YBFA - BACSU - GREMLIN Contacts

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YBFA - Putative HTH-type DNA-binding domain-containing acetyltransferase YbfA

UniProt:	O31443	Sequences: MKTRESSVGLKFRKFNRFYTNVLGFLNEHIYDSPFSLTETRILFEIYNTPNCTAKALQDKLGLDRGYVSRIVKQFEKEDLIYKQRSKDDARHHYIFVTETGKTIYKKLEEKANEQVELMLKVINQKEQHKLAEAMAEIEAILSQSLSARASEISIRDYFLSEDLQLLIEKQRQFYAEAHGWDDTFLAYLQETFDADIEKIWIAESGGKFAGSVGLVKHDEKTVQLRWFLVDADFRGRGLGTQLLEHLVAYCQDMKFDRIFLWTVSTMAEARPLYKKFGFRISEVKQEAPLWGQQLTEERWDLELS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	305 (288)
Sequences:	857 (641)
Seq/√Len:	37.8

BACSU - YBFA
HALSA - Q9HSL3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
186_L	189_L	6.472	1.00
171_Q	185_F	4.985	1.00
284_V	298_E	4.777	1.00
135_M	138_I	3.919	1.00
170_K	231_D	3.794	1.00
241_T	276_K	3.568	1.00
289_P	294_Q	3.558	1.00
186_L	190_Q	3.223	1.00
218_H	224_Q	3.141	1.00
171_Q	229_L	3.117	1.00
169_E	173_Q	3.057	1.00
156_R	204_E	2.540	1.00
46_I	52_C	2.369	1.00
272_P	275_K	2.303	1.00
248_V	259_I	2.248	0.99
153_I	239_L	2.225	0.99
246_H	249_A	2.122	0.99
47_Y	105_Y	2.105	0.99
208_K	233_D	2.082	0.99
242_Q	246_H	2.046	0.99
54_A	95_I	2.030	0.99
200_I	214_G	2.027	0.99
275_K	281_I	1.969	0.98
213_V	228_F	1.963	0.98
30_I	46_I	1.956	0.98
84_Q	96_F	1.933	0.98
162_E	165_Q	1.891	0.98
38_T	75_F	1.889	0.98
76_E	83_K	1.837	0.98
288_A	297_E	1.830	0.98
250_Y	254_M	1.828	0.98
17_R	24_G	1.826	0.98
248_V	279_F	1.825	0.98
56_A	59_D	1.767	0.97
31_Y	112_A	1.761	0.97
12_F	120_L	1.761	0.97
20_T	37_L	1.755	0.97
212_S	229_L	1.741	0.97
261_L	270_A	1.738	0.97
13_R	17_R	1.712	0.96
172_R	176_A	1.690	0.96
179_H	267_M	1.685	0.96
224_Q	260_F	1.679	0.96
283_E	299_R	1.660	0.96
290_L	294_Q	1.660	0.96
275_K	298_E	1.655	0.96
38_T	63_L	1.613	0.95
221_K	257_D	1.610	0.95
261_L	274_Y	1.589	0.94
170_K	174_F	1.574	0.94
289_P	293_Q	1.562	0.94
246_H	253_D	1.541	0.93
203_A	239_L	1.540	0.93
167_L	214_G	1.535	0.93
264_V	297_E	1.525	0.93
291_W	297_E	1.497	0.92
167_L	174_F	1.488	0.92
67_Y	71_I	1.485	0.92
244_L	273_L	1.477	0.92
270_A	274_Y	1.474	0.92
63_L	67_Y	1.459	0.91
82_Y	99_E	1.458	0.91
13_R	20_T	1.451	0.91
230_V	239_L	1.451	0.91
10_L	113_N	1.448	0.91
201_W	250_Y	1.447	0.91
166_L	209_F	1.434	0.91
