Cas_Csy2 - PFAM28P - GREMLIN Contacts

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Cas_Csy2 - CRISPR-associated protein (Cas_Csy2)

PFAM:	PF09614	Sequences: LLLPHLRVQNANAISSPLTWGFPAMTAFLGFVHALERKLAAGGLDLEFDGVGVVCHDFQLQTYKGGYVYSFILTRNPLDKDGKTAAIIEEGRCHLEVSLVIEVEGLIADEDDREELAEQVAELLAGMRLAGGSILSIKRPELLSLPEDEEDREKEFRKLRRRLLPGFALVERRDLLAEHMQELQQQNPDADALDAWLDLSRLNHRAEPDEDGDKVEWQYSRRPGKGWLVPIPVGYQAISPLYPPGEVANARDPTTPFRFVESVYSLGEWISPHRLKSLDQLLWRYHYDPENGLYLC	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	296 (296)
Sequences:	841 (663)
Seq/√Len:	38.5
META:	0.655

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
25_M	53_V	5.226	1.00
61_Q	94_H	4.243	1.00
54_V	166_G	4.101	1.00
129_L	134_I	3.764	1.00
5_H	96_E	3.566	1.00
1_L	120_V	3.550	1.00
98_S	163_L	3.190	1.00
58_F	93_C	3.118	1.00
233_V	265_S	3.106	1.00
20_W	60_L	3.074	1.00
8_V	129_L	3.030	1.00
16_S	19_T	3.016	1.00
168_A	281_L	3.010	1.00
32_V	101_I	2.652	1.00
2_L	100_V	2.650	1.00
102_E	284_R	2.595	1.00
237_A	258_R	2.591	1.00
277_S	280_Q	2.585	1.00
255_T	258_R	2.583	1.00
54_V	168_A	2.550	1.00
38_K	126_G	2.487	1.00
4_P	140_P	2.456	1.00
75_R	84_T	2.448	1.00
288_D	291_N	2.447	1.00
156_F	160_R	2.393	1.00
236_Q	263_V	2.379	1.00
208_P	215_V	2.272	1.00
239_S	242_Y	2.250	0.99
34_A	38_K	2.247	0.99
29_L	285_Y	2.232	0.99
61_Q	92_R	2.230	0.99
9_Q	135_L	2.202	0.99
209_D	214_K	2.189	0.99
172_R	175_L	2.186	0.99
172_R	268_E	2.081	0.99
32_V	51_V	2.039	0.99
55_C	272_P	2.004	0.99
65_G	70_S	1.979	0.99
171_E	265_S	1.905	0.98
207_E	218_Q	1.886	0.98
180_M	184_Q	1.882	0.98
31_F	129_L	1.848	0.98
79_D	83_K	1.843	0.98
180_M	192_A	1.837	0.98
241_L	258_R	1.821	0.98
242_Y	246_E	1.788	0.97
62_T	69_Y	1.783	0.97
78_L	84_T	1.769	0.97
8_V	95_L	1.752	0.97
252_D	255_T	1.722	0.97
22_F	55_C	1.722	0.97
1_L	142_L	1.694	0.96
24_A	295_L	1.683	0.96
64_K	69_Y	1.615	0.95
3_L	124_L	1.611	0.95
60_L	93_C	1.611	0.95
96_E	182_E	1.594	0.95
10_N	92_R	1.578	0.94
6_L	100_V	1.572	0.94
31_F	128_R	1.561	0.94
36_E	48_F	1.543	0.94
206_A	215_V	1.537	0.94
170_V	270_I	1.510	0.93
157_R	160_R	1.507	0.93
48_F	101_I	1.507	0.93
128_R	133_S	1.502	0.93
209_D	216_E	1.481	0.92
74_T	78_L	1.477	0.92
179_H	198_D	1.470	0.92
11_A	95_L	1.418	0.91
2_L	98_S	1.414	0.90
154_K	158_K	1.404	0.90
