Beta_protein - PFAM28P - GREMLIN Contacts

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Beta_protein - Beta protein

PFAM:	PF14350	Sequences: YVPILKWKQGELKALEELSPAVKDRITPLIELPPEKRKPKKTLDEHLDKFAKRLAKAWGGRPPFFLDLLLDPDELTSDGRHPLEELFELLRAAGLNAIPVIGLDRDDDGYLAAVVAQIAARDGFRGVALRLRLEDFDPDLEADIEALLAALGLSPEEVDLILDLGAVDPADADALAAAIRALLALLPDLGWRSIIVAGTSFPKSLSGIGKTDGTGEIPRLEWLLWKALRRSALPRRPIFGDYGIIHPEYSEGGGRPSPKIRYTTDDSWLIVRGRSVRKGDGFEQYRDLAKRLVASPEFRGADFSWGDQYIAECANGTAGTGNPTTWRAVGTNHHLTLVVR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	340 (336)
Sequences:	1624 (1490)
Seq/√Len:	81.3
META:	0.693

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
159_D	192_R	6.116	1.00
4_I	197_A	5.525	1.00
197_A	240_G	4.474	1.00
24_D	61_R	3.765	1.00
22_V	336_T	3.478	1.00
126_G	159_D	3.461	1.00
102_G	105_R	3.413	1.00
200_S	221_E	3.393	1.00
9_Q	324_T	3.364	1.00
243_G	331_T	3.296	1.00
15_L	30_I	3.015	1.00
126_G	192_R	2.996	1.00
101_I	111_L	2.886	1.00
101_I	105_R	2.841	1.00
2_V	29_L	2.791	1.00
198_G	221_E	2.771	1.00
128_A	161_I	2.744	1.00
308_Q	312_E	2.713	1.00
65_F	128_A	2.615	1.00
7_W	12_L	2.614	1.00
271_V	292_L	2.536	1.00
244_I	330_G	2.443	1.00
309_Y	312_E	2.353	1.00
91_R	122_D	2.341	1.00
305_W	328_A	2.317	1.00
27_T	65_F	2.315	1.00
67_D	130_R	2.259	1.00
327_R	331_T	2.217	1.00
216_E	267_S	2.193	1.00
311_A	315_N	2.185	1.00
304_S	307_D	2.168	1.00
309_Y	329_V	2.134	1.00
26_I	335_L	2.133	1.00
226_K	266_D	2.082	1.00
7_W	30_I	2.078	1.00
2_V	238_I	2.033	1.00
129_L	144_I	2.015	1.00
261_R	327_R	2.011	1.00
245_I	327_R	1.987	1.00
322_N	325_T	1.985	1.00
22_V	339_V	1.981	1.00
259_K	327_R	1.951	1.00
273_G	284_Q	1.937	1.00
286_R	316_G	1.908	1.00
17_E	328_A	1.892	1.00
303_F	307_D	1.892	1.00
2_V	195_I	1.853	1.00
332_N	336_T	1.813	1.00
293_V	314_A	1.788	1.00
301_A	311_A	1.768	1.00
19_S	22_V	1.761	1.00
263_T	268_W	1.725	1.00
299_R	337_L	1.695	1.00
300_G	303_F	1.674	1.00
321_G	326_W	1.673	1.00
4_I	31_E	1.666	1.00
18_L	23_K	1.617	1.00
307_D	333_H	1.569	1.00
6_K	31_E	1.563	1.00
10_G	331_T	1.555	1.00
18_L	332_N	1.552	1.00
263_T	333_H	1.546	1.00
160_L	191_W	1.536	0.99
195_I	240_G	1.507	0.99
29_L	161_I	1.496	0.99
196_V	228_L	1.483	0.99
3_P	28_P	1.468	0.99
303_F	336_T	1.461	0.99
286_R	320_T	1.461	0.99
263_T	337_L	1.461	0.99
262_Y	292_L	1.456	0.99
18_L	336_T	1.452	0.99
300_G	307_D	1.437	0.99
128_A	197_A	1.424	0.99
64_F	95_L	1.419	0.99
201_F	268_W	1.416	0.99
255_R	275_S	1.413	0.99
313_C	329_V	1.405	0.99
4_I	240_G	1.405	0.99
276_V	282_F	1.402	0.99
65_F	159_D	1.398	0.99
222_W	225_W	1.394	0.99
