YYBS - BACSU - GREMLIN Contacts

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YYBS - Uncharacterized protein YybS

UniProt:	P37485	Sequences: MKQTRALMEGAILISLFAIITLLVVYVPVIGTILLFALPLPMILYTIRHGLKLGIWMGAVSLPVVFIVGSFNGLIVAFMSACAGIAMGHFFKRKEPGHAIISGALIYMLSIVFYFVISIQFLGINIIDEAMTQYRQSLDIVETVAKQSGNAGQFEKQLKLMEEQLGIVQYLFPTAIVMVGVIFSFLSYLIAKPLLRRFSPDIPNLKPFRELKFPQSVVVLYLIIVMLSFLPLEKGQMLYSIALNGEFILGFLIFIQGLSFIFFYCHKKQYPKAAAVIAVILGFVHPVFMAAIRILGVLDMGFHIRNKVK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	309 (286)
Sequences:	948 (804)
Seq/√Len:	47.5

BACSU - YYBS

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
46_T	54_G	5.829	1.00
209_R	266_H	4.594	1.00
43_I	191_A	3.260	1.00
217_V	253_I	3.214	1.00
40_L	43_I	3.183	1.00
262_F	279_V	3.040	1.00
224_I	242_A	3.014	1.00
84_G	88_G	2.980	1.00
299_D	303_H	2.910	1.00
89_H	93_R	2.785	1.00
262_F	275_A	2.764	1.00
173_P	244_N	2.763	1.00
45_Y	57_M	2.586	1.00
273_A	276_V	2.577	1.00
23_L	27_V	2.555	1.00
14_I	18_A	2.508	1.00
11_A	14_I	2.383	1.00
258_L	282_G	2.342	1.00
63_P	74_L	2.303	1.00
48_R	200_P	2.160	1.00
125_N	128_D	2.145	1.00
63_P	113_F	2.145	1.00
40_L	191_A	2.142	1.00
252_L	256_Q	2.119	1.00
303_H	306_N	2.065	1.00
91_F	188_Y	2.008	0.99
259_S	305_R	1.999	0.99
276_V	280_I	1.982	0.99
39_P	81_A	1.951	0.99
215_Q	222_L	1.939	0.99
212_K	303_H	1.921	0.99
135_R	139_D	1.911	0.99
261_I	292_I	1.899	0.99
140_I	143_T	1.877	0.99
95_E	98_H	1.862	0.99
90_F	99_A	1.852	0.99
216_S	220_L	1.816	0.99
265_C	275_A	1.812	0.99
188_Y	262_F	1.788	0.99
14_I	27_V	1.777	0.99
104_A	181_V	1.763	0.99
108_M	180_G	1.758	0.99
159_K	163_E	1.700	0.98
113_F	199_S	1.687	0.98
83_A	253_I	1.680	0.98
109_L	266_H	1.679	0.98
295_L	304_I	1.651	0.98
87_M	103_G	1.646	0.98
50_G	54_G	1.635	0.98
58_G	81_A	1.634	0.98
11_A	15_S	1.631	0.98
111_I	183_F	1.572	0.97
274_A	277_I	1.563	0.97
44_L	195_L	1.551	0.97
219_V	295_L	1.548	0.97
16_L	23_L	1.540	0.97
192_K	205_L	1.534	0.96
23_L	283_F	1.528	0.96
221_Y	297_V	1.476	0.96
90_F	95_E	1.442	0.95
253_I	300_M	1.442	0.95
186_L	304_I	1.417	0.95
26_Y	291_A	1.413	0.94
41_P	45_Y	1.409	0.94
128_D	132_T	1.393	0.94
207_P	211_L	1.392	0.94
134_Y	258_L	1.392	0.94
135_R	162_E	1.385	0.94
79_M	143_T	1.377	0.94
41_P	44_L	1.356	0.93
136_Q	186_L	1.353	0.93
94_K	201_D	1.346	0.93
279_V	282_G	1.334	0.93
18_A	27_V	1.325	0.92
45_Y	203_P	1.313	0.92
294_I	298_L	1.294	0.91
31_G	300_M	1.281	0.91
78_F	194_L	1.281	0.91
132_T	135_R	1.275	0.91
128_D	288_F	1.266	0.90
211_L	278_A	1.249	0.90
237_M	241_I	1.245	0.90
268_K	291_A	1.243	0.90
40_L	53_L	1.242	0.90
214_P	297_V	1.235	0.89
145_A	222_L	1.229	0.89
23_L	34_L	1.226	0.89
195_L	200_P	1.207	0.88
50_G	92_K	1.187	0.87
193_P	196_R	1.183	0.87
89_H	95_E	1.178	0.87
36_F	43_I	1.177	0.87
