McrBC - PFAM28P - GREMLIN Contacts

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McrBC - McrBC 5-methylcytosine restriction system component

PFAM:	PF10117	Sequences: LKAGNYVGVIQLGDGTTIEILPKIDKDNDEKEEARKFLLYMLSYAKDLPFKEFDLASLETEDDNLLELLAALFLKELERLLRRGLYREYVRREENLSFLRGRIDISRQIRRNLGRKGRFACRYDEFSEDNPENRILKAALELLLRLTRSPENRRRLRRLLLAFDEVSDIRISAADFSRIRLNRLNAHYRPLLELCRLILEGLSPTTSSGDEKLFAFLFDMNRLFEKFVARFLRKKLPPGLKVKAQGSRKYLLDEDGKGLFRLRPDIVLRKDGEKVLIIDTKYKRLDTQKYDKYGISSADLYQMFAYAKNYGAKKGVLLYP	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	320 (311)
Sequences:	7282 (5889)
Seq/√Len:	333.9
META:	0.793

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
228_V	280_T	4.389	1.00
93_E	122_R	4.270	1.00
129_D	167_S	3.993	1.00
283_K	299_D	3.506	1.00
104_D	107_R	3.411	1.00
141_E	168_D	3.205	1.00
96_L	121_C	3.204	1.00
104_D	122_R	3.188	1.00
229_A	244_A	2.958	1.00
181_L	192_L	2.739	1.00
90_V	127_S	2.635	1.00
78_E	155_R	2.619	1.00
95_N	120_A	2.576	1.00
93_E	104_D	2.530	1.00
307_A	315_G	2.476	1.00
95_N	112_N	2.359	1.00
99_L	103_I	2.343	1.00
136_L	191_L	2.292	1.00
186_A	189_R	2.285	1.00
129_D	134_R	2.285	1.00
196_R	200_E	2.281	1.00
138_A	168_D	2.246	1.00
139_A	195_C	2.237	1.00
94_E	123_Y	2.145	1.00
137_K	141_E	2.136	1.00
99_L	119_F	2.132	1.00
76_E	191_L	2.117	1.00
304_F	308_K	2.102	1.00
230_R	233_R	2.070	1.00
297_S	301_Y	2.048	1.00
91_R	122_R	2.034	1.00
278_I	318_L	2.010	1.00
107_R	111_R	1.979	1.00
182_N	185_N	1.950	1.00
266_I	280_T	1.930	1.00
20_I	217_L	1.911	1.00
283_K	287_T	1.893	1.00
189_R	193_E	1.867	1.00
86_Y	130_N	1.862	1.00
108_Q	120_A	1.859	1.00
191_L	195_C	1.854	1.00
283_K	286_D	1.851	1.00
102_R	122_R	1.835	1.00
141_E	160_L	1.834	1.00
107_R	110_R	1.790	1.00
140_L	156_L	1.786	1.00
149_S	153_R	1.774	1.00
80_L	187_H	1.763	1.00
144_L	157_R	1.732	1.00
242_V	245_Q	1.731	1.00
229_A	280_T	1.729	1.00
74_L	156_L	1.707	1.00
229_A	266_I	1.650	1.00
73_F	77_L	1.649	1.00
93_E	107_R	1.648	1.00
237_P	240_L	1.643	1.00
73_F	195_C	1.629	1.00
137_K	168_D	1.619	1.00
103_I	119_F	1.606	1.00
149_S	152_N	1.592	1.00
296_S	299_D	1.578	1.00
266_I	278_I	1.575	1.00
5_N	221_N	1.573	1.00
142_L	199_L	1.572	1.00
143_L	156_L	1.570	1.00
77_L	136_L	1.562	1.00
77_L	140_L	1.551	1.00
136_L	195_C	1.548	1.00
227_F	231_F	1.529	1.00
140_L	159_L	1.528	1.00
262_L	301_Y	1.514	1.00
76_E	190_P	1.471	1.00
83_R	187_H	1.469	1.00
88_E	130_N	1.459	1.00