31_F	124_L	1.396	0.90
175_L	268_E	1.379	0.89
55_C	58_F	1.367	0.89
181_Q	184_Q	1.364	0.89
20_W	33_H	1.325	0.87
114_E	118_E	1.320	0.87
52_G	168_A	1.319	0.87
23_P	30_G	1.281	0.85
81_D	85_A	1.279	0.85
176_L	196_W	1.276	0.85
54_V	272_P	1.271	0.85
24_A	191_D	1.267	0.85
20_W	91_G	1.243	0.84
250_A	255_T	1.222	0.83
2_L	143_L	1.219	0.82
26_T	30_G	1.217	0.82
196_W	206_A	1.208	0.82
75_R	85_A	1.204	0.82
33_H	285_Y	1.202	0.82
179_H	182_E	1.198	0.81
198_D	201_R	1.188	0.81
73_L	91_G	1.187	0.81
21_G	30_G	1.178	0.80
109_D	112_D	1.174	0.80
16_S	27_A	1.172	0.80
24_A	33_H	1.161	0.79
53_V	65_G	1.159	0.79
244_P	257_F	1.155	0.79
55_C	274_R	1.152	0.79
39_L	48_F	1.150	0.79
3_L	101_I	1.147	0.78
166_G	172_R	1.147	0.78
124_L	129_L	1.143	0.78
1_L	8_V	1.142	0.78
53_V	206_A	1.139	0.78
204_H	219_Y	1.127	0.77
167_F	176_L	1.125	0.77
50_G	284_R	1.122	0.77
257_F	269_W	1.120	0.77
209_D	212_G	1.118	0.77
87_I	237_A	1.112	0.76
58_F	193_L	1.109	0.76
236_Q	293_L	1.103	0.76
8_V	131_G	1.093	0.75
180_M	260_V	1.092	0.75
100_V	111_D	1.086	0.74
241_L	245_G	1.085	0.74
237_A	292_G	1.080	0.74
219_Y	222_R	1.078	0.74
49_D	104_E	1.077	0.74
131_G	134_I	1.072	0.74
32_V	53_V	1.053	0.72
155_E	235_Y	1.053	0.72
251_R	259_F	1.050	0.72
39_L	161_R	1.046	0.72
194_D	239_S	1.043	0.71
65_G	68_V	1.034	0.71
25_M	28_F	1.034	0.71
276_K	280_Q	1.032	0.71
10_N	94_H	1.031	0.71
254_T	290_E	1.030	0.70
183_L	195_A	1.029	0.70
33_H	60_L	1.018	0.70
287_Y	292_G	1.013	0.69
87_I	160_R	1.009	0.69
79_D	84_T	1.005	0.69
97_V	181_Q	1.005	0.69
173_R	265_S	1.004	0.68
6_L	134_I	0.989	0.67
236_Q	292_G	0.970	0.66
46_L	49_D	0.949	0.64
64_K	242_Y	0.943	0.64
91_G	269_W	0.940	0.63
14_I	71_F	0.940	0.63
151_D	228_L	0.938	0.63
187_N	190_A	0.937	0.63
42_G	139_R	0.935	0.63
285_Y	296_C	0.933	0.63
176_L	179_H	0.932	0.63
263_V	293_L	0.928	0.62
51_V	101_I	0.923	0.62
8_V	207_E	0.923	0.62
136_S	186_Q	0.921	0.62
196_W	266_L	0.916	0.61
265_S	269_W	0.912	0.61
74_T	92_R	0.906	0.60
141_E	162_R	0.904	0.60
31_F	101_I	0.901	0.60
252_D	259_F	0.899	0.60
239_S	259_F	0.898	0.60
114_E	182_E	0.897	0.60
15_S	93_C	0.897	0.60
150_E	186_Q	0.892	0.59
41_A	44_L	0.885	0.59
97_V	127_M	0.885	0.59
103_V	142_L	0.881	0.58
251_R	269_W	0.881	0.58
250_A	257_F	0.872	0.57
279_D	284_R	0.868	0.57
100_V	274_R	0.867	0.57
