YCGQ - BACSU - GREMLIN Contacts

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YCGQ - UPF0703 protein YcgQ

UniProt:	P94394	Sequences: MFRLLVLMGFTFFFYHLHASGNLTKYINMKYAYLSFIAIFLLAILTAVQAYLFIKSPEKSGHHHDHDCGCGHDHEHDHEQNKPFYQRYLIYVVFLFPLVSGIFFPIATLDSSIVKTKGFSFKAMESGDHYSQTQYLRPDASLYYAQDSYDKQMKQLFNKYSSKKEISLTDDDFLKGMETIYNYPGEFLGRTIEFHGFAYKGNAINKNQLFVLRFGIIHCIADSGVYGMLVEFPKDMDIKDDEWIHIKGTLASEYYQPFKSTLPVVKVTDWNTIKKPDDPYVYRGF	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	285 (229)
Sequences:	788 (609)
Seq/√Len:	40.2

BACSU - YCGQ

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
193_E	245_H	6.229	1.00
195_H	245_H	5.899	1.00
193_E	247_K	4.875	1.00
245_H	271_N	4.376	1.00
192_I	265_V	4.254	1.00
211_V	244_I	4.199	1.00
191_T	247_K	4.138	1.00
195_H	273_I	3.557	1.00
275_K	279_P	3.361	1.00
216_I	223_S	3.057	1.00
111_S	241_D	2.907	1.00
230_V	267_V	2.880	1.00
168_L	192_I	2.756	1.00
211_V	246_I	2.737	1.00
198_A	244_I	2.607	1.00
98_L	102_I	2.350	1.00
209_L	232_F	2.316	1.00
245_H	273_I	2.299	1.00
11_T	39_I	2.271	1.00
8_M	46_T	2.187	0.99
13_F	101_G	2.157	0.99
191_T	249_T	2.129	0.99
189_G	249_T	2.047	0.99
239_K	242_E	1.910	0.99
15_Y	39_I	1.844	0.98
4_L	50_A	1.811	0.98
247_K	271_N	1.806	0.98
169_T	172_D	1.794	0.98
167_S	193_E	1.722	0.97
4_L	46_T	1.692	0.97
247_K	269_D	1.681	0.97
49_Q	52_L	1.652	0.96
191_T	268_T	1.634	0.96
251_A	266_K	1.627	0.96
90_I	216_I	1.625	0.96
192_I	274_K	1.622	0.96
267_V	270_W	1.616	0.96
246_I	265_V	1.591	0.95
168_L	278_D	1.588	0.95
7_L	45_L	1.548	0.95
28_N	218_H	1.516	0.94
208_Q	231_E	1.503	0.94
79_E	83_P	1.483	0.93
155_Q	158_N	1.483	0.93
200_K	240_D	1.482	0.93
211_V	230_V	1.481	0.93
214_F	241_D	1.473	0.93
198_A	209_L	1.469	0.93
253_E	264_V	1.447	0.92
215_G	281_V	1.443	0.92
179_T	187_F	1.428	0.92
249_T	268_T	1.407	0.91
242_E	272_T	1.376	0.90
168_L	173_F	1.358	0.90
103_F	247_K	1.350	0.89
35_S	108_T	1.323	0.88
273_I	279_P	1.319	0.88
185_G	252_S	1.312	0.88
80_Q	84_F	1.309	0.88
80_Q	83_P	1.294	0.87
154_K	158_N	1.293	0.87
25_K	35_S	1.290	0.87
38_A	270_W	1.287	0.87
44_I	239_K	1.282	0.87
82_K	85_Y	1.267	0.86
42_L	114_V	1.248	0.85
6_V	277_D	1.229	0.84
57_P	249_T	1.216	0.84
18_H	218_H	1.201	0.83
238_I	244_I	1.195	0.83
223_S	279_P	1.193	0.83