134_R	169_I	1.455	1.00
172_S	175_D	1.449	1.00
181_L	189_R	1.439	1.00
87_R	128_E	1.437	1.00
171_I	199_L	1.428	1.00
93_E	120_A	1.404	1.00
222_R	226_K	1.401	1.00
104_D	120_A	1.399	1.00
219_D	222_R	1.390	1.00
137_K	160_L	1.362	1.00
106_S	110_R	1.360	1.00
70_A	143_L	1.359	1.00
80_L	191_L	1.346	1.00
96_L	123_Y	1.342	1.00
64_N	67_E	1.341	1.00
303_M	307_A	1.329	1.00
303_M	315_G	1.326	1.00
177_S	196_R	1.325	1.00
108_Q	112_N	1.320	1.00
108_Q	119_F	1.314	1.00
71_A	155_R	1.313	1.00
142_L	146_L	1.292	1.00
86_Y	185_N	1.280	1.00
277_I	310_Y	1.277	1.00
241_K	269_R	1.263	1.00
269_R	272_G	1.258	1.00
71_A	75_K	1.241	1.00
139_A	199_L	1.240	1.00
245_Q	263_R	1.237	1.00
244_A	247_S	1.234	1.00
91_R	124_D	1.225	1.00
243_K	246_G	1.208	1.00
280_T	318_L	1.201	1.00
138_A	199_L	1.193	1.00
241_K	244_A	1.189	1.00
240_L	244_A	1.187	1.00
128_E	165_E	1.181	1.00
135_I	192_L	1.176	1.00
135_I	176_F	1.170	1.00
243_K	269_R	1.161	1.00
247_S	263_R	1.159	1.00
301_Y	305_A	1.157	1.00
134_R	167_S	1.149	1.00
7_V	220_M	1.148	1.00
298_A	301_Y	1.147	1.00
174_A	178_R	1.146	1.00
95_N	108_Q	1.137	1.00
283_K	288_Q	1.136	1.00
132_E	185_N	1.131	1.00
312_A	315_G	1.130	1.00
74_L	159_L	1.121	1.00
181_L	185_N	1.116	1.00
142_L	201_G	1.103	1.00
139_A	143_L	1.103	1.00
112_N	120_A	1.090	1.00
226_K	229_A	1.079	1.00
80_L	188_Y	1.075	1.00
95_N	118_R	1.073	1.00
220_M	282_Y	1.068	1.00
107_R	120_A	1.068	1.00
236_L	242_V	1.067	1.00
140_L	160_L	1.066	1.00
139_A	198_I	1.063	1.00
225_E	245_Q	1.061	1.00
92_R	125_E	1.061	1.00
11_Q	17_T	1.054	1.00
240_L	243_K	1.048	1.00
173_A	200_E	1.038	1.00
193_E	196_R	1.030	1.00
37_F	41_M	1.027	1.00
260_F	297_S	1.026	1.00
238_P	242_V	1.022	1.00
304_F	309_N	1.019	1.00
138_A	142_L	1.010	1.00
205_T	209_G	1.007	1.00
73_F	140_L	0.998	1.00
305_A	308_K	0.998	1.00
77_L	191_L	0.995	1.00
132_E	179_I	0.992	1.00
251_L	254_E	0.984	1.00
40_Y	43_S	0.984	1.00
19_E	35_R	0.984	1.00
74_L	78_E	0.983	1.00
237_P	242_V	0.980	1.00
74_L	155_R	0.974	1.00
236_L	239_G	0.972	1.00
130_N	133_N	0.971	1.00
247_S	250_Y	0.970	1.00
269_R	275_V	0.968	1.00
143_L	198_I	0.967	1.00
262_L	309_N	0.962	1.00
141_E	145_R	0.961	1.00
302_Q	306_Y	0.961	1.00
241_K	245_Q	0.960	1.00
224_F	280_T	0.958	1.00
86_Y	132_E	0.957	1.00
47_D	230_R	0.956	1.00
239_G	242_V	0.949	1.00
229_A	233_R	0.946	1.00
295_I	300_L	0.946	1.00
75_K	155_R	0.935	1.00
173_A	177_S	0.924	1.00
41_M	45_A	0.920	1.00