321_G	325_T	1.393	0.99
239_F	268_W	1.390	0.99
12_L	53_R	1.381	0.99
195_I	238_I	1.355	0.99
256_P	323_P	1.346	0.99
159_D	193_S	1.326	0.98
194_I	237_P	1.324	0.98
65_F	100_V	1.299	0.98
36_K	39_P	1.295	0.98
258_P	285_Y	1.290	0.98
9_Q	12_L	1.285	0.98
159_D	195_I	1.279	0.98
258_P	276_V	1.271	0.98
312_E	317_T	1.270	0.98
127_V	158_V	1.266	0.98
259_K	288_L	1.264	0.98
311_A	314_A	1.260	0.98
285_Y	323_P	1.256	0.98
9_Q	13_K	1.255	0.98
18_L	26_I	1.253	0.98
331_T	335_L	1.240	0.98
16_E	56_K	1.229	0.97
10_G	324_T	1.223	0.97
301_A	315_N	1.220	0.97
325_T	328_A	1.215	0.97
65_F	193_S	1.215	0.97
131_L	135_D	1.206	0.97
183_L	194_I	1.196	0.97
305_W	332_N	1.195	0.97
75_L	81_H	1.188	0.97
122_D	125_R	1.180	0.97
327_R	330_G	1.176	0.97
111_L	114_V	1.175	0.97
306_G	332_N	1.165	0.97
30_I	64_F	1.163	0.96
127_V	153_L	1.160	0.96
193_S	238_I	1.145	0.96
6_K	197_A	1.141	0.96
262_Y	307_D	1.140	0.96
245_I	331_T	1.140	0.96
90_L	95_L	1.134	0.96
324_T	328_A	1.132	0.96
18_L	32_L	1.128	0.96
307_D	332_N	1.126	0.96
269_L	297_E	1.124	0.96
260_I	288_L	1.118	0.96
245_I	259_K	1.112	0.95
105_R	111_L	1.108	0.95
64_F	97_A	1.104	0.95
31_E	130_R	1.100	0.95
132_R	135_D	1.091	0.95
103_L	135_D	1.082	0.95
299_R	333_H	1.082	0.95
320_T	326_W	1.079	0.95
282_F	320_T	1.077	0.95
205_L	259_K	1.073	0.94
292_L	295_S	1.070	0.94
281_G	284_Q	1.070	0.94
260_I	289_A	1.070	0.94
201_F	261_R	1.068	0.94
8_K	321_G	1.063	0.94
201_F	246_H	1.057	0.94
201_F	257_S	1.051	0.94
130_R	163_D	1.051	0.94
147_L	151_L	1.049	0.94
68_L	83_L	1.047	0.94
42_T	45_E	1.039	0.93
17_E	305_W	1.034	0.93
333_H	338_V	1.028	0.93
276_V	323_P	1.024	0.93
293_V	311_A	1.020	0.93
336_T	339_V	1.014	0.93
262_Y	300_G	1.011	0.92
310_I	329_V	1.009	0.92
115_V	119_A	1.007	0.92
13_K	16_E	1.006	0.92
81_H	85_E	1.005	0.92
325_T	329_V	1.003	0.92
271_V	291_R	0.998	0.92
141_E	145_E	0.997	0.92
1_Y	5_L	0.996	0.92
259_K	330_G	0.995	0.92
13_K	17_E	0.995	0.92
98_I	128_A	0.990	0.92
91_R	125_R	0.982	0.91
305_W	308_Q	0.979	0.91
164_L	196_V	0.977	0.91
23_K	59_G	0.976	0.91
290_K	294_A	0.975	0.91
215_G	272_R	0.972	0.91
89_L	92_A	0.969	0.91
275_S	279_G	0.969	0.91
48_D	52_K	0.969	0.91
19_S	336_T	0.963	0.91
165_G	248_E	0.961	0.90
306_G	329_V	0.957	0.90
2_V	27_T	0.954	0.90
222_W	338_V	0.952	0.90
319_G	322_N	0.952	0.90
16_E	53_R	0.952	0.90
23_K	58_W	0.944	0.90
219_R	307_D	0.940	0.89
313_C	316_G	0.935	0.89
29_L	65_F	0.933	0.89
293_V	298_F	0.931	0.89
287_D	291_R	0.924	0.89
285_Y	289_A	0.922	0.89
274_R	280_D	0.906	0.88
161_I	240_G	0.906	0.88
187_P	191_W	0.906	0.88
53_R	56_K	0.904	0.88
