YYAD - BACSU - GREMLIN Contacts

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YYAD - Uncharacterized protein YyaD

UniProt:	P37520	Sequences: MLWRAGMKWMLLILGSLIGAGYASGQEIWQFFGAESGLAIVLFTIMFIFSSYIVMKISFKVQSTHFLPVLEHLMGPWLAKIYDVLIIFYLFSTTMVMIAGGGVTLQMYKLPFWWGITLICIVTVCLFLWDVKGILSINSILIPVLVAGLLYALISFQSTHHHTWTIDLSQQYNWPASITFTSLNILSVVAILSSVGKEMKGLGEAKIASVASGLIFGVISFVYNETLVELAGSLSQFEIPLFAVLEGAPYFLFLCMTAVLCLAIYTTTVAGLLGLSSRLMAFIHMPRWMIVLILLVLMVPFTSFGFSDLIAFLYPIYGMLNLYLLVCLLLYPILSKWK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	338 (329)
Sequences:	891 (730)
Seq/√Len:	40.3

BACSU - YYAD YKVI

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
126_L	265_Y	7.755	1.00
14_L	215_I	5.532	1.00
96_V	309_L	5.201	1.00
36_S	224_N	4.864	1.00
60_K	202_L	4.440	1.00
26_Q	30_Q	3.896	1.00
238_E	307_S	3.841	1.00
83_D	278_R	3.680	1.00
36_S	39_A	3.659	1.00
44_T	217_G	3.465	1.00
75_G	79_A	3.427	1.00
13_I	51_S	3.318	1.00
111_P	114_W	3.256	1.00
209_S	213_G	2.944	1.00
99_A	305_G	2.915	1.00
48_I	213_G	2.756	1.00
296_V	300_P	2.650	1.00
10_M	211_A	2.630	1.00
183_L	187_S	2.455	1.00
37_G	224_N	2.397	1.00
184_N	216_F	2.265	1.00
6_G	207_I	2.236	1.00
52_Y	209_S	2.196	0.99
91_F	95_M	2.175	0.99
15_G	20_A	2.170	0.99
6_G	211_A	2.137	0.99
111_P	132_K	2.076	0.99
194_S	263_A	2.054	0.99
148_G	259_V	1.882	0.98
50_S	325_L	1.864	0.98
26_Q	29_W	1.859	0.98
24_S	217_G	1.859	0.98
208_A	212_S	1.809	0.98
51_S	212_S	1.801	0.98
35_E	38_L	1.798	0.98
13_I	212_S	1.766	0.98
87_I	279_L	1.748	0.97
207_I	211_A	1.743	0.97
52_Y	206_K	1.737	0.97
47_F	184_N	1.736	0.97
15_G	142_I	1.730	0.97
24_S	71_E	1.699	0.97
124_V	295_L	1.691	0.97
5_A	8_K	1.663	0.96
91_F	298_M	1.608	0.96
162_H	165_T	1.583	0.95
31_F	74_M	1.568	0.95
121_I	326_V	1.566	0.95
157_Q	258_A	1.547	0.95
118_L	154_I	1.545	0.95
249_P	252_L	1.531	0.94
226_T	244_V	1.530	0.94
76_P	80_K	1.525	0.94
151_Y	255_C	1.516	0.94
259_V	286_P	1.516	0.94
151_Y	211_A	1.516	0.94
156_F	160_H	1.513	0.94
302_T	305_G	1.509	0.94
142_I	266_T	1.472	0.93
78_L	81_I	1.459	0.93
46_M	181_T	1.443	0.92
103_V	238_E	1.434	0.92
142_I	263_A	1.432	0.92
120_C	295_L	1.425	0.92
121_I	125_C	1.414	0.91
28_I	224_N	1.411	0.91
22_Y	220_S	1.394	0.91
191_I	194_S	1.373	0.90
13_I	17_L	1.371	0.90
123_T	268_T	1.369	0.90
105_L	118_L	1.355	0.90
94_T	272_L	1.354	0.90
263_A	266_T	1.345	0.89
254_L	296_V	1.342	0.89
7_M	45_I	1.339	0.89
18_I	263_A	1.332	0.89
83_D	142_I	1.326	0.89
97_M	264_I	1.326	0.89
24_S	239_I	1.318	0.88
138_N	263_A	1.309	0.88