56_A	59_E	0.920	1.00
95_N	111_R	0.907	1.00
157_R	160_L	0.907	1.00
29_D	38_L	0.904	1.00
246_G	249_K	0.902	1.00
89_Y	126_F	0.902	1.00
264_P	267_V	0.901	1.00
57_S	60_T	0.895	1.00
132_E	192_L	0.895	1.00
249_K	252_L	0.889	1.00
144_L	160_L	0.885	1.00
46_K	49_P	0.883	1.00
58_L	63_D	0.883	1.00
278_I	316_V	0.881	1.00
105_I	109_I	0.879	1.00
254_E	259_L	0.873	1.00
276_L	316_V	0.872	1.00
57_S	62_D	0.871	1.00
40_Y	227_F	0.871	1.00
270_K	275_V	0.865	1.00
140_L	143_L	0.858	1.00
86_Y	188_Y	0.857	1.00
291_D	294_G	0.857	1.00
58_L	62_D	0.856	1.00
240_L	246_G	0.855	1.00
74_L	140_L	0.852	1.00
260_F	300_L	0.851	1.00
115_R	118_R	0.845	1.00
48_L	51_K	0.845	1.00
169_I	175_D	0.841	1.00
252_L	255_D	0.840	1.00
78_E	159_L	0.839	1.00
245_Q	250_Y	0.838	1.00
78_E	158_R	0.831	1.00
77_L	159_L	0.830	1.00
54_D	57_S	0.828	1.00
81_L	162_A	0.826	1.00
81_L	163_F	0.825	1.00
46_K	226_K	0.824	1.00
271_D	274_K	0.824	1.00
279_D	283_K	0.817	1.00
158_R	162_A	0.816	1.00
243_K	247_S	0.813	1.00
45_A	48_L	0.812	1.00
129_D	166_V	0.804	1.00
48_L	53_F	0.804	1.00
247_S	261_R	0.801	1.00
246_G	263_R	0.800	1.00
242_V	246_G	0.800	1.00
229_A	245_Q	0.794	1.00
262_L	305_A	0.794	1.00
9_V	17_T	0.793	1.00
238_P	241_K	0.792	1.00
225_E	229_A	0.792	1.00
256_G	259_L	0.790	1.00
49_P	53_F	0.789	1.00
221_N	224_F	0.789	1.00
108_Q	114_G	0.789	1.00
248_R	251_L	0.789	1.00
171_I	175_D	0.788	1.00
268_L	271_D	0.786	1.00
44_Y	227_F	0.783	1.00
133_N	188_Y	0.783	1.00
35_R	282_Y	0.781	1.00
60_T	63_D	0.781	1.00
37_F	40_Y	0.780	1.00
132_E	181_L	0.773	1.00
44_Y	231_F	0.764	1.00
100_R	123_Y	0.762	1.00
267_V	310_Y	0.757	1.00
131_P	178_R	0.757	1.00
41_M	227_F	0.756	1.00
137_K	166_V	0.756	1.00
96_L	99_L	0.754	1.00
245_Q	248_R	0.753	1.00
59_E	62_D	0.752	1.00
85_L	128_E	0.751	1.00
45_A	226_K	0.751	1.00
10_I	217_L	0.750	0.99
137_K	164_D	0.750	0.99
97_S	118_R	0.749	0.99
9_V	19_E	0.746	0.99
237_P	241_K	0.746	0.99
147_T	152_N	0.743	0.99
235_K	238_P	0.740	0.99
312_A	316_V	0.737	0.99
270_K	274_K	0.734	0.99
81_L	159_L	0.733	0.99
79_R	82_R	0.729	0.99
79_R	187_H	0.727	0.99
269_R	274_K	0.726	0.99
246_G	250_Y	0.724	0.99
242_V	247_S	0.718	0.99
49_P	54_D	0.713	0.99
72_L	76_E	0.708	0.99
99_L	123_Y	0.707	0.99
47_D	51_K	0.706	0.99
247_S	251_L	0.705	0.99
237_P	246_G	0.705	0.99
234_K	237_P	0.703	0.99
112_N	118_R	0.702	0.99
311_G	315_G	0.702	0.99
150_P	153_R	0.701	0.99
112_N	115_R	0.701	0.99
