MRE11 - HALSA - GREMLIN Contacts

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MRE11 - DNA double-strand break repair protein Mre11

UniProt:	Q9HRW4	Sequences: MARVIHTGDTHLGYQQYHAPQRRQDFLDAFDAVITDAIDEGVDAVVHAGDLYHDRQPGLRDILDTIALLRPLQDADIPFLAVVGNHEGTRDAQWLDLFETLGLAERLDDSPRVVADTAFYGLDYVPQSKRDDHDYTVADHDADHAALVSHGLFTPFPYANWDLDAVLADATVEFDAVLLGDNHTPDTAQLGDTWVTYCGSTERASASERDPRGYNIVSFSSDATTDVAISRKSLNTREFVFVDADLGPTDGTAFIQERLRERALDDAVVVVTITGDGDTVTPAEIERFGDDRGALLTRVNDRREFDTGDDAPDVDVSFADPDDAVEQRVRDLGLDEPARDVDRIVRDDTLADAAVRERVIQRAEAVLDDDADAADDDGRPTTVEEFQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	387 (335)
Sequences:	3683 (2972)
Seq/√Len:	162.4

ECOLI - SBCD
BACSU - YHAO SBCD
HALSA - MRE11
SULSO - MRE11

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
46_V	148_V	4.589	1.00
40_E	230_S	3.993	1.00
213_G	231_R	3.857	1.00
36_D	214_Y	3.502	1.00
42_V	216_I	3.272	1.00
5_I	42_V	3.257	1.00
33_V	201_T	3.018	1.00
4_V	44_A	3.017	1.00
3_R	218_S	2.984	1.00
211_P	233_S	2.951	1.00
31_D	71_P	2.907	1.00
37_A	45_V	2.847	1.00
40_E	232_K	2.757	1.00
80_L	119_F	2.728	1.00
216_I	232_K	2.586	1.00
7_T	47_H	2.522	1.00
35_T	39_D	2.451	1.00
215_N	229_I	2.440	1.00
218_S	230_S	2.434	1.00
36_D	40_E	2.421	1.00
36_D	232_K	2.386	1.00
8_G	198_C	2.334	1.00
118_A	143_D	2.291	1.00
241_F	270_V	2.260	1.00
105_E	109_D	2.252	1.00
7_T	10_T	2.251	1.00
38_I	75_A	2.222	1.00
196_T	215_N	2.216	1.00
65_T	69_L	2.200	1.00
187_T	193_T	2.111	1.00
48_A	148_V	2.033	1.00
6_H	178_L	2.029	1.00
113_V	118_A	2.019	1.00
243_D	272_T	2.006	1.00
30_F	68_L	1.981	1.00
156_F	182_N	1.957	1.00
44_A	80_L	1.917	1.00
4_V	217_V	1.910	1.00
219_F	227_V	1.883	1.00
40_E	216_I	1.880	1.00
130_R	134_D	1.802	1.00
46_V	119_F	1.798	1.00
147_L	174_F	1.793	1.00
240_V	267_A	1.781	1.00
293_G	297_T	1.768	1.00
256_Q	259_L	1.748	1.00
32_A	235_N	1.747	1.00
206_A	270_V	1.747	1.00
119_F	146_A	1.745	1.00
241_F	272_T	1.739	1.00
44_A	119_F	1.737	1.00
209_R	241_F	1.731	1.00
214_Y	234_L	1.720	1.00
7_T	33_V	1.715	1.00
37_A	72_L	1.704	1.00
255_I	259_L	1.689	1.00
37_A	77_I	1.688	1.00
25_D	237_R	1.684	1.00
215_N	231_R	1.673	1.00
245_D	248_P	1.661	1.00
243_D	274_T	1.653	1.00
10_T	47_H	1.635	1.00
12_L	65_T	1.617	1.00
218_S	228_A	1.612	1.00
27_L	64_D	1.608	1.00
131_D	134_D	1.602	1.00
51_L	81_A	1.595	1.00
5_I	216_I	1.588	1.00
29_A	201_T	1.575	1.00
80_L	121_G	1.565	1.00
220_S	223_A	1.554	1.00
203_R	238_E	1.539	1.00
37_A	42_V	1.531	1.00
185_P	215_N	1.529	1.00
38_I	71_P	1.504	1.00
177_V	195_V	1.504	1.00
29_A	33_V	1.499	1.00
116_D	144_H	1.496	1.00
