Cas_Csy3 - PFAM28P - GREMLIN Contacts

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Cas_Csy3 - CRISPR-associated protein (Cas_Csy3)

PFAM:	PF09615	Sequences: TASVLAFERKLDPSDALFYAGNWDDREKWTPLKVREKSVRGTISNRLKAADQNDPAKLDAEIEKPNLQTVDVAALPPDADTLKVRFTLRVLGGVGTPSACNNADYQQKLQETVKGYIEEHGFKELARRYAYNIANGRFLWRNRVGAEQIEVQVKHLNDGAEQSWTFDALDFSLRDFDAPDEDLDELAELIAQGLSGEDDFVLLEVTAFARLGKGQEVFPSQELVLDKGKGKKSKTLYQVNGVAAMHSQKIGNALRTIDTWYPEADELGPIAVEPYGSVTNLGKAYRQPKDKQDFYTLLDNWVLKDKLPSVEQQHYVMAVLIRGGVFG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	327 (326)
Sequences:	938 (663)
Seq/√Len:	36.7
META:	0.661

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
167_D	170_D	6.433	1.00
61_E	64_K	5.730	1.00
133_I	153_V	4.786	1.00
108_K	305_D	4.352	1.00
162_Q	185_E	4.299	1.00
26_R	150_E	4.287	1.00
154_K	204_E	4.232	1.00
136_G	151_V	3.865	1.00
32_L	73_A	3.325	1.00
116_Y	314_H	3.266	1.00
126_A	187_A	3.253	1.00
16_A	250_I	3.111	1.00
20_A	79_A	2.572	1.00
193_G	201_V	2.527	1.00
134_A	166_F	2.482	1.00
16_A	84_V	2.468	1.00
71_D	232_K	2.379	1.00
124_E	127_R	2.378	1.00
150_E	165_T	2.351	1.00
224_V	235_T	2.316	1.00
9_R	12_D	2.313	0.99
123_K	191_A	2.269	0.99
238_Q	241_G	2.243	0.99
120_H	310_V	2.217	0.99
16_A	245_M	2.157	0.99
257_I	272_V	2.133	0.99
130_A	190_I	2.106	0.99
183_L	187_A	2.078	0.99
21_G	29_W	2.076	0.99
192_Q	197_E	2.073	0.99
262_P	292_Q	2.043	0.99
34_V	238_Q	2.026	0.99
270_I	276_G	2.024	0.99
182_D	185_E	2.016	0.99
281_L	285_Y	2.010	0.99
38_S	69_T	2.007	0.99
154_K	163_S	1.952	0.98
222_E	246_H	1.952	0.98
18_F	245_M	1.941	0.98
152_Q	206_T	1.939	0.98
117_I	122_F	1.926	0.98
189_L	201_V	1.901	0.98
148_Q	210_R	1.898	0.98
172_S	175_D	1.893	0.98
52_Q	61_E	1.875	0.98
309_S	312_Q	1.855	0.98
51_D	61_E	1.799	0.97
51_D	64_K	1.796	0.97
155_H	189_L	1.780	0.97
20_A	76_P	1.729	0.96
85_R	206_T	1.725	0.96
171_F	180_D	1.721	0.96
181_E	185_E	1.713	0.96
13_P	88_L	1.711	0.96
297_L	316_V	1.694	0.96
261_Y	285_Y	1.689	0.96
25_D	28_K	1.663	0.95
245_M	250_I	1.657	0.95
84_V	209_A	1.656	0.95
127_R	184_D	1.652	0.95
9_R	216_E	1.647	0.95
68_Q	248_Q	1.644	0.95
114_K	118_E	1.641	0.95
227_K	231_K	1.624	0.95
85_R	204_E	1.619	0.95
152_Q	208_F	1.579	0.94
292_Q	312_Q	1.561	0.93
310_V	313_Q	1.551	0.93
50_A	61_E	1.544	0.93
121_G	191_A	1.544	0.93
272_V	318_A	1.525	0.93
152_Q	165_T	1.510	0.92
49_A	53_N	1.503	0.92
131_Y	183_L	1.502	0.92
128_R	259_T	1.500	0.92
55_P	58_L	1.494	0.92
131_Y	178_A	1.491	0.92
228_G	231_K	1.487	0.92
293_D	296_T	1.478	0.91