114_G	117_G	0.700	0.99
77_L	80_L	0.699	0.99
253_D	256_G	0.697	0.99
285_L	288_Q	0.695	0.99
271_D	275_V	0.695	0.99
294_G	297_S	0.695	0.99
246_G	251_L	0.695	0.99
260_F	265_D	0.694	0.99
70_A	147_T	0.694	0.99
236_L	240_L	0.693	0.99
87_R	126_F	0.692	0.99
71_A	152_N	0.691	0.99
224_F	228_V	0.690	0.99
149_S	154_R	0.690	0.99
66_L	146_L	0.690	0.99
46_K	50_F	0.688	0.99
220_M	224_F	0.685	0.99
171_I	174_A	0.683	0.99
88_E	126_F	0.682	0.99
98_F	119_F	0.681	0.99
179_I	192_L	0.678	0.99
95_N	115_R	0.678	0.99
222_R	225_E	0.678	0.99
88_E	182_N	0.675	0.99
173_A	176_F	0.673	0.99
179_I	196_R	0.672	0.99
160_L	163_F	0.672	0.99
138_A	171_I	0.671	0.99
75_K	79_R	0.669	0.99
79_R	83_R	0.667	0.99
216_F	282_Y	0.666	0.99
247_S	252_L	0.665	0.99
265_D	268_L	0.664	0.99
250_Y	253_D	0.662	0.99
290_Y	294_G	0.662	0.99
130_N	134_R	0.658	0.99
290_Y	293_Y	0.658	0.99
5_N	219_D	0.658	0.99
12_L	15_G	0.656	0.99
51_K	54_D	0.655	0.99
243_K	248_R	0.654	0.99
151_E	154_R	0.654	0.99
284_R	287_T	0.654	0.99
131_P	134_R	0.653	0.99
255_D	259_L	0.652	0.99
84_G	188_Y	0.651	0.99
222_R	229_A	0.651	0.99
189_R	192_L	0.646	0.99
38_L	41_M	0.646	0.99
111_R	120_A	0.645	0.98
260_F	264_P	0.644	0.98
235_K	240_L	0.644	0.98
157_R	161_L	0.644	0.98
148_R	153_R	0.643	0.98
236_L	241_K	0.642	0.98
67_E	152_N	0.641	0.98
262_L	306_Y	0.640	0.98
158_R	161_L	0.638	0.98
39_L	43_S	0.638	0.98
113_L	116_K	0.637	0.98
136_L	188_Y	0.635	0.98
70_A	73_F	0.632	0.98
176_F	179_I	0.631	0.98
192_L	196_R	0.627	0.98
213_L	216_F	0.627	0.98
129_D	138_A	0.625	0.98
47_D	226_K	0.622	0.98
65_L	69_L	0.622	0.98
285_L	295_I	0.621	0.98
270_K	273_E	0.619	0.98
111_R	115_R	0.619	0.98
72_L	194_L	0.615	0.98
92_R	96_L	0.615	0.98
81_L	85_L	0.614	0.98
244_A	250_Y	0.612	0.98
203_S	206_T	0.612	0.98
242_V	250_Y	0.611	0.98
262_L	265_D	0.608	0.98
108_Q	113_L	0.606	0.98
56_A	61_E	0.603	0.98
244_A	248_R	0.601	0.98
297_S	300_L	0.601	0.98
305_A	309_N	0.600	0.98
35_R	41_M	0.596	0.97
106_S	109_I	0.596	0.97
241_K	247_S	0.595	0.97
220_M	223_L	0.595	0.97
156_L	160_L	0.594	0.97
148_R	152_N	0.591	0.97
152_N	155_R	0.589	0.97
131_P	171_I	0.588	0.97
317_L	320_P	0.585	0.97
51_K	57_S	0.583	0.97
69_L	198_I	0.582	0.97
131_P	175_D	0.580	0.97
215_A	218_F	0.579	0.97
251_L	255_D	0.579	0.97
283_K	302_Q	0.577	0.97
47_D	50_F	0.576	0.97
285_L	296_S	0.575	0.97
139_A	142_L	0.575	0.97
171_I	176_F	0.575	0.97
57_S	61_E	0.574	0.97
45_A	50_F	0.574	0.97