153_I	242_Q	1.428	0.90
228_F	244_L	1.428	0.90
64_D	70_R	1.423	0.90
215_L	247_L	1.420	0.90
42_I	57_L	1.420	0.90
13_R	24_G	1.409	0.90
14_K	139_E	1.403	0.90
99_E	110_E	1.403	0.90
264_V	288_A	1.384	0.89
134_A	209_F	1.374	0.89
181_W	185_F	1.367	0.88
281_I	298_E	1.366	0.88
171_Q	175_Y	1.359	0.88
20_T	41_R	1.350	0.88
84_Q	126_K	1.341	0.87
130_K	137_E	1.340	0.87
290_L	297_E	1.338	0.87
123_I	141_I	1.331	0.87
169_E	209_F	1.319	0.87
99_E	102_K	1.318	0.87
43_L	75_F	1.313	0.86
213_V	247_L	1.307	0.86
190_Q	195_A	1.304	0.86
155_I	158_Y	1.298	0.86
158_Y	200_I	1.292	0.85
30_I	33_S	1.286	0.85
139_E	146_L	1.269	0.84
124_N	127_E	1.267	0.84
224_Q	227_W	1.266	0.84
188_Y	191_E	1.256	0.84
166_L	170_K	1.254	0.84
181_W	184_T	1.245	0.83
167_L	171_Q	1.239	0.83
131_L	141_I	1.237	0.83
156_R	170_K	1.229	0.82
172_R	185_F	1.222	0.82
163_D	167_L	1.205	0.81
224_Q	299_R	1.198	0.81
41_R	66_G	1.191	0.80
263_T	267_M	1.180	0.80
171_Q	291_W	1.176	0.79
166_L	169_E	1.151	0.78
49_T	56_A	1.149	0.78
182_D	185_F	1.148	0.78
295_L	298_E	1.146	0.78
198_E	217_K	1.145	0.78
219_D	222_T	1.128	0.77
120_L	241_T	1.118	0.76
15_F	19_Y	1.110	0.75
41_R	67_Y	1.109	0.75
25_F	116_V	1.105	0.75
171_Q	174_F	1.097	0.74
263_T	270_A	1.085	0.74
20_T	26_L	1.080	0.73
54_A	72_V	1.078	0.73
37_L	41_R	1.077	0.73
188_Y	192_T	1.076	0.73
58_Q	95_I	1.068	0.72
83_K	93_H	1.061	0.72
289_P	295_L	1.054	0.71
212_S	224_Q	1.045	0.71
261_L	267_M	1.042	0.71
20_T	24_G	1.021	0.69
17_R	45_E	1.014	0.68
17_R	26_L	1.013	0.68
287_E	296_T	1.008	0.68
264_V	290_L	1.006	0.68
82_Y	96_F	0.995	0.67
131_L	138_I	0.989	0.67
99_E	207_G	0.986	0.66
12_F	135_M	0.983	0.66
245_E	277_F	0.974	0.65
209_F	229_L	0.972	0.65
290_L	295_L	0.971	0.65
109_E	113_N	0.970	0.65
110_E	133_E	0.970	0.65
167_L	186_L	0.969	0.65
242_Q	248_V	0.965	0.65
292_G	295_L	0.962	0.64
14_K	280_R	0.954	0.64
32_D	35_F	0.951	0.63
239_L	272_P	0.949	0.63
192_T	197_I	0.947	0.63
173_Q	208_K	0.942	0.63
200_I	215_L	0.936	0.62
163_D	204_E	0.935	0.62
171_Q	212_S	0.932	0.62
157_D	199_K	0.931	0.62
15_F	41_R	0.930	0.62
19_Y	138_I	0.924	0.61
87_K	254_M	0.918	0.61
22_V	119_M	0.914	0.60
39_E	204_E	0.913	0.60
53_T	95_I	0.912	0.60
233_D	237_R	0.911	0.60
102_K	239_L	0.910	0.60
55_K	59_D	0.907	0.60