35_R	74_A	1.465	0.91
164_W	185_E	1.464	0.91
122_F	317_M	1.451	0.91
263_E	266_E	1.444	0.90
95_G	113_V	1.429	0.90
11_L	90_V	1.414	0.89
135_N	168_A	1.397	0.89
280_N	315_Y	1.385	0.88
239_V	244_A	1.380	0.88
43_I	46_R	1.376	0.88
102_N	302_V	1.363	0.88
54_D	58_L	1.361	0.87
127_R	179_P	1.357	0.87
113_V	317_M	1.342	0.87
104_D	107_Q	1.339	0.87
149_I	168_A	1.327	0.86
261_Y	269_P	1.310	0.85
47_L	275_Y	1.297	0.85
127_R	131_Y	1.295	0.85
38_S	223_L	1.284	0.84
272_V	315_Y	1.273	0.84
9_R	221_Q	1.256	0.83
174_R	268_G	1.254	0.83
156_L	159_G	1.241	0.82
13_P	251_G	1.230	0.81
178_A	183_L	1.224	0.81
112_T	301_W	1.223	0.81
188_E	192_Q	1.221	0.81
31_P	167_D	1.212	0.80
72_V	216_E	1.199	0.80
30_T	78_D	1.197	0.80
73_A	193_G	1.195	0.80
216_E	239_V	1.195	0.80
94_V	122_F	1.193	0.79
73_A	105_Y	1.191	0.79
107_Q	111_E	1.175	0.78
88_L	205_V	1.164	0.78
32_L	105_Y	1.161	0.77
11_L	88_L	1.153	0.77
236_L	243_A	1.153	0.77
131_Y	176_F	1.147	0.77
308_P	312_Q	1.146	0.77
308_P	313_Q	1.135	0.76
157_N	161_E	1.129	0.75
230_G	244_A	1.126	0.75
92_G	197_E	1.124	0.75
227_K	230_G	1.118	0.75
171_F	234_K	1.110	0.74
298_L	315_Y	1.098	0.73
188_E	191_A	1.088	0.73
105_Y	109_L	1.087	0.73
115_G	119_E	1.081	0.72
132_N	135_N	1.079	0.72
65_P	99_A	1.078	0.72
18_F	84_V	1.078	0.72
288_P	293_D	1.078	0.72
133_I	136_G	1.072	0.72
76_P	79_A	1.065	0.71
226_D	231_K	1.063	0.71
196_G	207_A	1.063	0.71
45_N	67_L	1.062	0.71
94_V	113_V	1.057	0.70
252_N	273_E	1.049	0.70
110_Q	114_K	1.046	0.70
322_R	325_V	1.042	0.69
126_A	256_T	1.042	0.69
263_E	283_K	1.035	0.69
22_N	25_D	1.032	0.69
108_K	112_T	1.028	0.68
191_A	195_S	1.021	0.68
38_S	41_G	1.017	0.67
92_G	196_G	1.015	0.67
75_L	82_L	1.012	0.67
47_L	51_D	1.010	0.67
54_D	57_K	1.010	0.67
28_K	197_E	1.005	0.67
18_F	32_L	0.995	0.66
3_S	101_N	0.988	0.65
250_I	254_L	0.978	0.64
254_L	280_N	0.958	0.63
136_G	207_A	0.952	0.62
274_P	319_V	0.951	0.62
96_T	106_Q	0.945	0.62
41_G	66_N	0.937	0.61
154_K	206_T	0.926	0.60
49_A	52_Q	0.926	0.60
196_G	199_D	0.926	0.60
152_Q	163_S	0.925	0.60
300_N	306_K	0.915	0.59
115_G	118_E	0.915	0.59
67_L	223_L	0.912	0.59
255_R	273_E	0.909	0.59
71_D	75_L	0.909	0.59
106_Q	281_L	0.904	0.58
50_A	54_D	0.902	0.58
45_N	48_K	0.900	0.58
95_G	114_K	0.900	0.58
49_A	59_D	0.893	0.57
127_R	187_A	0.888	0.57
134_A	138_F	0.883	0.56
302_V	317_M	0.883	0.56
202_L	254_L	0.871	0.55
12_D	18_F	0.870	0.55
205_V	271_A	0.867	0.55
275_Y	284_A	0.867	0.55
216_E	248_Q	0.866	0.55
262_P	312_Q	0.860	0.54
292_Q	309_S	0.857	0.54