7_W	33_P	0.904	0.88
261_R	330_G	0.903	0.88
323_P	327_R	0.901	0.87
1_Y	28_P	0.895	0.87
100_V	130_R	0.894	0.87
101_I	114_V	0.891	0.87
173_D	296_P	0.888	0.87
2_V	65_F	0.888	0.87
193_S	330_G	0.887	0.87
301_A	308_Q	0.886	0.87
110_Y	113_A	0.885	0.86
20_P	24_D	0.879	0.86
326_W	329_V	0.879	0.86
3_P	26_I	0.879	0.86
285_Y	329_V	0.877	0.86
4_I	29_L	0.869	0.85
205_L	272_R	0.865	0.85
289_A	327_R	0.864	0.85
203_K	248_E	0.859	0.85
259_K	289_A	0.855	0.84
221_E	268_W	0.850	0.84
300_G	333_H	0.850	0.84
330_G	333_H	0.849	0.84
218_P	267_S	0.849	0.84
208_I	215_G	0.847	0.84
220_L	223_L	0.845	0.84
65_F	161_I	0.844	0.84
252_G	257_S	0.842	0.84
298_F	304_S	0.840	0.83
174_A	178_A	0.834	0.83
258_P	323_P	0.833	0.83
72_P	75_L	0.830	0.83
303_F	333_H	0.828	0.83
201_F	205_L	0.828	0.83
143_D	147_L	0.825	0.82
110_Y	114_V	0.824	0.82
18_L	22_V	0.820	0.82
1_Y	11_E	0.815	0.82
219_R	261_R	0.814	0.81
304_S	336_T	0.813	0.81
201_F	259_K	0.812	0.81
30_I	54_L	0.811	0.81
12_L	57_A	0.809	0.81
216_E	269_L	0.802	0.81
302_D	308_Q	0.797	0.80
304_S	333_H	0.790	0.80
52_K	56_K	0.788	0.79
219_R	222_W	0.788	0.79
8_K	327_R	0.787	0.79
217_I	272_R	0.786	0.79
8_K	219_R	0.785	0.79
258_P	281_G	0.785	0.79
178_A	181_A	0.784	0.79
10_G	328_A	0.783	0.79
111_L	115_V	0.782	0.79
245_I	261_R	0.781	0.79
310_I	326_W	0.780	0.79
205_L	209_G	0.780	0.79
70_L	73_D	0.777	0.78
6_K	11_E	0.776	0.78
199_T	275_S	0.769	0.78
258_P	284_Q	0.766	0.77
1_Y	8_K	0.765	0.77
167_V	171_D	0.761	0.77
263_T	307_D	0.760	0.77
244_I	327_R	0.758	0.77
130_R	242_Y	0.757	0.77
108_D	207_G	0.755	0.76
308_Q	311_A	0.754	0.76
244_I	263_T	0.751	0.76
34_P	285_Y	0.751	0.76
244_I	259_K	0.750	0.76
87_F	260_I	0.749	0.76
263_T	338_V	0.748	0.76
276_V	285_Y	0.747	0.76
212_D	274_R	0.744	0.75
87_F	97_A	0.743	0.75
20_P	61_R	0.738	0.75
171_D	225_W	0.734	0.74
34_P	245_I	0.734	0.74
142_A	146_A	0.733	0.74
327_R	333_H	0.729	0.74
219_R	270_I	0.726	0.74
129_L	148_L	0.724	0.73
249_Y	327_R	0.722	0.73
151_L	158_V	0.722	0.73
27_T	238_I	0.720	0.73
105_R	110_Y	0.719	0.73
306_G	333_H	0.718	0.73
313_C	320_T	0.715	0.72
219_R	263_T	0.714	0.72
205_L	217_I	0.713	0.72
289_A	306_G	0.712	0.72
6_K	272_R	0.709	0.72
58_W	61_R	0.708	0.72
54_L	58_W	0.707	0.72
257_S	272_R	0.706	0.71
13_K	328_A	0.702	0.71
172_A	175_L	0.701	0.71
148_L	155_P	0.697	0.70
260_I	305_W	0.697	0.70
143_D	180_R	0.693	0.70
254_G	275_S	0.691	0.70
223_L	226_K	0.689	0.70
214_T	269_L	0.687	0.69
284_Q	288_L	0.686	0.69
5_L	11_E	0.683	0.69
29_L	100_V	0.681	0.69
259_K	285_Y	0.680	0.69
35_E	49_K	0.679	0.68
292_L	297_E	0.679	0.68