110_D	246_I	1.180	0.82
166_I	199_Y	1.179	0.82
164_K	190_R	1.170	0.81
5_L	12_F	1.158	0.81
201_G	208_Q	1.146	0.80
230_V	238_I	1.146	0.80
99_V	159_K	1.144	0.80
45_L	225_V	1.138	0.79
179_T	183_Y	1.131	0.79
102_I	265_V	1.127	0.79
177_M	228_M	1.125	0.79
96_F	166_I	1.118	0.78
46_T	103_F	1.101	0.77
34_L	54_I	1.098	0.77
27_I	49_Q	1.092	0.77
111_S	181_Y	1.080	0.76
194_F	228_M	1.077	0.76
157_F	161_S	1.076	0.75
210_F	229_L	1.067	0.75
50_A	212_L	1.052	0.74
100_S	278_D	1.051	0.74
165_E	191_T	1.042	0.73
124_M	277_D	1.040	0.73
11_T	93_V	1.040	0.73
207_N	231_E	1.038	0.73
220_I	226_Y	1.024	0.72
23_L	35_S	1.017	0.71
185_G	188_L	1.006	0.70
14_F	226_Y	0.990	0.69
238_I	250_L	0.990	0.69
27_I	173_F	0.982	0.69
21_G	242_E	0.981	0.68
35_S	218_H	0.980	0.68
14_F	35_S	0.978	0.68
199_Y	216_I	0.978	0.68
31_Y	34_L	0.977	0.68
183_Y	187_F	0.968	0.67
11_T	22_N	0.966	0.67
48_V	94_F	0.963	0.67
48_V	103_F	0.960	0.67
8_M	50_A	0.953	0.66
28_N	31_Y	0.947	0.66
46_T	194_F	0.945	0.66
195_H	244_I	0.938	0.65
244_I	261_T	0.938	0.65
30_K	33_Y	0.938	0.65
98_L	215_G	0.936	0.65
88_Y	93_V	0.932	0.64
219_C	222_D	0.931	0.64
205_N	274_K	0.931	0.64
38_A	107_A	0.909	0.62
13_F	98_L	0.904	0.62
105_P	183_Y	0.902	0.62
236_M	246_I	0.901	0.62
35_S	38_A	0.894	0.61
197_F	279_P	0.894	0.61
232_F	235_D	0.889	0.61
8_M	53_F	0.888	0.61
20_S	262_L	0.885	0.60
4_L	54_I	0.885	0.60
100_S	107_A	0.872	0.59
25_K	31_Y	0.867	0.59
206_K	271_N	0.867	0.59
26_Y	262_L	0.866	0.59
27_I	108_T	0.864	0.59
27_I	223_S	0.861	0.58
180_I	189_G	0.853	0.58
200_K	238_I	0.853	0.58
165_E	190_R	0.850	0.57
46_T	94_F	0.850	0.57
31_Y	35_S	0.848	0.57
21_G	277_D	0.846	0.57
114_V	217_I	0.838	0.56
230_V	264_V	0.836	0.56
36_F	96_F	0.835	0.56
14_F	34_L	0.834	0.56
190_R	221_A	0.834	0.56
100_S	104_F	0.832	0.56
9_G	215_G	0.830	0.55
220_I	224_G	0.829	0.55
17_L	27_I	0.825	0.55
8_M	43_A	0.824	0.55
43_A	247_K	0.820	0.55
215_G	226_Y	0.819	0.54
156_L	159_K	0.819	0.54
169_T	274_K	0.803	0.53
43_A	250_L	0.799	0.53
178_E	218_H	0.791	0.52
31_Y	101_G	0.784	0.51
49_Q	118_G	0.783	0.51
17_L	26_Y	0.782	0.51
199_Y	250_L	0.777	0.51
190_R	229_L	0.774	0.50
209_L	230_V	0.765	0.49
160_Y	190_R	0.765	0.49
44_I	237_D	0.764	0.49
180_I	263_P	0.760	0.49
263_P	267_V	0.754	0.48
215_G	265_V	0.752	0.48