8_G	48_A	1.489	1.00
6_H	176_A	1.487	1.00
118_A	145_A	1.481	1.00
147_L	177_V	1.475	1.00
280_V	283_A	1.473	1.00
35_T	71_P	1.471	1.00
105_E	108_D	1.470	1.00
117_T	146_A	1.463	1.00
317_S	320_D	1.458	1.00
25_D	268_V	1.457	1.00
294_A	297_T	1.456	1.00
217_V	229_I	1.450	1.00
340_D	344_I	1.446	1.00
282_P	286_E	1.432	1.00
64_D	68_L	1.407	1.00
174_F	177_V	1.406	1.00
295_L	298_R	1.390	1.00
33_V	214_Y	1.379	1.00
31_D	68_L	1.359	1.00
5_I	214_Y	1.356	1.00
22_R	25_D	1.349	1.00
16_Q	22_R	1.343	1.00
28_D	236_T	1.335	1.00
2_A	218_S	1.332	1.00
196_T	229_I	1.327	1.00
58_G	61_D	1.327	1.00
140_H	143_D	1.308	1.00
185_P	213_G	1.299	1.00
245_D	274_T	1.298	1.00
119_F	148_V	1.295	1.00
14_Y	204_A	1.283	1.00
24_Q	28_D	1.276	1.00
5_I	37_A	1.272	1.00
47_H	79_F	1.269	1.00
200_S	204_A	1.269	1.00
65_T	81_A	1.264	1.00
36_D	39_D	1.254	1.00
327_Q	333_G	1.254	1.00
5_I	36_D	1.248	1.00
94_W	98_F	1.244	1.00
71_P	74_D	1.244	1.00
35_T	38_I	1.243	1.00
144_H	219_F	1.232	1.00
166_V	170_A	1.229	1.00
26_F	204_A	1.212	1.00
335_D	338_A	1.206	1.00
3_R	40_E	1.204	1.00
31_D	35_T	1.186	1.00
82_V	148_V	1.180	1.00
131_D	135_Y	1.180	1.00
69_L	79_F	1.175	1.00
129_K	133_H	1.168	1.00
296_L	299_V	1.164	1.00
320_D	323_D	1.155	1.00
129_K	134_D	1.147	1.00
51_L	65_T	1.143	1.00
27_L	31_D	1.140	1.00
299_V	302_R	1.136	1.00
343_R	347_D	1.123	1.00
50_D	86_H	1.122	1.00
120_Y	174_F	1.119	1.00
185_P	231_R	1.118	1.00
257_E	260_R	1.111	1.00
296_L	300_N	1.105	1.00
258_R	261_E	1.102	1.00
106_R	109_D	1.095	1.00
238_E	267_A	1.085	1.00
342_D	346_R	1.083	0.99
29_A	202_E	1.081	0.99
316_V	324_A	1.078	0.99
121_G	148_V	1.075	0.99
323_D	339_R	1.068	0.99
120_Y	145_A	1.064	0.99
101_L	104_A	1.063	0.99
29_A	234_L	1.062	0.99
32_A	234_L	1.055	0.99
242_V	271_V	1.049	0.99
34_I	72_L	1.049	0.99
14_Y	53_H	1.043	0.99
34_I	68_L	1.039	0.99
217_V	227_V	1.033	0.99
32_A	35_T	1.026	0.99
130_R	133_H	1.023	0.99
336_E	339_R	1.021	0.99
339_R	343_R	1.020	0.99
293_G	299_V	1.014	0.99
4_V	46_V	1.013	0.99
44_A	146_A	1.005	0.99
86_H	183_H	0.998	0.99
344_I	348_D	0.997	0.99
293_G	296_L	0.993	0.99
27_L	67_A	0.991	0.99
334_L	338_A	0.989	0.99
38_I	77_I	0.987	0.99
129_K	132_D	0.987	0.99
324_A	328_R	0.985	0.99
38_I	74_D	0.981	0.99
287_R	290_D	0.979	0.99
6_H	179_L	0.970	0.99
50_D	183_H	0.967	0.99
25_D	202_E	0.959	0.99
145_A	175_D	0.958	0.99
46_V	146_A	0.955	0.99
46_V	217_V	0.953	0.99
33_V	37_A	0.952	0.99
10_T	51_L	0.951	0.99
154_T	165_A	0.951	0.99
323_D	326_E	0.949	0.99
206_A	239_F	0.940	0.99
50_D	85_N	0.938	0.99
294_A	298_R	0.938	0.99
187_T	196_T	0.912	0.98