148_D	243_P	0.862	0.57
26_T	235_Y	0.856	0.56
100_V	123_L	0.855	0.56
74_T	84_T	0.852	0.56
258_R	262_S	0.849	0.55
243_P	246_E	0.848	0.55
175_L	227_W	0.847	0.55
229_V	267_G	0.846	0.55
73_L	88_I	0.841	0.55
7_R	96_E	0.838	0.54
52_G	275_L	0.838	0.54
264_Y	269_W	0.837	0.54
52_G	56_H	0.836	0.54
110_E	113_R	0.836	0.54
4_P	137_I	0.834	0.54
146_P	155_E	0.833	0.54
14_I	18_L	0.830	0.54
196_W	285_Y	0.823	0.53
241_L	281_L	0.822	0.53
72_I	84_T	0.814	0.52
1_L	16_S	0.811	0.52
110_E	119_Q	0.811	0.52
59_Q	93_C	0.810	0.52
174_D	178_E	0.809	0.52
4_P	9_Q	0.807	0.52
174_D	268_E	0.806	0.52
169_L	231_I	0.803	0.51
220_S	223_P	0.801	0.51
62_T	93_C	0.793	0.50
150_E	154_K	0.792	0.50
179_H	247_V	0.789	0.50
65_G	69_Y	0.788	0.50
78_L	265_S	0.787	0.50
77_P	165_P	0.786	0.50
232_P	262_S	0.785	0.50
196_W	265_S	0.779	0.49
205_R	220_S	0.778	0.49
60_L	202_L	0.777	0.49
151_D	162_R	0.772	0.49
219_Y	266_L	0.771	0.48
180_M	183_L	0.769	0.48
180_M	190_A	0.766	0.48
31_F	127_M	0.765	0.48
96_E	124_L	0.763	0.48
51_V	293_L	0.762	0.48
49_D	102_E	0.755	0.47
116_L	278_L	0.754	0.47
28_F	97_V	0.754	0.47
136_S	182_E	0.752	0.47
100_V	282_L	0.750	0.47
2_L	51_V	0.750	0.47
174_D	188_P	0.750	0.47
15_S	90_E	0.749	0.46
21_G	26_T	0.744	0.46
113_R	144_S	0.744	0.46
33_H	228_L	0.744	0.46
206_A	218_Q	0.743	0.46
14_I	28_F	0.741	0.46
63_Y	72_I	0.738	0.45
192_A	196_W	0.734	0.45
11_A	17_P	0.732	0.45
31_F	167_F	0.729	0.45
31_F	134_I	0.727	0.44
102_E	235_Y	0.725	0.44
178_E	240_P	0.723	0.44
64_K	67_Y	0.722	0.44
238_I	290_E	0.721	0.44
123_L	282_L	0.720	0.44
39_L	46_L	0.716	0.44
116_L	120_V	0.713	0.43
204_H	222_R	0.712	0.43
187_N	216_E	0.709	0.43
7_R	57_D	0.709	0.43
81_D	97_V	0.707	0.43
71_F	269_W	0.706	0.43
33_H	220_S	0.706	0.43
64_K	70_S	0.705	0.43
96_E	127_M	0.703	0.42
8_V	28_F	0.703	0.42
8_V	237_A	0.703	0.42
19_T	22_F	0.701	0.42
137_I	140_P	0.700	0.42
59_Q	157_R	0.698	0.42
268_E	271_S	0.697	0.42
58_F	81_D	0.697	0.42
249_N	268_E	0.696	0.42
74_T	77_P	0.695	0.42
143_L	240_P	0.694	0.42
118_E	186_Q	0.694	0.42
76_N	90_E	0.691	0.41
4_P	15_S	0.687	0.41
113_R	117_A	0.687	0.41
73_L	87_I	0.686	0.41
29_L	296_C	0.684	0.41
8_V	108_A	0.684	0.41
19_T	90_E	0.683	0.41
108_A	116_L	0.683	0.41
12_N	15_S	0.681	0.40
59_Q	192_A	0.681	0.40
260_V	269_W	0.681	0.40
54_V	158_K	0.678	0.40