65_H	68_P	1.302	0.88
88_F	284_H	1.301	0.88
206_K	210_V	1.298	0.87
241_L	256_M	1.297	0.87
71_E	80_K	1.295	0.87
171_Q	174_W	1.294	0.87
182_S	322_L	1.293	0.87
89_Y	183_L	1.293	0.87
40_I	220_S	1.280	0.87
20_A	143_P	1.273	0.86
125_C	211_A	1.272	0.86
71_E	178_I	1.269	0.86
12_L	129_W	1.267	0.86
183_L	273_L	1.259	0.86
104_T	257_T	1.258	0.86
50_S	181_T	1.250	0.85
218_V	247_G	1.247	0.85
63_S	270_A	1.240	0.85
102_G	115_G	1.233	0.85
214_L	292_L	1.229	0.84
26_Q	100_G	1.228	0.84
28_I	220_S	1.213	0.84
45_I	54_V	1.208	0.83
177_S	181_T	1.206	0.83
93_T	101_G	1.205	0.83
10_M	212_S	1.199	0.83
153_L	157_Q	1.197	0.83
70_L	145_L	1.188	0.82
152_A	245_L	1.188	0.82
47_F	181_T	1.187	0.82
16_S	263_A	1.187	0.82
145_L	224_N	1.182	0.82
101_G	261_C	1.176	0.82
47_F	216_F	1.174	0.82
237_F	243_A	1.162	0.81
23_A	269_V	1.159	0.81
101_G	256_M	1.153	0.80
56_K	206_K	1.135	0.79
110_L	118_L	1.134	0.79
51_S	208_A	1.124	0.79
125_C	164_W	1.123	0.79
17_L	216_F	1.118	0.78
299_V	303_S	1.115	0.78
25_G	32_F	1.115	0.78
137_I	286_P	1.114	0.78
143_P	306_F	1.104	0.77
176_A	291_V	1.102	0.77
51_S	213_G	1.101	0.77
16_S	138_N	1.099	0.77
111_P	155_S	1.096	0.77
134_I	192_L	1.092	0.77
15_G	241_L	1.086	0.76
127_F	291_V	1.082	0.76
223_Y	245_L	1.079	0.76
38_L	42_L	1.078	0.76
11_L	16_S	1.075	0.75
227_L	239_I	1.070	0.75
76_P	312_F	1.069	0.75
17_L	184_N	1.066	0.75
9_W	152_A	1.066	0.75
88_F	326_V	1.063	0.75
12_L	139_S	1.060	0.74
11_L	273_L	1.055	0.74
275_L	294_L	1.046	0.73
118_L	165_T	1.042	0.73
172_Y	316_I	1.040	0.73
153_L	222_V	1.039	0.73
165_T	214_L	1.036	0.73
75_G	213_G	1.035	0.73
56_K	59_F	1.034	0.73
31_F	315_P	1.034	0.73
157_Q	293_I	1.021	0.72
223_Y	241_L	1.013	0.71
150_L	222_V	1.007	0.71
152_A	316_I	1.006	0.70
41_V	150_L	1.000	0.70
97_M	143_P	0.999	0.70
31_F	317_Y	0.999	0.70
100_G	143_P	0.993	0.69
47_F	226_T	0.988	0.69
190_A	301_F	0.987	0.69
251_F	316_I	0.983	0.69
5_A	225_E	0.977	0.68
20_A	142_I	0.974	0.68
69_V	272_L	0.965	0.67
168_L	297_L	0.965	0.67
280_M	290_I	0.963	0.67
142_I	273_L	0.960	0.67
49_F	332_P	0.956	0.66
23_A	267_T	0.954	0.66
12_L	16_S	0.952	0.66
58_S	63_S	0.951	0.66
22_Y	219_I	0.949	0.66
262_L	292_L	0.948	0.66
121_I	161_H	0.948	0.66
96_V	310_I	0.943	0.65
308_D	312_F	0.941	0.65
26_Q	306_F	0.939	0.65
217_G	310_I	0.937	0.65
153_L	297_L	0.934	0.65
42_L	106_Q	0.934	0.65
222_V	329_L	0.932	0.64
143_P	315_P	0.928	0.64
88_F	154_I	0.926	0.64
179_T	188_V	0.924	0.64
66_F	278_R	0.923	0.64
22_Y	47_F	0.919	0.63
24_S	219_I	0.916	0.63
41_V	326_V	0.916	0.63
178_I	239_I	0.914	0.63