171_L	208_F	1.170	0.86
174_T	247_F	1.164	0.86
100_I	112_V	1.157	0.86
224_I	227_L	1.150	0.86
173_P	199_S	1.150	0.86
276_V	302_F	1.130	0.85
44_L	55_I	1.127	0.84
178_M	251_F	1.123	0.84
45_Y	50_G	1.121	0.84
91_F	204_N	1.117	0.84
260_F	295_L	1.112	0.84
174_T	248_I	1.111	0.83
214_P	256_Q	1.105	0.83
61_S	204_N	1.102	0.83
220_L	249_L	1.101	0.83
107_Y	295_L	1.091	0.82
188_Y	205_L	1.089	0.82
227_L	242_A	1.088	0.82
167_I	194_L	1.085	0.82
297_V	304_I	1.081	0.82
97_G	205_L	1.079	0.82
258_L	295_L	1.078	0.82
20_I	109_L	1.072	0.81
47_I	91_F	1.072	0.81
15_S	21_T	1.070	0.81
126_I	211_L	1.069	0.81
251_F	280_I	1.063	0.81
299_D	305_R	1.063	0.81
253_I	260_F	1.062	0.81
43_I	84_G	1.056	0.80
117_I	259_S	1.053	0.80
200_P	203_P	1.052	0.80
132_T	136_Q	1.047	0.80
11_A	24_V	1.046	0.80
11_A	17_F	1.045	0.80
11_A	18_A	1.035	0.79
218_V	297_V	1.027	0.78
163_E	167_I	1.027	0.78
20_I	30_I	1.026	0.78
43_I	90_F	1.024	0.78
64_V	68_V	1.023	0.78
256_Q	296_G	1.020	0.78
224_I	249_L	1.012	0.77
51_L	89_H	1.007	0.77
38_L	47_I	1.004	0.77
158_L	162_E	1.003	0.77
23_L	186_L	1.001	0.77
192_K	196_R	0.999	0.76
13_L	24_V	0.998	0.76
50_G	190_I	0.987	0.76
57_M	83_A	0.984	0.75
40_L	47_I	0.982	0.75
219_V	301_G	0.980	0.75
118_S	122_L	0.980	0.75
203_P	271_P	0.978	0.75
219_V	297_V	0.977	0.75
62_L	74_L	0.976	0.75
103_G	256_Q	0.975	0.75
212_K	259_S	0.974	0.75
143_T	146_K	0.974	0.75
138_L	141_V	0.971	0.74
178_M	181_V	0.969	0.74
65_V	73_G	0.962	0.74
126_I	129_E	0.961	0.74
37_A	132_T	0.958	0.73
36_F	74_L	0.957	0.73
95_E	99_A	0.956	0.73
207_P	210_E	0.954	0.73
148_S	159_K	0.954	0.73
136_Q	140_I	0.953	0.73
45_Y	53_L	0.951	0.73
18_A	28_P	0.951	0.73
261_I	278_A	0.950	0.73
192_K	203_P	0.949	0.73
15_S	264_Y	0.948	0.73
255_I	266_H	0.942	0.72
242_A	298_L	0.936	0.72
12_I	18_A	0.927	0.71
43_I	258_L	0.926	0.71
273_A	284_V	0.923	0.70
241_I	292_I	0.919	0.70
110_S	208_F	0.915	0.70
110_S	175_A	0.911	0.69
105_L	138_L	0.909	0.69
40_L	76_V	0.906	0.69
186_L	189_L	0.903	0.69
205_L	209_R	0.900	0.69
214_P	244_N	0.892	0.68
213_F	252_L	0.890	0.68
143_T	269_Q	0.886	0.67
60_V	180_G	0.884	0.67
256_Q	260_F	0.883	0.67
270_Y	303_H	0.880	0.67
212_K	306_N	0.878	0.67
45_Y	49_H	0.876	0.66
53_L	271_P	0.875	0.66
264_Y	268_K	0.873	0.66
128_D	131_M	0.871	0.66
278_A	292_I	0.871	0.66
82_C	177_V	0.871	0.66
192_K	201_D	0.870	0.66
48_R	198_F	0.868	0.66
111_I	130_A	0.867	0.66
60_V	264_Y	0.866	0.66
21_T	38_L	0.865	0.65
260_F	304_I	0.865	0.65
47_I	191_A	0.864	0.65
69_G	80_S	0.862	0.65
96_P	270_Y	0.860	0.65
109_L	132_T	0.859	0.65
219_V	300_M	0.858	0.65
44_L	47_I	0.857	0.65
221_Y	250_G	0.855	0.65
125_N	171_L	0.852	0.64
104_A	138_L	0.851	0.64
109_L	149_G	0.848	0.64
285_H	292_I	0.845	0.64
79_M	107_Y	0.840	0.63
36_F	39_P	0.839	0.63
72_N	172_F	0.836	0.63