50_G	282_L	0.677	0.40
59_Q	94_H	0.677	0.40
199_L	266_L	0.676	0.40
198_D	206_A	0.676	0.40
207_E	210_E	0.673	0.40
226_G	251_R	0.672	0.40
53_V	197_L	0.671	0.40
102_E	228_L	0.669	0.39
129_L	158_K	0.669	0.39
109_D	291_N	0.665	0.39
139_R	178_E	0.665	0.39
23_P	26_T	0.664	0.39
29_L	51_V	0.663	0.39
81_D	218_Q	0.663	0.39
173_R	233_V	0.662	0.39
63_Y	69_Y	0.662	0.39
122_E	216_E	0.661	0.39
258_R	292_G	0.658	0.38
77_P	90_E	0.652	0.38
111_D	253_P	0.651	0.38
185_Q	276_K	0.650	0.38
175_L	252_D	0.648	0.38
186_Q	243_P	0.647	0.38
156_F	275_L	0.645	0.37
71_F	75_R	0.644	0.37
269_W	273_H	0.643	0.37
150_E	213_D	0.643	0.37
160_R	174_D	0.642	0.37
127_M	203_N	0.642	0.37
101_I	276_K	0.641	0.37
105_G	161_R	0.641	0.37
240_P	246_E	0.640	0.37
287_Y	291_N	0.640	0.37
25_M	206_A	0.640	0.37
18_L	264_Y	0.639	0.37
182_E	246_E	0.639	0.37
289_P	292_G	0.638	0.37
186_Q	266_L	0.637	0.37
251_R	267_G	0.635	0.37
32_V	196_W	0.635	0.37
181_Q	276_K	0.634	0.36
225_K	268_E	0.634	0.36
73_L	84_T	0.633	0.36
192_A	265_S	0.630	0.36
122_E	126_G	0.630	0.36
78_L	81_D	0.629	0.36
65_G	228_L	0.629	0.36
117_A	140_P	0.623	0.36
146_P	151_D	0.621	0.35
182_E	243_P	0.621	0.35
20_W	202_L	0.619	0.35
259_F	271_S	0.618	0.35
16_S	264_Y	0.616	0.35
178_E	277_S	0.614	0.35
22_F	165_P	0.613	0.35
33_H	37_R	0.613	0.35
232_P	265_S	0.612	0.35
53_V	97_V	0.611	0.35
185_Q	279_D	0.610	0.34
124_L	137_I	0.607	0.34
153_E	218_Q	0.606	0.34
41_A	120_V	0.606	0.34
52_G	169_L	0.606	0.34
173_R	266_L	0.605	0.34
139_R	290_E	0.602	0.34
178_E	182_E	0.599	0.34
173_R	295_L	0.599	0.34
275_L	281_L	0.598	0.33
110_E	178_E	0.597	0.33
4_P	175_L	0.596	0.33
83_K	86_A	0.596	0.33
19_T	74_T	0.596	0.33
79_D	82_G	0.596	0.33
8_V	151_D	0.594	0.33
133_S	183_L	0.593	0.33
76_N	92_R	0.589	0.33
90_E	226_G	0.588	0.33
50_G	54_V	0.588	0.33
110_E	117_A	0.587	0.33
176_L	271_S	0.587	0.33
20_W	269_W	0.587	0.33
234_G	261_E	0.586	0.33
15_S	293_L	0.586	0.33
90_E	229_V	0.585	0.32
72_I	257_F	0.584	0.32
117_A	141_E	0.579	0.32
119_Q	122_E	0.579	0.32
285_Y	289_P	0.576	0.32
118_E	122_E	0.575	0.32
106_L	235_Y	0.575	0.32
54_V	228_L	0.574	0.32
26_T	179_H	0.573	0.32
77_P	267_G	0.573	0.32
20_W	179_H	0.573	0.32
120_V	124_L	0.571	0.31
86_A	248_A	0.571	0.31
46_L	201_R	0.571	0.31
101_I	228_L	0.568	0.31
8_V	25_M	0.568	0.31