289_K	302_V	0.853	0.54
149_I	211_L	0.848	0.53
278_V	282_G	0.843	0.53
24_D	28_K	0.841	0.53
318_A	323_G	0.833	0.52
315_Y	319_V	0.830	0.52
261_Y	268_G	0.830	0.52
228_G	315_Y	0.828	0.52
179_P	184_D	0.828	0.52
59_D	63_E	0.818	0.51
42_T	274_P	0.817	0.51
43_I	47_L	0.811	0.50
60_A	67_L	0.811	0.50
110_Q	197_E	0.810	0.50
133_I	205_V	0.810	0.50
18_F	22_N	0.807	0.50
4_V	7_F	0.802	0.49
67_L	225_L	0.802	0.49
89_R	193_G	0.801	0.49
19_Y	83_K	0.796	0.49
106_Q	110_Q	0.794	0.49
83_K	206_T	0.794	0.49
291_K	296_T	0.791	0.48
132_N	137_R	0.791	0.48
158_D	205_V	0.790	0.48
10_K	23_W	0.790	0.48
302_V	307_L	0.789	0.48
118_E	181_E	0.788	0.48
318_A	324_G	0.788	0.48
317_M	321_I	0.788	0.48
58_L	62_I	0.788	0.48
50_A	63_E	0.785	0.48
176_F	207_A	0.783	0.48
181_E	184_D	0.782	0.48
27_E	206_T	0.778	0.47
226_D	261_Y	0.777	0.47
255_R	274_P	0.777	0.47
133_I	254_L	0.774	0.47
293_D	297_L	0.773	0.47
123_K	188_E	0.772	0.47
207_A	297_L	0.772	0.47
39_V	69_T	0.771	0.47
142_N	249_K	0.770	0.47
179_P	254_L	0.769	0.46
237_Y	273_E	0.769	0.46
111_E	118_E	0.764	0.46
95_G	235_T	0.763	0.46
156_L	160_A	0.763	0.46
43_I	64_K	0.761	0.46
237_Y	244_A	0.761	0.46
82_L	217_V	0.759	0.46
185_E	189_L	0.758	0.46
96_T	118_E	0.756	0.45
139_L	273_E	0.756	0.45
133_I	171_F	0.756	0.45
255_R	271_A	0.756	0.45
57_K	62_I	0.754	0.45
105_Y	304_K	0.752	0.45
214_G	295_Y	0.752	0.45
23_W	26_R	0.750	0.45
90_V	321_I	0.748	0.45
116_Y	247_S	0.748	0.45
88_L	251_G	0.745	0.44
127_R	178_A	0.744	0.44
314_H	317_M	0.742	0.44
151_V	207_A	0.742	0.44
243_A	325_V	0.742	0.44
12_D	216_E	0.740	0.44
288_P	291_K	0.739	0.44
33_K	240_N	0.738	0.44
95_G	209_A	0.733	0.43
156_L	204_E	0.732	0.43
204_E	213_K	0.731	0.43
131_Y	179_P	0.727	0.43
257_I	260_W	0.725	0.43
38_S	67_L	0.724	0.43
17_L	21_G	0.721	0.42
294_F	319_V	0.720	0.42
243_A	246_H	0.718	0.42
261_Y	267_L	0.717	0.42
76_P	285_Y	0.715	0.42
255_R	322_R	0.714	0.42
174_R	269_P	0.713	0.42
114_K	177_D	0.713	0.42
293_D	326_F	0.712	0.42
19_Y	32_L	0.706	0.41
137_R	143_R	0.705	0.41
29_W	83_K	0.703	0.41
19_Y	218_F	0.701	0.41
71_D	238_Q	0.698	0.40
149_I	169_L	0.696	0.40
78_D	149_I	0.695	0.40
144_V	229_K	0.695	0.40
146_A	149_I	0.695	0.40
265_D	312_Q	0.694	0.40
10_K	87_T	0.692	0.40
70_V	272_V	0.692	0.40
136_G	172_S	0.691	0.40
164_W	203_L	0.691	0.40
118_E	192_Q	0.687	0.39
50_A	64_K	0.685	0.39
19_Y	28_K	0.684	0.39
104_D	165_T	0.684	0.39
136_G	149_I	0.683	0.39
304_K	307_L	0.682	0.39
2_A	13_P	0.682	0.39
38_S	68_Q	0.681	0.39
88_L	250_I	0.678	0.39
