	0.675	0.74
117_S	168_S	0.666	0.73
127_R	139_G	0.666	0.73
295_E	332_R	0.664	0.73
188_F	192_I	0.664	0.73
27_E	30_Q	0.661	0.73
65_K	68_R	0.658	0.72
263_I	267_G	0.657	0.72
112_H	115_G	0.656	0.72
193_N	200_I	0.654	0.72
98_E	102_G	0.653	0.72
190_K	194_H	0.650	0.71
285_E	289_E	0.650	0.71
251_K	255_L	0.648	0.71
111_R	342_Q	0.647	0.71
246_I	250_Y	0.646	0.71
249_A	254_D	0.646	0.71
233_H	337_T	0.643	0.71
131_T	242_R	0.642	0.71
305_P	338_I	0.642	0.71
115_G	169_S	0.640	0.70
49_L	53_R	0.640	0.70
327_K	338_I	0.640	0.70
282_D	321_Q	0.638	0.70
60_M	63_L	0.637	0.70
45_I	67_L	0.636	0.70
311_E	354_R	0.635	0.70
41_R	67_L	0.635	0.70
116_N	165_E	0.634	0.70
20_I	49_L	0.632	0.69
285_E	288_E	0.632	0.69
134_A	354_R	0.631	0.69
129_G	136_T	0.630	0.69
220_A	258_A	0.629	0.69
213_I	254_D	0.629	0.69
253_P	257_E	0.627	0.69
137_L	140_L	0.627	0.69
178_P	185_M	0.626	0.69
135_S	188_F	0.623	0.68
153_V	167_V	0.623	0.68
234_A	289_E	0.622	0.68
187_A	191_I	0.622	0.68
82_T	97_F	0.621	0.68
235_P	274_Y	0.621	0.68
213_I	250_Y	0.621	0.68
324_A	328_T	0.621	0.68
151_A	155_K	0.620	0.68
242_R	280_V	0.620	0.68
68_R	72_N	0.619	0.68
120_V	172_I	0.619	0.68
273_E	302_N	0.618	0.68
117_S	171_V	0.616	0.67
153_V	157_Q	0.615	0.67
227_N	300_H	0.611	0.67
40_F	43_A	0.609	0.67
20_I	28_I	0.608	0.66
218_E	223_Q	0.605	0.66
239_I	280_V	0.605	0.66
82_T	155_K	0.604	0.66
269_R	300_H	0.604	0.66
37_E	64_S	0.603	0.66
123_Q	143_N	0.603	0.66
260_K	293_L	0.603	0.66
23_F	27_E	0.600	0.65
316_R	341_E	0.595	0.65
288_E	292_D	0.594	0.65
191_I	197_G	0.592	0.64
46_F	197_G	0.590	0.64
294_L	299_C	0.590	0.64
120_V	153_V	0.589	0.64
271_S	300_H	0.588	0.64
51_E	199_N	0.587	0.64
109_L	160_L	0.587	0.64
117_S	271_S	0.586	0.64
255_L	259_V	0.584	0.63
76_V	100_H	0.583	0.63
184_E	187_A	0.583	0.63
46_F	194_H	0.583	0.63
83_A	324_A	0.583	0.63
283_Q	287_A	0.582	0.63
124_V	141_K	0.582	0.63
305_P	322_I	0.582	0.63
112_H	342_Q	0.582	0.63
233_H	275_G	0.582	0.63
50_Y	150_V	0.580	0.63
261_Y	264_N	0.580	0.63
32_L	37_E	0.578	0.63
263_I	266_T	0.575	0.62
252_L	272_F	0.575	0.62
136_T	233_H	0.574	0.62
296_G	299_C	0.573	0.62
306_V	314_Y	0.573	0.62
20_I	77_L	0.573	0.62
305_P	316_R	0.573	0.62
131_T	243_L	0.571	0.62
53_R	158_K	0.570	0.61
115_G	175_I	0.570	0.61
31_W	57_F	0.568	0.61
283_Q	321_Q	0.568	0.61
157_Q	166_R	0.568	0.61
25_L	196_K	0.567	0.61
40_F	62_N	0.567	0.61
29_K	32_L	0.567	0.61
95_F	107_T	0.560	0.60
326_E	338_I	0.558	0.60
230_I	272_F	0.557	0.60
136_T	312_R	0.557	0.60
274_Y	349_A	0.554	0.59
260_K	264_N	0.551	0.59
153_V	200_I	0.549	0.59
95_F	109_L	0.549	0.59
92_T	346_I	0.549	0.59
49_L	57_F	0.548	0.58
25_L	46_F	0.548	0.58
91_G	111_R	0.547	0.58
117_S	172_I	0.546	0.58
26_D	31_W	0.542	0.58
300_H	335_N	0.542	0.58
160_L	167_V	0.542	0.58
233_H	317_T	0.541	0.57
38_K	44_Q	0.541	0.57
235_P	293_L	0.541	0.57
50_Y	78_T	0.541	0.57
35_N	75_F	0.536	0.57
60_M	68_R	0.536	0.57
44_Q	48_W	0.535	0.57
112_H	300_H	0.534	0.57
238_E	292_D	0.533	0.56
310_P	356_K	0.532	0.56
276_L	338_I	0.530	0.56
135_S	354_R	0.530	0.56
322_I	326_E	0.528	0.56
215_K	255_L	0.527	0.56
129_G	137_L	0.526	0.55
44_Q	62_N	0.524	0.55
277_F	317_T	0.524	0.55
109_L	167_V	0.523	0.55
136_T	175_I	0.521	0.55
295_E	334_V	0.520	0.55
115_G	229_A	0.519	0.54
307_N	352_Q	0.519	0.54
78_T	151_A	0.517	0.54
325_F	348_A	0.517	0.54
189_L	270_I	0.516	0.54
267_G	298_K	0.516	0.54
58_E	65_K	0.516	0.54
288_E	331_S	0.515	0.54
234_A	287_A	0.515	0.54
244_M	275_G	0.514	0.54
277_F	314_Y	0.514	0.54
310_P	313_D	0.513	0.54
91_G	269_R	0.512	0.53
21_Y	49_L	0.512	0.53
44_Q	68_R	0.511	0.53
237_T	252_L	0.509	0.53
78_T	81_K	0.508	0.53
294_L	297_V	0.506	0.53
115_G	341_E	0.506	0.53
114_Y	188_F	0.505	0.52
23_F	283_Q	0.505	0.52
184_E	188_F	0.504	0.52
243_L	277_F	0.502	0.52
82_T	159_A	0.502	0.52
138_G	348_A	0.501	0.52
35_N	69_E	0.501	0.52
134_A	137_L	0.501	0.52
48_W	271_S	0.500	0.52
179_F	216_I	0.500	0.52

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
3rfaA	1	0.9504	100	0.385	Contact Map
2z2uA	1	0.6832	100	0.714	Contact Map
2yx0A	1	0.7824	100	0.717	Contact Map
2a5hA	4	0.8815	100	0.788	Contact Map
4r33A	2	0.832	99.9	0.82	Contact Map
3c8fA	1	0.6171	99.9	0.823	Contact Map
4wcxA	1	0.8567	99.9	0.825	Contact Map
4rtbA	2	0.8072	99.9	0.829	Contact Map
3iixA	1	0.7658	99.9	0.844	Contact Map
3t7vA	1	0.7548	99.9	0.844	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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