63_Y	66_G	0.567	0.31
57_D	103_V	0.566	0.31
54_V	163_L	0.565	0.31
88_I	232_P	0.564	0.31
234_G	283_W	0.562	0.31
103_V	118_E	0.562	0.31
27_A	227_W	0.561	0.31
1_L	19_T	0.561	0.31
5_H	138_K	0.561	0.31
89_E	267_G	0.560	0.31
248_A	254_T	0.558	0.30
207_E	216_E	0.557	0.30
230_P	267_G	0.555	0.30
199_L	203_N	0.554	0.30
211_D	254_T	0.551	0.30
179_H	183_L	0.551	0.30
1_L	43_G	0.549	0.30
275_L	278_L	0.546	0.29
30_G	92_R	0.545	0.29
226_G	230_P	0.543	0.29
212_G	266_L	0.543	0.29
236_Q	239_S	0.542	0.29
25_M	231_I	0.542	0.29
4_P	12_N	0.541	0.29
286_H	290_E	0.538	0.29
150_E	211_D	0.538	0.29
27_A	232_P	0.537	0.29
14_I	91_G	0.535	0.29
97_V	101_I	0.532	0.28
25_M	29_L	0.531	0.28
144_S	243_P	0.530	0.28
237_A	241_L	0.530	0.28
27_A	130_A	0.530	0.28
77_P	226_G	0.528	0.28
153_E	216_E	0.528	0.28
54_V	273_H	0.528	0.28
171_E	228_L	0.528	0.28
48_F	99_L	0.526	0.28
24_A	232_P	0.526	0.28
21_G	24_A	0.526	0.28
202_L	228_L	0.525	0.28
164_L	268_E	0.524	0.28
107_I	116_L	0.524	0.28
45_D	142_L	0.523	0.28
97_V	128_R	0.522	0.28
170_V	252_D	0.521	0.28
5_H	119_Q	0.521	0.28
86_A	168_A	0.521	0.28
121_A	125_A	0.520	0.28
17_P	22_F	0.519	0.27
92_R	252_D	0.519	0.27
65_G	204_H	0.519	0.27
283_W	294_Y	0.518	0.27
149_E	185_Q	0.516	0.27
24_A	30_G	0.516	0.27
180_M	195_A	0.515	0.27
29_L	72_I	0.514	0.27
35_L	99_L	0.513	0.27
83_K	154_K	0.510	0.27
111_D	118_E	0.510	0.27
174_D	265_S	0.510	0.27
100_V	275_L	0.509	0.27
170_V	197_L	0.509	0.27
123_L	182_E	0.508	0.27
152_R	155_E	0.506	0.27
57_D	106_L	0.505	0.26
8_V	18_L	0.504	0.26
182_E	240_P	0.504	0.26
14_I	20_W	0.502	0.26
192_A	215_V	0.502	0.26
104_E	207_E	0.502	0.26
272_P	276_K	0.500	0.26

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
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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
1jmtB	1	0.0777	7.5	0.974	Contact Map
3ks6A	1	0.7061	7	0.974	Contact Map
2o55A	1	0.7466	6.8	0.974	Contact Map
3no3A	1	0.7027	6.2	0.975	Contact Map
2vh3A	2	0.348	4.6	0.976	Contact Map
4tp8S	1	0.2601	3.4	0.978	Contact Map
2mofA	1	0.125	3.4	0.978	Contact Map
4r7oA	4	0.7568	3.2	0.978	Contact Map
4qplA	1	0.1892	2.7	0.979	Contact Map
4oecA	1	0.7162	2.7	0.979	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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