109_L	201_G	0.747	0.48
28_N	220_I	0.743	0.47
5_L	164_K	0.742	0.47
18_H	35_S	0.742	0.47
50_A	165_E	0.740	0.47
15_Y	19_A	0.739	0.47
20_S	85_Y	0.734	0.47
50_A	56_S	0.733	0.47
45_L	265_V	0.733	0.47
36_F	39_I	0.731	0.46
39_I	172_D	0.731	0.46
274_K	278_D	0.730	0.46
7_L	190_R	0.728	0.46
167_S	191_T	0.726	0.46
37_I	185_G	0.726	0.46
244_I	249_T	0.724	0.46
115_K	122_K	0.723	0.46
27_I	35_S	0.720	0.45
206_K	274_K	0.720	0.45
173_F	194_F	0.714	0.45
18_H	104_F	0.712	0.45
166_I	191_T	0.708	0.44
212_L	225_V	0.707	0.44
26_Y	109_L	0.706	0.44
168_L	216_I	0.704	0.44
100_S	110_D	0.700	0.44
111_S	214_F	0.698	0.43
109_L	216_I	0.698	0.43
169_T	254_Y	0.694	0.43
180_I	187_F	0.692	0.43
95_L	205_N	0.691	0.43
203_A	246_I	0.690	0.43
46_T	231_E	0.688	0.42
251_A	254_Y	0.685	0.42
166_I	227_G	0.684	0.42
254_Y	257_P	0.681	0.42
43_A	88_Y	0.680	0.42
91_Y	166_I	0.678	0.42
11_T	46_T	0.671	0.41
41_L	58_E	0.671	0.41
97_P	187_F	0.670	0.41
248_G	265_V	0.668	0.41
164_K	247_K	0.667	0.41
57_P	265_V	0.666	0.41
86_Q	158_N	0.665	0.40
79_E	115_K	0.664	0.40
195_H	206_K	0.664	0.40
221_A	276_P	0.663	0.40
245_H	274_K	0.661	0.40
114_V	257_P	0.658	0.40
173_F	277_D	0.653	0.39
213_R	222_D	0.651	0.39
12_F	96_F	0.650	0.39
168_L	177_M	0.646	0.39
112_S	228_M	0.643	0.38
12_F	94_F	0.642	0.38
97_P	221_A	0.641	0.38
10_F	255_Y	0.639	0.38
17_L	248_G	0.639	0.38
222_D	243_W	0.637	0.38
25_K	218_H	0.635	0.38
30_K	227_G	0.635	0.38
4_L	53_F	0.634	0.38
220_I	267_V	0.631	0.37
31_Y	94_F	0.629	0.37
39_I	225_V	0.627	0.37
83_P	98_L	0.625	0.37
51_Y	95_L	0.622	0.37
23_L	27_I	0.621	0.37
5_L	270_W	0.619	0.36
6_V	202_N	0.618	0.36
22_N	25_K	0.614	0.36
26_Y	107_A	0.614	0.36
25_K	40_F	0.613	0.36
20_S	266_K	0.612	0.36
90_I	94_F	0.611	0.36
217_I	240_D	0.608	0.35
45_L	174_L	0.607	0.35
98_L	157_F	0.606	0.35
55_K	206_K	0.605	0.35
213_R	243_W	0.605	0.35
5_L	35_S	0.604	0.35
4_L	16_H	0.603	0.35
174_L	251_A	0.601	0.35
31_Y	272_T	0.600	0.35
100_S	216_I	0.598	0.35
90_I	114_V	0.595	0.34
99_V	225_V	0.595	0.34
100_S	154_K	0.594	0.34
124_M	275_K	0.589	0.34
16_H	22_N	0.588	0.34
174_L	215_G	0.587	0.34
43_A	51_Y	0.586	0.34
29_M	282_Y	0.586	0.34
166_I	190_R	0.585	0.34
48_V	235_D	0.584	0.33
10_F	189_G	0.583	0.33
25_K	225_V	0.581	0.33
106_I	194_F	0.580	0.33