78_F	282_G	0.836	0.63
31_G	36_F	0.832	0.62
36_F	41_P	0.824	0.62
115_F	292_I	0.818	0.61
112_V	115_F	0.807	0.60
293_R	297_V	0.804	0.60
48_R	54_G	0.803	0.60
249_L	295_L	0.801	0.59
67_I	143_T	0.799	0.59
88_G	299_D	0.797	0.59
15_S	18_A	0.794	0.59
91_F	191_A	0.787	0.58
42_M	84_G	0.785	0.58
240_S	295_L	0.783	0.58
265_C	270_Y	0.782	0.58
40_L	64_V	0.780	0.57
93_R	303_H	0.777	0.57
50_G	212_K	0.775	0.57
40_L	195_L	0.775	0.57
134_Y	137_S	0.773	0.57
18_A	23_L	0.773	0.57
217_V	255_I	0.773	0.57
12_I	15_S	0.773	0.57
89_H	92_K	0.772	0.57
19_I	71_F	0.770	0.56
222_L	302_F	0.769	0.56
14_I	243_L	0.768	0.56
122_L	125_N	0.767	0.56
261_I	279_V	0.764	0.56
41_P	88_G	0.762	0.56
23_L	223_I	0.761	0.56
176_I	264_Y	0.758	0.55
82_C	268_K	0.756	0.55
33_I	81_A	0.754	0.55
99_A	192_K	0.752	0.55
176_I	247_F	0.751	0.55
217_V	231_P	0.749	0.54
55_I	82_C	0.747	0.54
118_S	163_E	0.746	0.54
194_L	198_F	0.746	0.54
86_A	106_I	0.744	0.54
257_G	292_I	0.743	0.54
191_A	287_V	0.742	0.54
107_Y	185_F	0.741	0.54
215_Q	253_I	0.738	0.53
47_I	58_G	0.737	0.53
91_F	205_L	0.735	0.53
169_Q	230_L	0.734	0.53
78_F	134_Y	0.733	0.53
41_P	49_H	0.733	0.53
172_F	187_S	0.732	0.53
255_I	279_V	0.729	0.52
55_I	63_P	0.729	0.52
46_T	57_M	0.726	0.52
45_Y	211_L	0.724	0.52
252_L	301_G	0.720	0.51
199_S	202_I	0.719	0.51
181_V	284_V	0.717	0.51
179_V	183_F	0.715	0.51
44_L	191_A	0.715	0.51
12_I	45_Y	0.714	0.51
99_A	102_S	0.712	0.51
136_Q	139_D	0.711	0.51
59_A	186_L	0.711	0.51
41_P	195_L	0.706	0.50
108_M	118_S	0.703	0.50
169_Q	226_M	0.702	0.50
135_R	138_L	0.699	0.49
14_I	21_T	0.695	0.49
188_Y	216_S	0.694	0.49
74_L	261_I	0.692	0.49
42_M	53_L	0.691	0.49
177_V	202_I	0.691	0.49
12_I	44_L	0.690	0.48
199_S	225_V	0.689	0.48
145_A	150_N	0.686	0.48
121_F	227_L	0.684	0.48
263_F	305_R	0.684	0.48
113_F	144_V	0.683	0.48
196_R	201_D	0.681	0.48
196_R	199_S	0.678	0.47
74_L	296_G	0.677	0.47
38_L	42_M	0.675	0.47
19_I	181_V	0.667	0.46
35_L	285_H	0.660	0.45
60_V	296_G	0.660	0.45
252_L	300_M	0.658	0.45
47_I	279_V	0.656	0.45
23_L	80_S	0.656	0.45
271_P	307_K	0.656	0.45
215_Q	256_Q	0.655	0.45
59_A	105_L	0.653	0.45
44_L	48_R	0.653	0.45
260_F	301_G	0.651	0.45
25_V	295_L	0.651	0.45
63_P	178_M	0.651	0.45
90_F	96_P	0.650	0.44
236_Q	267_K	0.649	0.44
22_L	121_F	0.648	0.44
260_F	268_K	0.647	0.44
163_E	166_G	0.647	0.44
34_L	47_I	0.646	0.44
62_L	290_A	0.646	0.44
63_P	78_F	0.642	0.44
87_M	146_K	0.641	0.44
106_I	276_V	0.641	0.44
54_G	68_V	0.635	0.43
21_T	33_I	0.632	0.43
165_L	176_I	0.631	0.43
227_L	258_L	0.630	0.43
97_G	188_Y	0.626	0.42
91_F	206_K	0.626	0.42
15_S	22_L	0.625	0.42
180_G	195_L	0.624	0.42
27_V	77_A	0.623	0.42
212_K	299_D	0.621	0.42
137_S	146_K	0.620	0.42
141_V	148_S	0.620	0.42
132_T	229_F	0.618	0.41
195_L	207_P	0.617	0.41