151_V	168_A	0.677	0.39
258_D	286_R	0.676	0.39
218_F	234_K	0.675	0.38
206_T	272_V	0.675	0.38
148_Q	167_D	0.671	0.38
19_Y	208_F	0.671	0.38
264_A	267_L	0.670	0.38
77_P	206_T	0.663	0.37
6_A	98_S	0.662	0.37
19_Y	115_G	0.662	0.37
277_S	318_A	0.662	0.37
44_S	54_D	0.661	0.37
28_K	123_K	0.661	0.37
40_R	279_T	0.658	0.37
136_G	170_D	0.655	0.37
130_A	153_V	0.653	0.37
47_L	52_Q	0.652	0.37
244_A	280_N	0.646	0.36
212_G	215_Q	0.646	0.36
70_V	248_Q	0.645	0.36
127_R	189_L	0.645	0.36
83_K	208_F	0.644	0.36
295_Y	301_W	0.643	0.36
39_V	248_Q	0.642	0.36
56_A	59_D	0.642	0.36
146_A	209_A	0.640	0.36
41_G	70_V	0.636	0.35
55_P	61_E	0.634	0.35
41_G	45_N	0.632	0.35
20_A	93_G	0.630	0.35
241_G	263_E	0.629	0.35
136_G	197_E	0.628	0.35
261_Y	281_L	0.628	0.35
118_E	161_E	0.625	0.34
38_S	70_V	0.625	0.34
22_N	28_K	0.623	0.34
89_R	211_L	0.623	0.34
259_T	264_A	0.622	0.34
148_Q	153_V	0.622	0.34
51_D	58_L	0.620	0.34
203_L	240_N	0.620	0.34
113_V	193_G	0.619	0.34
131_Y	171_F	0.619	0.34
256_T	269_P	0.618	0.34
138_F	166_F	0.618	0.34
51_D	59_D	0.617	0.34
218_F	281_L	0.617	0.34
40_R	65_P	0.615	0.34
252_N	256_T	0.614	0.34
27_E	192_Q	0.613	0.33
9_R	218_F	0.612	0.33
112_T	305_D	0.612	0.33
39_V	68_Q	0.611	0.33
11_L	251_G	0.610	0.33
279_T	284_A	0.607	0.33
16_A	20_A	0.606	0.33
315_Y	323_G	0.605	0.33
112_T	317_M	0.605	0.33
144_V	200_F	0.604	0.33
212_G	236_L	0.604	0.33
6_A	70_V	0.603	0.33
107_Q	263_E	0.602	0.33
185_E	188_E	0.601	0.32
315_Y	324_G	0.601	0.32
307_L	313_Q	0.600	0.32
20_A	32_L	0.598	0.32
184_D	192_Q	0.596	0.32
12_D	95_G	0.596	0.32
294_F	299_D	0.594	0.32
124_E	218_F	0.593	0.32
37_K	43_I	0.592	0.32
156_L	164_W	0.591	0.32
76_P	109_L	0.591	0.32
306_K	313_Q	0.588	0.32
127_R	240_N	0.587	0.31
298_L	319_V	0.586	0.31
25_D	33_K	0.586	0.31
151_V	157_N	0.585	0.31
305_D	308_P	0.584	0.31
187_A	195_S	0.583	0.31
47_L	61_E	0.583	0.31
58_L	61_E	0.582	0.31
14_S	87_T	0.582	0.31
322_R	327_G	0.581	0.31
2_A	115_G	0.581	0.31
25_D	205_V	0.581	0.31
274_P	322_R	0.581	0.31
41_G	248_Q	0.580	0.31
95_G	224_V	0.580	0.31
37_K	70_V	0.579	0.31
107_Q	162_Q	0.579	0.31
28_K	310_V	0.578	0.31
86_F	138_F	0.578	0.31
304_K	308_P	0.575	0.31
300_N	312_Q	0.574	0.30
276_G	286_R	0.571	0.30
36_E	69_T	0.571	0.30
148_Q	296_T	0.571	0.30
178_A	188_E	0.571	0.30
37_K	46_R	0.569	0.30
171_F	183_L	0.566	0.30
94_V	317_M	0.566	0.30
4_V	327_G	0.565	0.30
34_V	243_A	0.565	0.30
100_C	279_T	0.564	0.30
178_A	182_D	0.564	0.30
25_D	113_V	0.563	0.30
27_E	175_D	0.563	0.30
311_E	314_H	0.562	0.30