59_F	201_G	0.908	0.62
99_A	144_V	0.906	0.62
163_T	218_V	0.904	0.62
203_G	206_K	0.902	0.62
81_I	157_Q	0.901	0.62
58_S	69_V	0.897	0.61
97_M	268_T	0.895	0.61
163_T	201_G	0.885	0.60
187_S	275_L	0.883	0.60
51_S	188_V	0.876	0.60
58_S	196_G	0.875	0.60
97_M	306_F	0.874	0.59
322_L	326_V	0.874	0.59
63_S	219_I	0.869	0.59
134_I	137_I	0.865	0.59
48_I	182_S	0.864	0.59
99_A	294_L	0.864	0.59
219_I	317_Y	0.861	0.58
262_L	266_T	0.859	0.58
157_Q	296_V	0.858	0.58
142_I	191_I	0.857	0.58
251_F	258_A	0.856	0.58
306_F	315_P	0.855	0.58
22_Y	180_F	0.850	0.57
27_E	184_N	0.840	0.56
127_F	269_V	0.835	0.56
143_P	265_Y	0.829	0.55
260_L	301_F	0.825	0.55
194_S	205_A	0.825	0.55
211_A	215_I	0.823	0.55
246_E	253_F	0.822	0.55
215_I	219_I	0.820	0.55
196_G	267_T	0.818	0.54
27_E	97_M	0.818	0.54
24_S	331_Y	0.808	0.53
280_M	286_P	0.808	0.53
39_A	325_L	0.808	0.53
62_Q	161_H	0.807	0.53
72_H	331_Y	0.798	0.53
167_D	170_Q	0.797	0.52
42_L	178_I	0.795	0.52
177_S	252_L	0.795	0.52
79_A	189_V	0.790	0.52
42_L	199_M	0.790	0.52
151_Y	235_S	0.788	0.52
134_I	276_S	0.787	0.52
116_I	120_C	0.786	0.51
15_G	273_L	0.786	0.51
6_G	220_S	0.784	0.51
87_I	233_S	0.783	0.51
83_D	277_S	0.783	0.51
101_G	171_Q	0.782	0.51
98_I	123_T	0.782	0.51
266_T	316_I	0.780	0.51
285_M	300_P	0.777	0.51
186_L	324_L	0.776	0.51
255_C	285_M	0.774	0.50
8_K	145_L	0.773	0.50
201_G	204_E	0.771	0.50
74_M	183_L	0.770	0.50
81_I	222_V	0.768	0.50
5_A	85_L	0.766	0.50
171_Q	175_P	0.765	0.50
263_A	271_G	0.764	0.49
31_F	179_T	0.763	0.49
266_T	272_L	0.763	0.49
128_L	154_I	0.762	0.49
245_L	306_F	0.761	0.49
121_I	284_H	0.761	0.49
129_W	133_G	0.756	0.49
124_V	128_L	0.755	0.49
286_P	289_M	0.755	0.49
15_G	270_A	0.754	0.49
53_I	193_S	0.750	0.48
13_I	119_I	0.749	0.48
109_K	239_I	0.748	0.48
15_G	138_N	0.748	0.48
9_W	208_A	0.746	0.48
45_I	84_V	0.745	0.48
318_G	321_N	0.745	0.48
90_L	119_I	0.744	0.48
220_S	260_L	0.741	0.47
93_T	260_L	0.738	0.47
137_I	291_V	0.737	0.47
289_M	329_L	0.735	0.47
179_T	182_S	0.732	0.46
183_L	322_L	0.731	0.46
200_K	258_A	0.730	0.46
150_L	157_Q	0.730	0.46
71_E	203_G	0.730	0.46
315_P	318_G	0.728	0.46
294_L	304_F	0.725	0.46
255_C	290_I	0.724	0.46
83_D	267_T	0.722	0.46
96_V	261_C	0.721	0.45
81_I	163_T	0.721	0.45
15_G	263_A	0.718	0.45
127_F	148_G	0.718	0.45
131_V	256_M	0.717	0.45
26_Q	307_S	0.717	0.45
84_V	214_L	0.717	0.45
38_L	296_V	0.714	0.45
12_L	253_F	0.713	0.45
125_C	225_E	0.712	0.45
131_V	193_S	0.705	0.44
96_V	213_G	0.704	0.44
300_P	304_F	0.704	0.44
151_Y	168_L	0.702	0.44