38_L	43_I	0.617	0.41
254_F	292_I	0.617	0.41
42_M	58_G	0.616	0.41
241_I	272_K	0.615	0.41
16_L	56_W	0.613	0.41
129_E	132_T	0.610	0.41
15_S	26_Y	0.608	0.40
50_G	257_G	0.606	0.40
222_L	249_L	0.601	0.40
171_L	289_M	0.600	0.40
39_P	55_I	0.600	0.40
142_E	158_L	0.599	0.40
55_I	266_H	0.596	0.39
30_I	175_A	0.595	0.39
222_L	260_F	0.590	0.39
52_K	106_I	0.588	0.38
123_G	177_V	0.585	0.38
73_G	176_I	0.584	0.38
217_V	252_L	0.583	0.38
37_A	65_V	0.583	0.38
211_L	217_V	0.582	0.38
69_G	282_G	0.580	0.38
219_V	244_N	0.580	0.38
201_D	207_P	0.580	0.38
241_I	296_G	0.579	0.38
55_I	283_F	0.578	0.38
66_F	223_I	0.578	0.38
260_F	303_H	0.577	0.37
215_Q	218_V	0.577	0.37
91_F	97_G	0.576	0.37
19_I	30_I	0.576	0.37
17_F	45_Y	0.576	0.37
59_A	168_V	0.574	0.37
107_Y	208_F	0.572	0.37
91_F	192_K	0.571	0.37
62_L	229_F	0.571	0.37
71_F	138_L	0.570	0.37
52_K	264_Y	0.569	0.37
195_L	198_F	0.568	0.37
258_L	277_I	0.567	0.37
167_I	255_I	0.566	0.36
216_S	256_Q	0.565	0.36
37_A	76_V	0.563	0.36
62_L	136_Q	0.562	0.36
208_F	258_L	0.561	0.36
43_I	47_I	0.561	0.36
267_K	306_N	0.558	0.36
58_G	105_L	0.558	0.36
128_D	225_V	0.557	0.36
110_S	223_I	0.553	0.35
221_Y	236_Q	0.551	0.35
37_A	191_A	0.551	0.35
278_A	302_F	0.550	0.35
11_A	27_V	0.549	0.35
226_M	270_Y	0.549	0.35
27_V	30_I	0.546	0.35
105_L	135_R	0.545	0.34
272_K	276_V	0.543	0.34
31_G	256_Q	0.543	0.34
62_L	71_F	0.541	0.34
227_L	238_L	0.538	0.34
11_A	23_L	0.536	0.34
17_F	78_F	0.535	0.34
186_L	295_L	0.535	0.34
27_V	242_A	0.533	0.33
79_M	137_S	0.530	0.33
106_I	110_S	0.530	0.33
190_I	200_P	0.530	0.33
254_F	289_M	0.529	0.33
22_L	55_I	0.527	0.33
211_L	255_I	0.525	0.33
203_P	211_L	0.525	0.33
43_I	46_T	0.524	0.33
37_A	74_L	0.524	0.33
194_L	204_N	0.524	0.33
201_D	204_N	0.523	0.33
87_M	226_M	0.523	0.33
86_A	103_G	0.519	0.32
43_I	112_V	0.518	0.32
53_L	57_M	0.518	0.32
251_F	281_L	0.517	0.32
118_S	297_V	0.516	0.32
217_V	295_L	0.516	0.32
77_A	182_I	0.515	0.32
298_L	304_I	0.512	0.32
101_I	131_M	0.512	0.32
31_G	40_L	0.512	0.32
220_L	239_Y	0.508	0.31
112_V	288_F	0.508	0.31
141_V	298_L	0.508	0.31
60_V	101_I	0.507	0.31
202_I	274_A	0.501	0.31
88_G	92_K	0.501	0.31
214_P	285_H	0.500	0.31
165_L	230_L	0.500	0.31
238_L	242_A	0.500	0.31
286_P	289_M	0.500	0.31

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
4tkrA	2	0.5372	96.6	0.882	Contact Map
3rlbA	1	0.5437	96.4	0.885	Contact Map
4rfsS	1	0.521	95.6	0.892	Contact Map
3p5nA	2	0.5146	94.5	0.899	Contact Map
4hzuS	1	0.5113	94.2	0.9	Contact Map
4z7fA	2	0.4725	94	0.901	Contact Map
4huqS	1	0.521	93.9	0.902	Contact Map
4dveA	3	0.5372	88.2	0.915	Contact Map
2ksfA	1	0.3107	28.7	0.945	Contact Map
3qnqA	2	0.4013	10	0.956	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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