153_F	188_A	0.907	0.98
322_D	326_E	0.906	0.98
117_T	144_H	0.903	0.98
66_I	96_D	0.899	0.98
111_P	118_A	0.896	0.98
83_V	123_D	0.892	0.98
146_A	217_V	0.892	0.98
334_L	342_D	0.889	0.98
258_R	262_R	0.889	0.98
78_P	104_A	0.884	0.98
301_D	304_E	0.884	0.98
28_D	31_D	0.876	0.98
200_S	212_R	0.873	0.98
69_L	103_L	0.872	0.98
185_P	196_T	0.871	0.98
27_L	71_P	0.860	0.97
53_H	204_A	0.858	0.97
52_Y	62_I	0.857	0.97
138_A	173_E	0.852	0.97
53_H	212_R	0.852	0.97
46_V	178_L	0.851	0.97
138_A	174_F	0.851	0.97
113_V	116_D	0.849	0.97
189_Q	193_T	0.848	0.97
13_G	57_P	0.848	0.97
336_E	340_D	0.846	0.97
91_D	94_W	0.845	0.97
44_A	117_T	0.841	0.97
293_G	300_N	0.831	0.97
200_S	205_S	0.829	0.97
216_I	230_S	0.824	0.97
12_L	58_G	0.823	0.97
163_L	166_V	0.822	0.97
140_H	145_A	0.822	0.97
341_V	345_V	0.821	0.97
13_G	61_D	0.821	0.97
324_A	327_Q	0.820	0.97
150_H	181_D	0.816	0.96
111_P	114_V	0.813	0.96
345_V	348_D	0.811	0.96
155_P	160_N	0.810	0.96
293_G	298_R	0.806	0.96
255_I	258_R	0.804	0.96
294_A	299_V	0.800	0.96
156_F	159_A	0.799	0.96
71_P	75_A	0.797	0.96
110_S	113_V	0.796	0.96
3_R	216_I	0.795	0.96
81_A	103_L	0.795	0.96
101_L	105_E	0.793	0.96
175_D	222_D	0.792	0.96
65_T	93_Q	0.792	0.96
132_D	135_Y	0.792	0.96
85_N	183_H	0.790	0.96
203_R	212_R	0.788	0.96
45_V	75_A	0.788	0.96
11_H	183_H	0.786	0.96
58_G	62_I	0.785	0.96
23_R	26_F	0.784	0.96
45_V	79_F	0.784	0.96
12_L	30_F	0.779	0.95
297_T	301_D	0.778	0.95
110_S	114_V	0.776	0.95
337_P	340_D	0.773	0.95
214_Y	232_K	0.767	0.95
187_T	215_N	0.766	0.95
34_I	75_A	0.766	0.95
340_D	343_R	0.764	0.95
264_L	267_A	0.762	0.95
6_H	198_C	0.761	0.95
52_Y	94_W	0.760	0.95
300_N	304_E	0.759	0.95
122_L	149_S	0.759	0.95
23_R	60_R	0.755	0.95
319_A	323_D	0.755	0.95
59_L	62_I	0.753	0.95
321_P	325_V	0.751	0.94
149_S	179_L	0.749	0.94
133_H	136_T	0.748	0.94
315_D	319_A	0.748	0.94
72_L	79_F	0.747	0.94
270_V	298_R	0.742	0.94
123_D	197_Y	0.742	0.94
68_L	71_P	0.741	0.94
43_D	218_S	0.739	0.94
48_A	82_V	0.739	0.94
131_D	136_T	0.737	0.94
52_Y	65_T	0.735	0.94
7_T	45_V	0.730	0.94
162_D	166_V	0.727	0.93
24_Q	27_L	0.725	0.93
335_D	339_R	0.724	0.93
128_S	131_D	0.722	0.93
25_D	200_S	0.721	0.93
318_F	321_P	0.720	0.93
189_Q	194_W	0.720	0.93
86_H	150_H	0.718	0.93
330_R	338_A	0.718	0.93
297_T	300_N	0.716	0.93
22_R	202_E	0.715	0.93
176_A	196_T	0.715	0.93
63_L	67_A	0.710	0.93
338_A	346_R	0.708	0.93
146_A	219_F	0.706	0.92
273_I	281_T	0.705	0.92
48_A	198_C	0.704	0.92
25_D	28_D	0.703	0.92
166_V	169_D	0.701	0.92
144_H	175_D	0.698	0.92
11_H	181_D	0.698	0.92
33_V	45_V	0.698	0.92
285_I	296_L	0.697	0.92