45_I	121_I	0.700	0.44
69_V	81_I	0.700	0.44
204_E	207_I	0.699	0.43
121_I	297_L	0.699	0.43
82_Y	86_I	0.698	0.43
66_F	138_N	0.698	0.43
18_I	23_A	0.697	0.43
19_G	25_G	0.697	0.43
143_P	318_G	0.697	0.43
152_A	226_T	0.695	0.43
121_I	330_L	0.694	0.43
41_V	45_I	0.693	0.43
260_L	268_T	0.693	0.43
139_S	253_F	0.692	0.43
258_A	281_A	0.690	0.43
20_A	306_F	0.689	0.43
101_G	183_L	0.689	0.43
6_G	234_L	0.682	0.42
35_E	214_L	0.681	0.42
77_W	81_I	0.680	0.42
82_Y	104_T	0.679	0.42
272_L	298_M	0.678	0.42
179_T	239_I	0.676	0.41
56_K	60_K	0.673	0.41
94_T	271_G	0.673	0.41
85_L	320_L	0.673	0.41
40_I	48_I	0.672	0.41
41_V	84_V	0.672	0.41
138_N	271_G	0.667	0.41
157_Q	161_H	0.667	0.41
16_S	23_A	0.666	0.41
162_H	166_I	0.664	0.40
42_L	175_P	0.662	0.40
26_Q	245_L	0.662	0.40
179_T	245_L	0.661	0.40
276_S	287_R	0.660	0.40
20_A	315_P	0.659	0.40
113_W	303_S	0.659	0.40
268_T	278_R	0.658	0.40
279_L	290_I	0.657	0.40
203_G	211_A	0.657	0.40
42_L	236_Q	0.653	0.39
153_L	176_A	0.653	0.39
121_I	289_M	0.653	0.39
7_M	326_V	0.652	0.39
62_Q	203_G	0.651	0.39
60_K	151_Y	0.650	0.39
136_S	288_W	0.649	0.39
110_L	225_E	0.647	0.39
172_Y	210_V	0.646	0.39
121_I	203_G	0.646	0.39
181_T	217_G	0.644	0.39
161_H	164_W	0.643	0.39
124_V	292_L	0.638	0.38
93_T	183_L	0.638	0.38
133_G	216_F	0.638	0.38
105_L	241_L	0.637	0.38
133_G	191_I	0.636	0.38
89_Y	186_L	0.636	0.38
114_W	163_T	0.636	0.38
135_L	146_V	0.635	0.38
144_V	296_V	0.633	0.38
178_I	182_S	0.632	0.38
66_F	317_Y	0.630	0.37
17_L	136_S	0.630	0.37
13_I	213_G	0.629	0.37
155_S	162_H	0.629	0.37
13_I	97_M	0.629	0.37
181_T	184_N	0.628	0.37
89_Y	220_S	0.627	0.37
67_L	183_L	0.626	0.37
239_I	266_T	0.626	0.37
292_L	333_I	0.626	0.37
264_I	328_L	0.625	0.37
120_C	206_K	0.623	0.37
66_F	83_D	0.620	0.37
273_L	321_N	0.616	0.36
145_L	269_V	0.615	0.36
117_T	251_F	0.611	0.36
224_N	310_I	0.610	0.36
11_L	274_G	0.610	0.36
261_C	275_L	0.605	0.35
14_L	35_E	0.605	0.35
119_I	261_C	0.604	0.35
78_L	166_I	0.602	0.35
77_W	80_K	0.601	0.35
255_C	312_F	0.598	0.35
293_I	297_L	0.598	0.35
254_L	258_A	0.596	0.35
183_L	223_Y	0.594	0.34
74_M	77_W	0.593	0.34
112_F	305_G	0.593	0.34
109_K	319_M	0.591	0.34
40_I	191_I	0.590	0.34
22_Y	43_F	0.589	0.34
24_S	325_L	0.588	0.34
182_S	283_I	0.588	0.34
6_G	62_Q	0.586	0.34
124_V	190_A	0.584	0.34
102_G	209_S	0.583	0.33
101_G	105_L	0.583	0.33
261_C	310_I	0.582	0.33
47_F	260_L	0.581	0.33
90_L	238_E	0.581	0.33
21_G	180_F	0.581	0.33
6_G	150_L	0.580	0.33
83_D	324_L	0.577	0.33
57_I	331_Y	0.577	0.33
243_A	301_F	0.577	0.33
103_V	199_M	0.574	0.33