174_F	177_E	0.903	0.59
156_R	163_D	0.895	0.59
241_T	245_E	0.895	0.59
28_E	139_E	0.890	0.58
154_S	239_L	0.887	0.58
170_K	173_Q	0.883	0.58
100_T	104_I	0.880	0.57
71_I	75_F	0.878	0.57
193_F	198_E	0.878	0.57
250_Y	256_F	0.872	0.57
75_F	93_H	0.872	0.57
50_P	126_K	0.872	0.57
92_H	121_K	0.872	0.57
250_Y	253_D	0.870	0.57
64_D	134_A	0.868	0.56
37_L	67_Y	0.868	0.56
96_F	152_E	0.866	0.56
15_F	67_Y	0.865	0.56
227_W	297_E	0.863	0.56
47_Y	109_E	0.863	0.56
177_E	232_A	0.863	0.56
273_L	279_F	0.862	0.56
37_L	68_V	0.860	0.56
114_E	253_D	0.856	0.55
210_A	234_F	0.849	0.55
179_H	295_L	0.849	0.55
242_Q	255_K	0.849	0.55
12_F	27_N	0.848	0.55
264_V	267_M	0.840	0.54
120_L	140_A	0.839	0.54
271_R	298_E	0.839	0.54
22_V	224_Q	0.836	0.54
139_E	142_L	0.836	0.54
164_L	200_I	0.835	0.53
225_L	247_L	0.828	0.53
28_E	100_T	0.825	0.53
174_F	178_A	0.821	0.52
27_N	30_I	0.821	0.52
36_S	66_G	0.820	0.52
56_A	68_V	0.820	0.52
289_P	296_T	0.815	0.52
222_T	258_R	0.815	0.52
23_L	42_I	0.812	0.51
223_V	226_R	0.811	0.51
165_Q	172_R	0.811	0.51
208_K	231_D	0.810	0.51
73_K	121_K	0.807	0.51
289_P	292_G	0.799	0.50
179_H	244_L	0.799	0.50
192_T	195_A	0.798	0.50
214_G	224_Q	0.797	0.50
9_G	117_E	0.797	0.50
263_T	274_Y	0.795	0.50
84_Q	249_A	0.794	0.50
56_A	92_H	0.790	0.49
215_L	234_F	0.790	0.49
11_K	32_D	0.788	0.49
292_G	298_E	0.786	0.49
65_R	69_S	0.786	0.49
175_Y	226_R	0.783	0.49
178_A	182_D	0.782	0.49
226_R	263_T	0.780	0.49
34_P	77_K	0.778	0.48
162_E	201_W	0.776	0.48
234_F	237_R	0.775	0.48
42_I	71_I	0.774	0.48
16_N	19_Y	0.770	0.48
9_G	46_I	0.768	0.47
236_G	270_A	0.768	0.47
230_V	251_C	0.764	0.47
33_S	40_T	0.763	0.47
291_W	300_W	0.763	0.47
223_V	256_F	0.761	0.47
41_R	64_D	0.755	0.46
215_L	259_I	0.755	0.46
175_Y	181_W	0.754	0.46
265_S	268_A	0.751	0.46
267_M	270_A	0.750	0.46
70_R	235_R	0.749	0.46
24_G	45_E	0.748	0.46
55_K	98_T	0.747	0.46
134_A	138_I	0.747	0.46
170_K	229_L	0.745	0.45
155_I	188_Y	0.745	0.45
185_F	227_W	0.744	0.45
104_I	128_Q	0.740	0.45
54_A	58_Q	0.739	0.45
152_E	206_G	0.738	0.45
124_N	207_G	0.738	0.45
140_A	151_S	0.735	0.45
214_G	297_E	0.735	0.45
41_R	138_I	0.733	0.44
39_E	67_Y	0.728	0.44
113_N	241_T	0.726	0.44
67_Y	75_F	0.725	0.44
43_L	80_L	0.717	0.43
16_N	41_R	0.716	0.43
262_W	267_M	0.710	0.42