27_T	98_I	0.677	0.68
58_W	98_I	0.673	0.68
118_I	150_A	0.673	0.68
150_A	180_R	0.671	0.68
288_L	291_R	0.671	0.68
6_K	242_Y	0.670	0.67
272_R	279_G	0.669	0.67
75_L	106_D	0.666	0.67
183_L	186_L	0.666	0.67
15_L	58_W	0.666	0.67
259_K	273_G	0.664	0.67
66_L	90_L	0.661	0.66
219_R	262_Y	0.661	0.66
52_K	93_A	0.658	0.66
189_L	235_R	0.656	0.66
112_A	116_A	0.656	0.66
244_I	331_T	0.656	0.66
149_A	317_T	0.656	0.66
243_G	327_R	0.655	0.66
258_P	275_S	0.655	0.66
27_T	159_D	0.655	0.66
171_D	227_A	0.654	0.66
219_R	225_W	0.654	0.66
320_T	325_T	0.650	0.65
244_I	261_R	0.649	0.65
264_T	267_S	0.644	0.64
37_R	40_K	0.644	0.64
290_K	316_G	0.644	0.64
309_Y	325_T	0.642	0.64
303_F	338_V	0.640	0.64
49_K	54_L	0.636	0.63
112_A	115_V	0.636	0.63
89_L	93_A	0.635	0.63
42_T	46_H	0.635	0.63
269_L	292_L	0.634	0.63
228_L	232_A	0.634	0.63
253_G	272_R	0.633	0.63
90_L	97_A	0.633	0.63
119_A	123_G	0.633	0.63
257_S	288_L	0.632	0.63
7_W	50_F	0.632	0.63
199_T	246_H	0.631	0.63
16_E	55_A	0.631	0.63
173_D	186_L	0.631	0.63
88_E	121_R	0.627	0.62
219_R	334_H	0.627	0.62
300_G	304_S	0.623	0.62
260_I	313_C	0.621	0.62
289_A	313_C	0.619	0.61
8_K	34_P	0.619	0.61
78_D	157_E	0.615	0.61
67_D	100_V	0.615	0.61
8_K	11_E	0.614	0.61
45_E	278_K	0.614	0.61
32_L	56_K	0.614	0.61
83_L	87_F	0.614	0.61
34_P	327_R	0.614	0.61
307_D	311_A	0.612	0.60
47_L	128_A	0.612	0.60
81_H	113_A	0.610	0.60
4_I	128_A	0.608	0.60
219_R	304_S	0.608	0.60
10_G	219_R	0.605	0.60
298_F	307_D	0.605	0.60
304_S	321_G	0.605	0.60
307_D	314_A	0.605	0.60
116_A	156_E	0.604	0.59
98_I	142_A	0.604	0.59
8_K	324_T	0.603	0.59
200_S	268_W	0.602	0.59
56_K	139_D	0.601	0.59
202_P	327_R	0.600	0.59
61_R	64_F	0.599	0.59
31_E	242_Y	0.598	0.59
219_R	244_I	0.598	0.59
191_W	330_G	0.597	0.59
310_I	332_N	0.596	0.58
14_A	247_P	0.596	0.58
259_K	270_I	0.596	0.58
288_L	292_L	0.595	0.58
11_E	15_L	0.594	0.58
214_T	291_R	0.594	0.58
161_I	197_A	0.594	0.58
172_A	179_I	0.591	0.58
5_L	243_G	0.590	0.58
262_Y	333_H	0.587	0.57
199_T	221_E	0.587	0.57
212_D	257_S	0.587	0.57
128_A	132_R	0.586	0.57
161_I	195_I	0.584	0.57
27_T	30_I	0.583	0.57
160_L	207_G	0.582	0.57
38_K	150_A	0.582	0.57
180_R	184_A	0.581	0.57
87_F	118_I	0.581	0.57
4_I	94_G	0.580	0.56
249_Y	285_Y	0.579	0.56
175_L	224_L	0.579	0.56
218_P	223_L	0.577	0.56
245_I	330_G	0.576	0.56
268_W	272_R	0.574	0.56
257_S	261_R	0.574	0.56
56_K	134_E	0.572	0.55
147_L	272_R	0.571	0.55
138_P	240_G	0.570	0.55
290_K	293_V	0.570	0.55
20_P	339_V	0.569	0.55
260_I	292_L	0.569	0.55
21_A	294_A	0.569	0.55
254_G	272_R	0.569	0.55
270_I	323_P	0.567	0.55
184_A	187_P	0.566	0.55