31_D	64_D	0.697	0.92
326_E	330_R	0.695	0.92
207_S	210_D	0.692	0.92
39_D	232_K	0.687	0.91
244_A	248_P	0.687	0.91
45_V	72_L	0.686	0.91
10_T	30_F	0.686	0.91
4_V	219_F	0.681	0.91
128_S	132_D	0.679	0.91
299_V	303_R	0.678	0.91
336_E	341_V	0.678	0.91
308_G	313_D	0.677	0.91
161_W	166_V	0.677	0.91
256_Q	262_R	0.675	0.91
345_V	349_T	0.674	0.91
155_P	159_A	0.673	0.91
213_G	234_L	0.671	0.90
36_D	216_I	0.670	0.90
162_D	165_A	0.668	0.90
319_A	322_D	0.665	0.90
85_N	124_Y	0.665	0.90
72_L	77_I	0.663	0.90
34_I	37_A	0.660	0.90
283_A	286_E	0.660	0.90
313_D	321_P	0.659	0.90
45_V	77_I	0.658	0.90
16_Q	239_F	0.656	0.89
178_L	196_T	0.656	0.89
22_R	200_S	0.656	0.89
157_P	169_D	0.653	0.89
272_T	276_D	0.650	0.89
285_I	291_D	0.650	0.89
16_Q	206_A	0.649	0.89
311_A	340_D	0.648	0.89
341_V	346_R	0.648	0.89
311_A	314_V	0.647	0.89
34_I	71_P	0.646	0.89
111_P	116_D	0.644	0.89
78_P	102_G	0.644	0.89
184_T	210_D	0.644	0.89
246_L	273_I	0.643	0.88
118_A	140_H	0.643	0.88
22_R	26_F	0.642	0.88
102_G	105_E	0.642	0.88
97_L	101_L	0.642	0.88
44_A	217_V	0.642	0.88
167_L	170_A	0.640	0.88
124_Y	152_L	0.639	0.88
94_W	97_L	0.638	0.88
23_R	64_D	0.635	0.88
208_E	212_R	0.628	0.87
10_T	33_V	0.626	0.87
56_Q	66_I	0.626	0.87
318_F	325_V	0.626	0.87
5_I	45_V	0.624	0.87
104_A	112_R	0.623	0.87
86_H	181_D	0.623	0.87
334_L	346_R	0.623	0.87
32_A	236_T	0.621	0.87
338_A	341_V	0.618	0.86
26_F	202_E	0.616	0.86
42_V	45_V	0.615	0.86
85_N	150_H	0.613	0.86
275_G	278_D	0.612	0.86
100_T	104_A	0.611	0.86
4_V	117_T	0.610	0.86
7_T	201_T	0.609	0.86
5_I	33_V	0.606	0.85
144_H	223_A	0.605	0.85
164_D	168_A	0.604	0.85
14_Y	22_R	0.604	0.85
176_A	217_V	0.603	0.85
165_A	170_A	0.602	0.85
223_A	227_V	0.601	0.85
338_A	342_D	0.599	0.85
321_P	324_A	0.598	0.85
34_I	38_I	0.598	0.85
123_D	149_S	0.598	0.85
150_H	183_H	0.597	0.84
286_E	290_D	0.597	0.84
333_G	336_E	0.597	0.84
334_L	337_P	0.597	0.84
339_R	344_I	0.596	0.84
88_G	91_D	0.596	0.84
11_H	50_D	0.595	0.84
48_A	69_L	0.595	0.84
264_L	269_V	0.594	0.84
30_F	34_I	0.592	0.84
111_P	120_Y	0.591	0.84
36_D	42_V	0.591	0.84
22_R	237_R	0.590	0.84
312_P	315_D	0.589	0.84
63_L	99_E	0.587	0.83
300_N	305_F	0.584	0.83
298_R	301_D	0.584	0.83
162_D	167_L	0.581	0.83
318_F	334_L	0.581	0.83
52_Y	268_V	0.581	0.83
168_A	195_V	0.580	0.83
295_L	299_V	0.580	0.83
45_V	68_L	0.579	0.83
337_P	341_V	0.578	0.83
130_R	135_Y	0.578	0.83
47_H	51_L	0.577	0.82
294_A	300_N	0.575	0.82
152_L	182_N	0.574	0.82
91_D	95_L	0.571	0.82
33_V	42_V	0.570	0.82
332_L	338_A	0.569	0.82
172_V	192_D	0.569	0.82
196_T	231_R	0.568	0.81
22_R	239_F	0.568	0.81