185_F	247_L	0.709	0.42
150_A	153_I	0.704	0.42
293_Q	298_E	0.704	0.42
165_Q	168_I	0.702	0.42
189_L	227_W	0.701	0.42
9_G	249_A	0.698	0.41
77_K	126_K	0.695	0.41
259_I	264_V	0.691	0.41
60_K	249_A	0.690	0.41
52_C	57_L	0.689	0.41
34_P	87_K	0.688	0.40
133_E	137_E	0.683	0.40
164_L	189_L	0.678	0.40
155_I	197_I	0.676	0.39
66_G	83_K	0.675	0.39
51_N	103_T	0.675	0.39
211_G	243_L	0.675	0.39
45_E	70_R	0.675	0.39
223_V	229_L	0.672	0.39
35_F	111_K	0.670	0.39
161_S	171_Q	0.669	0.39
185_F	226_R	0.669	0.39
163_D	166_L	0.668	0.39
88_D	152_E	0.668	0.39
154_S	157_D	0.666	0.39
261_L	279_F	0.665	0.38
156_R	256_F	0.665	0.38
87_K	124_N	0.665	0.38
153_I	205_S	0.664	0.38
165_Q	171_Q	0.663	0.38
18_F	142_L	0.659	0.38
132_A	150_A	0.656	0.38
93_H	134_A	0.653	0.37
83_K	95_I	0.653	0.37
58_Q	81_I	0.652	0.37
170_K	209_F	0.650	0.37
262_W	271_R	0.649	0.37
110_E	117_E	0.648	0.37
57_L	81_I	0.647	0.37
200_I	224_Q	0.647	0.37
128_Q	142_L	0.643	0.37
99_E	103_T	0.641	0.36
21_N	62_G	0.638	0.36
189_L	192_T	0.635	0.36
50_P	96_F	0.633	0.36
158_Y	192_T	0.632	0.36
92_H	209_F	0.630	0.36
261_L	273_L	0.628	0.35
131_L	134_A	0.627	0.35
46_I	60_K	0.626	0.35
110_E	126_K	0.622	0.35
58_Q	93_H	0.620	0.35
76_E	93_H	0.620	0.35
172_R	175_Y	0.618	0.35
205_S	210_A	0.616	0.34
267_M	288_A	0.613	0.34
20_T	44_F	0.613	0.34
232_A	239_L	0.612	0.34
42_I	244_L	0.612	0.34
34_P	107_K	0.611	0.34
175_Y	262_W	0.609	0.34
85_R	220_E	0.605	0.34
152_E	157_D	0.602	0.33
17_R	23_L	0.602	0.33
17_R	70_R	0.602	0.33
142_L	246_H	0.601	0.33
158_Y	186_L	0.600	0.33
30_I	281_I	0.599	0.33
242_Q	253_D	0.599	0.33
121_K	133_E	0.598	0.33
19_Y	131_L	0.597	0.33
163_D	202_I	0.597	0.33
220_E	258_R	0.595	0.33
102_K	128_Q	0.592	0.33
210_A	233_D	0.591	0.32
31_Y	111_K	0.590	0.32
290_L	293_Q	0.588	0.32
136_A	140_A	0.587	0.32
134_A	137_E	0.585	0.32
247_L	252_Q	0.584	0.32
109_E	177_E	0.583	0.32
27_N	40_T	0.583	0.32
51_N	84_Q	0.583	0.32
68_V	203_A	0.583	0.32
164_L	168_I	0.583	0.32
9_G	240_G	0.582	0.32
85_R	257_D	0.582	0.32
204_E	256_F	0.582	0.32
197_I	254_M	0.580	0.32
178_A	235_R	0.580	0.32
11_K	139_E	0.578	0.31
214_G	291_W	0.577	0.31
167_L	175_Y	0.576	0.31
81_I	95_I	0.575	0.31
84_Q	98_T	0.575	0.31
107_K	123_I	0.573	0.31
288_A	291_W	0.572	0.31
16_N	67_Y	0.571	0.31