52_Y	205_A	0.574	0.33
21_G	309_L	0.570	0.32
137_I	140_I	0.570	0.32
40_I	55_M	0.570	0.32
13_I	47_F	0.569	0.32
91_F	299_V	0.568	0.32
38_L	255_C	0.567	0.32
69_V	257_T	0.567	0.32
13_I	32_F	0.567	0.32
18_I	27_E	0.567	0.32
193_S	263_A	0.566	0.32
83_D	306_F	0.566	0.32
16_S	66_F	0.564	0.32
137_I	254_L	0.564	0.32
88_F	297_L	0.563	0.32
139_S	191_I	0.563	0.32
190_A	266_T	0.562	0.32
309_L	315_P	0.561	0.32
131_V	184_N	0.557	0.31
16_S	270_A	0.557	0.31
12_L	131_V	0.553	0.31
79_A	269_V	0.553	0.31
167_D	210_V	0.553	0.31
28_I	34_A	0.552	0.31
117_T	157_Q	0.552	0.31
72_H	203_G	0.551	0.31
7_M	109_K	0.550	0.31
193_S	262_L	0.550	0.31
11_L	134_I	0.549	0.31
62_Q	218_V	0.548	0.31
41_V	169_S	0.548	0.31
99_A	139_S	0.547	0.31
81_I	169_S	0.547	0.31
239_I	303_S	0.547	0.31
148_G	215_I	0.546	0.30
117_T	299_V	0.545	0.30
84_V	255_C	0.545	0.30
27_E	216_F	0.545	0.30
15_G	219_I	0.544	0.30
192_L	245_L	0.537	0.30
10_M	39_A	0.537	0.30
16_S	274_G	0.536	0.30
48_I	292_L	0.535	0.30
53_I	332_P	0.534	0.30
106_Q	228_V	0.532	0.29
130_D	203_G	0.532	0.29
94_T	298_M	0.530	0.29
57_I	73_L	0.530	0.29
56_K	202_L	0.528	0.29
59_F	124_V	0.528	0.29
10_M	35_E	0.528	0.29
38_L	244_V	0.527	0.29
19_G	23_A	0.527	0.29
99_A	178_I	0.527	0.29
238_E	315_P	0.527	0.29
18_I	208_A	0.527	0.29
64_T	312_F	0.523	0.29
204_E	333_I	0.523	0.29
54_V	328_L	0.522	0.29
17_L	322_L	0.521	0.29
24_S	261_C	0.521	0.29
173_N	255_C	0.521	0.29
133_G	143_P	0.519	0.28
192_L	272_L	0.518	0.28
141_L	262_L	0.518	0.28
44_T	310_I	0.517	0.28
153_L	226_T	0.517	0.28
104_T	248_A	0.516	0.28
63_S	310_I	0.515	0.28
284_H	289_M	0.514	0.28
293_I	316_I	0.514	0.28
146_V	215_I	0.514	0.28
256_M	263_A	0.511	0.28
28_I	184_N	0.511	0.28
41_V	161_H	0.510	0.28
48_I	225_E	0.508	0.28
266_T	274_G	0.508	0.28
107_M	264_I	0.507	0.28
272_L	276_S	0.503	0.27
211_A	276_S	0.503	0.27
50_S	54_V	0.503	0.27
77_W	292_L	0.503	0.27
34_A	243_A	0.503	0.27
87_I	297_L	0.503	0.27
77_W	114_W	0.502	0.27
196_G	306_F	0.500	0.27

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
3dh4A	3	0.9349	99.9	0.742	Contact Map
2xq2A	2	0.9379	99.8	0.758	Contact Map
3l1lA	2	0.9615	99.7	0.799	Contact Map
3giaA	1	0.9793	99.5	0.819	Contact Map
4djkA	2	0.9379	99.2	0.851	Contact Map
2jlnA	1	0.9763	98.7	0.876	Contact Map
4wgvA	2	0.9438	98.6	0.881	Contact Map
4us3A	1	0.9053	98.1	0.896	Contact Map
2a65A	2	0.9408	98	0.897	Contact Map
4xp4A	1	0.9734	97	0.916	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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