99_L	108_Q	0.574	0.97
232_L	266_I	0.573	0.97
86_Y	182_N	0.573	0.97
92_R	127_S	0.571	0.97
50_F	54_D	0.570	0.97
41_M	44_Y	0.570	0.97
50_F	53_F	0.570	0.97
308_K	311_G	0.569	0.97
76_E	79_R	0.569	0.97
266_I	279_D	0.565	0.97
21_L	25_D	0.565	0.97
301_Y	309_N	0.563	0.96
140_L	163_F	0.560	0.96
64_N	72_L	0.560	0.96
175_D	178_R	0.559	0.96
96_L	119_F	0.558	0.96
40_Y	44_Y	0.556	0.96
10_I	18_I	0.555	0.96
141_E	144_L	0.553	0.96
268_L	274_K	0.553	0.96
255_D	258_G	0.550	0.96
246_G	267_V	0.550	0.96
295_I	298_A	0.549	0.96
144_L	156_L	0.549	0.96
225_E	281_K	0.546	0.96
102_R	110_R	0.543	0.96
283_K	296_S	0.543	0.96
240_L	245_Q	0.541	0.96
69_L	194_L	0.541	0.96
48_L	61_E	0.540	0.96
44_Y	48_L	0.540	0.96
135_I	181_L	0.540	0.96
78_E	82_R	0.538	0.95
86_Y	133_N	0.538	0.95
54_D	60_T	0.537	0.95
67_E	70_A	0.537	0.95
299_D	302_Q	0.535	0.95
250_Y	254_E	0.535	0.95
181_L	186_A	0.535	0.95
242_V	249_K	0.534	0.95
246_G	269_R	0.534	0.95
73_F	139_A	0.534	0.95
241_K	272_G	0.532	0.95
239_G	245_Q	0.531	0.95
281_K	302_Q	0.531	0.95
267_V	277_I	0.531	0.95
155_R	158_R	0.530	0.95
221_N	282_Y	0.528	0.95
306_Y	309_N	0.524	0.95
57_S	63_D	0.524	0.95
24_I	27_D	0.523	0.95
260_F	295_I	0.523	0.95
76_E	80_L	0.521	0.95
140_L	144_L	0.520	0.95
73_F	194_L	0.519	0.94
77_L	163_F	0.519	0.94
169_I	172_S	0.518	0.94
228_V	266_I	0.518	0.94
279_D	303_M	0.518	0.94
107_R	122_R	0.516	0.94
21_L	35_R	0.516	0.94
132_E	188_Y	0.514	0.94
248_R	252_L	0.514	0.94
12_L	18_I	0.514	0.94
109_I	112_N	0.513	0.94
181_L	196_R	0.512	0.94
177_S	180_R	0.512	0.94
53_F	56_A	0.512	0.94
142_L	202_L	0.511	0.94
67_E	147_T	0.510	0.94
100_R	121_C	0.509	0.94
194_L	198_I	0.509	0.94
188_Y	192_L	0.508	0.94
264_P	310_Y	0.507	0.94
6_Y	20_I	0.506	0.94
35_R	44_Y	0.505	0.94
26_K	29_D	0.504	0.94
240_L	268_L	0.503	0.94
135_I	171_I	0.503	0.94
220_M	306_Y	0.501	0.93
68_L	72_L	0.500	0.93

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
4ic1A	5	0.4781	88.1	0.921	Contact Map
2e52A	2	0.4469	41.2	0.945	Contact Map
3s1sA	1	0.3	40.3	0.945	Contact Map
1y88A	5	0.2562	35.3	0.947	Contact Map
3h1tA	1	0.2938	32.3	0.948	Contact Map
4r5qA	1	0.5312	20.2	0.953	Contact Map
1gefA	2	0.2562	14.1	0.956	Contact Map
2eo0A	2	0.2437	9.1	0.96	Contact Map
1xmxA	2	0.8594	7.5	0.961	Contact Map
2w00A	1	0.5188	7	0.962	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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