164_W	189_L	0.560	0.29
53_N	59_D	0.559	0.29
30_T	123_K	0.558	0.29
273_E	322_R	0.557	0.29
157_N	244_A	0.556	0.29
155_H	164_W	0.556	0.29
30_T	188_E	0.556	0.29
136_G	226_D	0.556	0.29
302_V	313_Q	0.556	0.29
156_L	189_L	0.555	0.29
97_P	271_A	0.553	0.29
177_D	254_L	0.553	0.29
6_A	247_S	0.552	0.29
53_N	61_E	0.551	0.29
110_Q	181_E	0.550	0.29
84_V	139_L	0.550	0.29
320_L	324_G	0.550	0.29
149_I	227_K	0.550	0.29
319_V	326_F	0.548	0.29
205_V	290_D	0.547	0.28
221_Q	227_K	0.546	0.28
11_L	194_L	0.545	0.28
123_K	163_S	0.545	0.28
182_D	238_Q	0.543	0.28
270_I	285_Y	0.543	0.28
12_D	35_R	0.541	0.28
106_Q	267_L	0.541	0.28
105_Y	305_D	0.539	0.28
71_D	138_F	0.538	0.28
171_F	178_A	0.536	0.28
133_I	256_T	0.536	0.28
10_K	21_G	0.536	0.28
49_A	206_T	0.536	0.28
284_A	293_D	0.534	0.28
178_A	238_Q	0.533	0.27
28_K	114_K	0.533	0.27
135_N	143_R	0.533	0.27
39_V	43_I	0.532	0.27
223_L	288_P	0.532	0.27
23_W	208_F	0.530	0.27
10_K	15_D	0.528	0.27
25_D	192_Q	0.527	0.27
24_D	150_E	0.527	0.27
156_L	161_E	0.526	0.27
39_V	70_V	0.526	0.27
221_Q	301_W	0.525	0.27
295_Y	315_Y	0.525	0.27
49_A	102_N	0.525	0.27
97_P	101_N	0.525	0.27
97_P	100_C	0.523	0.27
13_P	38_S	0.522	0.27
111_E	188_E	0.522	0.27
200_F	204_E	0.522	0.27
21_G	83_K	0.520	0.27
123_K	184_D	0.520	0.27
114_K	170_D	0.520	0.27
70_V	237_Y	0.519	0.27
13_P	93_G	0.519	0.27
63_E	223_L	0.515	0.26
261_Y	264_A	0.515	0.26
231_K	280_N	0.514	0.26
39_V	216_E	0.513	0.26
18_F	216_E	0.513	0.26
262_P	315_Y	0.512	0.26
5_L	10_K	0.512	0.26
218_F	221_Q	0.511	0.26
195_S	265_D	0.511	0.26
180_D	183_L	0.510	0.26
1_T	308_P	0.509	0.26
2_A	327_G	0.508	0.26
243_A	248_Q	0.508	0.26
50_A	62_I	0.507	0.26
15_D	237_Y	0.507	0.26
52_Q	283_K	0.506	0.26
144_V	272_V	0.506	0.26
69_T	248_Q	0.506	0.26
100_C	251_G	0.505	0.26
23_W	138_F	0.505	0.26
102_N	254_L	0.504	0.26
52_Q	183_L	0.504	0.26
286_R	323_G	0.503	0.25
119_E	310_V	0.502	0.25
318_A	322_R	0.501	0.25
61_E	280_N	0.500	0.25
137_R	256_T	0.500	0.25

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
3ctdA	3	0.107	16.3	0.975	Contact Map
2hiqA	2	0.2813	8.7	0.978	Contact Map
1q14A	3	0.2905	5.8	0.979	Contact Map
3wxoA	2	0.2446	4.2	0.981	Contact Map
3ogiA	1	0.1743	3.6	0.981	Contact Map
5a3aA	1	0.2997	3.5	0.981	Contact Map
4rmhA	1	0.2813	3.2	0.982	Contact Map
2khxA	1	0.1101	3.1	0.982	Contact Map
4ollA	1	0.2232	3.1	0.982	Contact Map
1m2kA	1	0.2752	3.1	0.982	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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