186_E	226_Y	0.580	0.33
17_L	101_G	0.574	0.33
17_L	117_K	0.573	0.33
238_I	242_E	0.572	0.33
218_H	221_A	0.571	0.32
12_F	124_M	0.566	0.32
198_A	233_P	0.564	0.32
3_R	273_I	0.563	0.32
11_T	25_K	0.561	0.32
3_R	190_R	0.561	0.32
18_H	23_L	0.560	0.32
33_Y	218_H	0.559	0.31
37_I	107_A	0.559	0.31
27_I	279_P	0.555	0.31
194_F	269_D	0.553	0.31
200_K	239_K	0.552	0.31
31_Y	87_R	0.551	0.31
96_F	173_F	0.549	0.31
155_Q	272_T	0.549	0.31
218_H	222_D	0.548	0.31
217_I	257_P	0.547	0.31
189_G	244_I	0.546	0.30
230_V	241_D	0.546	0.30
17_L	20_S	0.546	0.30
168_L	265_V	0.544	0.30
3_R	23_L	0.543	0.30
34_L	278_D	0.543	0.30
31_Y	214_F	0.542	0.30
42_L	230_V	0.540	0.30
34_L	225_V	0.536	0.30
100_S	257_P	0.535	0.30
97_P	166_I	0.535	0.30
6_V	19_A	0.533	0.29
122_K	212_L	0.532	0.29
45_L	57_P	0.532	0.29
91_Y	255_Y	0.532	0.29
174_L	212_L	0.531	0.29
21_G	237_D	0.529	0.29
253_E	256_Q	0.527	0.29
174_L	187_F	0.527	0.29
56_S	90_I	0.526	0.29
216_I	279_P	0.526	0.29
44_I	80_Q	0.526	0.29
163_K	166_I	0.525	0.29
10_F	164_K	0.524	0.29
229_L	262_L	0.523	0.29
23_L	225_V	0.522	0.29
183_Y	265_V	0.522	0.29
106_I	220_I	0.521	0.29
26_Y	201_G	0.520	0.28
31_Y	218_H	0.517	0.28
40_F	205_N	0.517	0.28
4_L	216_I	0.516	0.28
27_I	233_P	0.513	0.28
6_V	165_E	0.513	0.28
28_N	32_A	0.512	0.28
269_D	274_K	0.512	0.28
210_F	227_G	0.510	0.28
44_I	57_P	0.509	0.28
244_I	270_W	0.508	0.28
170_D	239_K	0.508	0.28
154_K	264_V	0.506	0.27
165_E	193_E	0.505	0.27
29_M	270_W	0.504	0.27
99_V	266_K	0.504	0.27
244_I	273_I	0.504	0.27
110_D	225_V	0.503	0.27
16_H	19_A	0.503	0.27
49_Q	172_D	0.503	0.27
202_N	237_D	0.503	0.27
41_L	122_K	0.502	0.27
177_M	217_I	0.501	0.27
37_I	218_H	0.501	0.27
173_F	215_G	0.501	0.27
11_T	51_Y	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
3f2bA	1	0.3509	94.7	0.921	Contact Map
4hspA	3	0.4912	93.8	0.925	Contact Map
1wydA	2	0.3684	91.8	0.93	Contact Map
2xgtA	2	0.3544	90	0.933	Contact Map
4j15A	2	0.4632	89.1	0.934	Contact Map
4pg3A	2	0.4877	88.8	0.934	Contact Map
1n9wA	2	0.3333	88.1	0.935	Contact Map
3k8aA	2	0.3018	87.7	0.935	Contact Map
3nemA	2	0.3789	87.5	0.936	Contact Map
1x54A	2	0.3789	87.3	0.936	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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