44_A	78_P	0.568	0.81
346_R	349_T	0.567	0.81
53_H	91_D	0.565	0.81
332_L	335_D	0.565	0.81
223_A	228_A	0.564	0.81
23_R	61_D	0.562	0.81
67_A	306_D	0.562	0.81
333_G	337_P	0.561	0.81
281_T	285_I	0.560	0.81
325_V	329_V	0.558	0.80
62_I	90_R	0.558	0.80
122_L	133_H	0.558	0.80
285_I	294_A	0.558	0.80
27_L	61_D	0.556	0.80
39_D	264_L	0.556	0.80
14_Y	200_S	0.555	0.80
117_T	219_F	0.555	0.80
73_Q	102_G	0.554	0.80
52_Y	66_I	0.554	0.80
315_D	318_F	0.551	0.79
111_P	115_A	0.550	0.79
257_E	261_E	0.550	0.79
53_H	57_P	0.549	0.79
338_A	345_V	0.548	0.79
319_A	343_R	0.548	0.79
301_D	305_F	0.548	0.79
26_F	200_S	0.547	0.79
163_L	201_T	0.546	0.79
313_D	323_D	0.545	0.79
12_L	27_L	0.544	0.79
145_A	151_G	0.544	0.79
9_D	13_G	0.543	0.78
296_L	304_E	0.542	0.78
68_L	72_L	0.541	0.78
201_T	234_L	0.539	0.78
201_T	214_Y	0.539	0.78
281_T	284_E	0.537	0.78
168_A	188_A	0.536	0.78
96_D	99_E	0.536	0.78
323_D	333_G	0.535	0.77
93_Q	127_Q	0.535	0.77
322_D	342_D	0.535	0.77
14_Y	121_G	0.534	0.77
313_D	316_V	0.533	0.77
70_R	74_D	0.532	0.77
178_L	198_C	0.531	0.77
321_P	326_E	0.531	0.77
331_D	335_D	0.530	0.77
202_E	239_F	0.529	0.77
98_F	102_G	0.529	0.77
194_W	227_V	0.529	0.77
299_V	309_D	0.528	0.77
184_T	211_P	0.527	0.76
151_G	206_A	0.527	0.76
25_D	29_A	0.525	0.76
230_S	233_S	0.524	0.76
5_I	213_G	0.523	0.76
39_D	309_D	0.523	0.76
311_A	343_R	0.523	0.76
307_T	348_D	0.522	0.76
128_S	134_D	0.522	0.76
337_P	343_R	0.521	0.76
23_R	27_L	0.518	0.75
10_T	201_T	0.518	0.75
242_V	285_I	0.518	0.75
48_A	178_L	0.517	0.75
98_F	104_A	0.517	0.75
304_E	307_T	0.514	0.75
308_G	349_T	0.514	0.75
176_A	179_L	0.513	0.75
26_F	212_R	0.513	0.75
29_A	235_N	0.512	0.74
256_Q	260_R	0.512	0.74
61_D	83_V	0.511	0.74
152_L	204_A	0.511	0.74
296_L	302_R	0.511	0.74
127_Q	152_L	0.511	0.74
37_A	78_P	0.506	0.74
333_G	348_D	0.506	0.74
319_A	327_Q	0.505	0.73
120_Y	147_L	0.504	0.73
13_G	204_A	0.503	0.73
10_T	68_L	0.503	0.73
151_G	182_N	0.501	0.73
50_D	181_D	0.501	0.73
237_R	267_A	0.501	0.73
80_L	112_R	0.500	0.73
151_G	165_A	0.500	0.73

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
4ltyC	1	0.7519	100	0.432	Contact Map
1ii7A	2	0.7519	100	0.443	Contact Map
4ykeA	2	0.77	100	0.447	Contact Map
3av0A	1	0.9096	100	0.449	Contact Map
3thoB	2	0.8553	100	0.449	Contact Map
4nzvA	1	0.7339	100	0.48	Contact Map
4fbwA	2	0.7597	100	0.501	Contact Map
3t1iA	2	0.7649	100	0.505	Contact Map
4fbkA	2	0.77	100	0.506	Contact Map
2a22A	1	0.4884	99.9	0.704	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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