237_R	259_I	0.571	0.31
69_S	91_R	0.568	0.31
66_G	69_S	0.567	0.31
64_D	67_Y	0.566	0.31
15_F	37_L	0.566	0.31
11_K	136_A	0.565	0.30
96_F	249_A	0.565	0.30
163_D	172_R	0.564	0.30
281_I	284_V	0.564	0.30
35_F	104_I	0.564	0.30
172_R	178_A	0.562	0.30
179_H	183_D	0.562	0.30
17_R	20_T	0.562	0.30
293_Q	296_T	0.561	0.30
203_A	210_A	0.560	0.30
180_G	292_G	0.557	0.30
118_L	191_E	0.555	0.30
224_Q	270_A	0.555	0.30
86_S	94_Y	0.554	0.30
224_Q	259_I	0.554	0.30
228_F	273_L	0.554	0.30
58_Q	62_G	0.554	0.30
12_F	54_A	0.553	0.30
19_Y	41_R	0.553	0.30
16_N	22_V	0.552	0.29
193_F	197_I	0.550	0.29
81_I	186_L	0.550	0.29
103_T	231_D	0.549	0.29
262_W	285_K	0.547	0.29
200_I	273_L	0.546	0.29
86_S	92_H	0.543	0.29
43_L	104_I	0.542	0.29
262_W	281_I	0.540	0.29
292_G	297_E	0.540	0.29
66_G	71_I	0.537	0.28
123_I	134_A	0.537	0.28
17_R	65_R	0.536	0.28
200_I	227_W	0.536	0.28
88_D	248_V	0.534	0.28
230_V	265_S	0.534	0.28
9_G	120_L	0.533	0.28
164_L	171_Q	0.533	0.28
265_S	296_T	0.533	0.28
117_E	124_N	0.532	0.28
75_F	221_K	0.532	0.28
191_E	210_A	0.532	0.28
33_S	111_K	0.531	0.28
84_Q	136_A	0.531	0.28
233_D	239_L	0.530	0.28
68_V	265_S	0.528	0.28
13_R	202_I	0.527	0.28
216_V	226_R	0.526	0.28
154_S	204_E	0.525	0.28
214_G	227_W	0.524	0.27
175_Y	185_F	0.523	0.27
147_S	255_K	0.521	0.27
200_I	247_L	0.521	0.27
154_S	258_R	0.520	0.27
180_G	225_L	0.517	0.27
37_L	66_G	0.512	0.27
226_R	261_L	0.511	0.27
155_I	163_D	0.510	0.26
66_G	138_I	0.510	0.26
126_K	150_A	0.509	0.26
50_P	88_D	0.507	0.26
152_E	205_S	0.506	0.26
125_Q	293_Q	0.506	0.26
114_E	117_E	0.505	0.26
58_Q	65_R	0.504	0.26
147_S	150_A	0.504	0.26
21_N	75_F	0.501	0.26
215_L	250_Y	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
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
3d8pA	1	0.5016	99.9	0.744	Contact Map
3dr6A	2	0.5016	99.8	0.757	Contact Map
1cjwA	1	0.4918	99.8	0.76	Contact Map
3f8kA	1	0.4131	99.8	0.761	Contact Map
2cy2A	1	0.4951	99.8	0.761	Contact Map
2q7bA	2	0.5049	99.8	0.763	Contact Map
1n71A	4	0.482	99.8	0.763	Contact Map
2j8mA	2	0.4984	99.8	0.763	Contact Map
3pp9A	2	0.5049	99.8	0.763	Contact Map
3zj0A	1	0.4754	99.8	0.763	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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