328_A	332_N	0.566	0.55
288_L	313_C	0.566	0.55
27_T	193_S	0.566	0.55
82_P	101_I	0.565	0.54
10_G	327_R	0.564	0.54
11_E	333_H	0.564	0.54
55_A	60_G	0.564	0.54
52_K	190_G	0.564	0.54
310_I	330_G	0.564	0.54
163_D	242_Y	0.563	0.54
118_I	153_L	0.563	0.54
21_A	296_P	0.562	0.54
205_L	330_G	0.561	0.54
176_A	179_I	0.560	0.54
119_A	141_E	0.558	0.54
313_C	318_A	0.557	0.53
168_D	171_D	0.555	0.53
9_Q	57_A	0.554	0.53
262_Y	303_F	0.550	0.53
273_G	288_L	0.549	0.52
264_T	299_R	0.548	0.52
198_G	239_F	0.547	0.52
207_G	311_A	0.547	0.52
244_I	249_Y	0.547	0.52
208_I	217_I	0.547	0.52
228_L	237_P	0.547	0.52
132_R	165_G	0.546	0.52
56_K	149_A	0.544	0.52
242_Y	307_D	0.544	0.52
199_T	245_I	0.544	0.52
230_R	233_L	0.544	0.52
71_D	74_E	0.544	0.52
160_L	190_G	0.542	0.51
35_E	38_K	0.541	0.51
72_P	76_T	0.538	0.51
116_A	119_A	0.538	0.51
39_P	45_E	0.537	0.51
152_G	190_G	0.536	0.51
223_L	266_D	0.535	0.51
126_G	335_L	0.535	0.51
281_G	285_Y	0.534	0.50
69_L	132_R	0.532	0.50
9_Q	53_R	0.530	0.50
66_L	98_I	0.529	0.50
144_I	162_L	0.529	0.50
20_P	142_A	0.528	0.50
54_L	124_F	0.528	0.50
50_F	66_L	0.528	0.50
100_V	161_I	0.527	0.50
309_Y	320_T	0.526	0.49
254_G	257_S	0.524	0.49
182_L	186_L	0.524	0.49
100_V	128_A	0.523	0.49
65_F	68_L	0.523	0.49
127_V	201_F	0.523	0.49
59_G	95_L	0.522	0.49
194_I	278_K	0.521	0.49
126_G	157_E	0.520	0.49
29_L	130_R	0.518	0.48
261_R	273_G	0.517	0.48
111_L	116_A	0.516	0.48
249_Y	331_T	0.515	0.48
55_A	162_L	0.515	0.48
276_V	281_G	0.514	0.48
145_E	148_L	0.514	0.48
145_E	161_I	0.513	0.48
41_K	45_E	0.513	0.48
14_A	30_I	0.513	0.48
299_R	303_F	0.513	0.48
301_A	312_E	0.513	0.48
86_L	282_F	0.512	0.48
41_K	86_L	0.511	0.47
39_P	42_T	0.510	0.47
54_L	61_R	0.510	0.47
83_L	90_L	0.510	0.47
51_A	54_L	0.509	0.47
194_I	235_R	0.508	0.47
88_E	91_R	0.507	0.47
84_E	94_G	0.507	0.47
257_S	323_P	0.506	0.47
19_S	45_E	0.506	0.47
141_E	196_V	0.504	0.47
83_L	86_L	0.503	0.46
26_I	162_L	0.502	0.46
326_W	333_H	0.501	0.46
232_A	296_P	0.500	0.46
249_Y	270_I	0.500	0.46
176_A	180_R	0.500	0.46

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
3n4sA	2	0.1353	19	0.96	Contact Map
2x49A	1	0.3529	9.4	0.965	Contact Map
2hzmB	1	0.1647	7.5	0.967	Contact Map
2q2kA	3	0.1324	6.8	0.967	Contact Map
2lusA	1	0.3941	5.5	0.969	Contact Map
4fyuA	3	0.4029	5.4	0.969	Contact Map
3ayhA	1	0.1588	3.4	0.971	Contact Map
1th8B	1	0.3382	3.4	0.971	Contact Map
1xk7A	2	0.4588	3.3	0.972	Contact Map
2yimA	2	0.3824	3.3	0.972	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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