YQAJ - BACSU - GREMLIN Contacts

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YQAJ - Uncharacterized protein YqaJ

UniProt:	P45907	Sequences: MTSKRAEVLAKNSEMSRDEWLIERRKGIGGSDASIILGLNKWKTPFELWLDKTGQVPVSESQSEAAYFGSLLEDIVAKEFEIRSGKKVRRKKAILRHPEYNFILANVDRMIVGEKAILECKTTSAYNLKEWEDEEIPESYIVQVQHYLGVLGPEYRKAYFAVLIGGNKFVWKEIERDDELIDMIFKAEIEFWNDKVLGGQAPALDGSSAAEEYLKKRYAETENNKAIDLTAANRERIQQYLLIKEQISELQSQAKELENQIKHEMKDAEYGFIGNYQACWKPVVSNRIDTKKLKDQFPDVYEKVKKETHFRRFGIKEVS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	319 (290)
Sequences:	706 (565)
Seq/√Len:	33.2

BACSU - YQAJ

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
288_I	293_L	4.965	1.00
77_A	109_R	4.783	1.00
117_I	158_A	4.467	1.00
43_K	51_D	3.945	1.00
247_I	251_Q	3.659	1.00
265_M	271_G	3.649	1.00
176_R	181_I	3.369	1.00
30_G	147_Y	3.304	1.00
33_A	188_E	3.275	1.00
146_H	188_E	3.041	1.00
296_Q	304_V	2.978	1.00
80_F	159_Y	2.882	1.00
293_L	300_V	2.724	1.00
116_A	157_K	2.703	1.00
243_I	250_L	2.597	1.00
144_V	158_A	2.490	1.00
157_K	173_E	2.352	0.99
49_W	53_T	2.314	0.99
79_E	83_R	2.312	0.99
292_K	296_Q	2.306	0.99
149_G	185_F	2.299	0.99
103_I	185_F	2.225	0.99
32_D	52_K	2.222	0.99
239_Q	253_Q	2.212	0.99
301_Y	305_K	2.179	0.99
178_D	181_I	2.167	0.99
55_Q	199_G	2.143	0.99
41_K	139_S	2.117	0.99
63_S	66_A	2.079	0.98
34_S	40_N	2.020	0.98
297_F	304_V	1.987	0.98
107_V	151_L	1.974	0.98
103_I	146_H	1.967	0.98
33_A	146_H	1.939	0.97
103_I	188_E	1.925	0.97
60_E	66_A	1.902	0.97
246_Q	250_L	1.848	0.97
192_W	196_V	1.842	0.96
293_L	297_F	1.840	0.96
37_L	187_A	1.819	0.96
116_A	159_Y	1.783	0.96
84_S	171_W	1.773	0.96
37_L	184_I	1.748	0.95
49_W	55_Q	1.712	0.95
258_E	262_K	1.693	0.94
35_I	40_N	1.677	0.94
145_Q	181_I	1.677	0.94
244_K	254_A	1.666	0.94
22_I	25_R	1.665	0.94
291_K	295_D	1.644	0.93
33_A	184_I	1.644	0.93
144_V	148_L	1.642	0.93
62_Q	66_A	1.641	0.93
123_T	162_V	1.631	0.93
236_R	260_Q	1.609	0.93
117_I	144_V	1.592	0.92
119_E	147_Y	1.576	0.92
27_G	104_L	1.570	0.92
74_D	78_K	1.557	0.91
103_I	149_G	1.507	0.90
53_T	199_G	1.500	0.90
148_L	158_A	1.499	0.90
294_K	301_Y	1.492	0.89
247_I	254_A	1.484	0.89
106_N	147_Y	1.472	0.89
49_W	199_G	1.470	0.89
191_F	196_V	1.469	0.89
35_I	48_L	1.468	0.89
29_G	32_D	1.460	0.88
247_I	250_L	1.455	0.88
193_N	198_G	1.442	0.88
288_I	300_V	1.441	0.88
117_I	148_L	1.422	0.87
115_K	153_P	1.414	0.87
243_I	257_L	1.394	0.86
178_D	182_D	1.371	0.85
16_S	19_E	1.347	0.84
62_Q	70_S	1.346	0.84
254_A	258_E	1.346	0.84
296_Q	300_V	1.339	0.84
64_E	168_K	1.332	0.83
29_G	52_K	1.332	0.83
240_Y	243_I	1.331	0.83
235_E	239_Q	1.319	0.83
146_H	150_V	1.310	0.82
149_G	181_I	1.309	0.82
240_Y	257_L	1.300	0.82
292_K	304_V	1.299	0.82
189_I	193_N	1.295	0.81
76_V	122_T	1.284	0.81
34_S	139_S	1.284	0.81
95_L	107_V	1.258	0.79
74_D	120_C	1.246	0.79
33_A	36_I	1.238	0.78
107_V	110_M	1.229	0.78
28_I	36_I	1.225	0.78
142_V	180_L	1.204	0.76
71_L	75_I	1.203	0.76
80_F	84_S	1.198	0.76
15_M	106_N	1.188	0.75
43_K	48_L	1.187	0.75
144_V	160_F	1.181	0.75
288_I	297_F	1.180	0.75
109_R	120_C	1.180	0.75
233_N	261_I	1.174	0.75
29_G	147_Y	1.144	0.73
77_A	118_L	1.141	0.72
76_V	120_C	1.121	0.71
111_I	118_L	1.117	0.71
94_I	106_N	1.115	0.71
251_Q	255_K	1.106	0.70
131_W	137_P	1.070	0.67
64_E	83_R	1.067	0.67
45_P	195_K	1.067	0.67
77_A	120_C	1.063	0.67
233_N	257_L	1.061	0.67
66_A	70_S	1.056	0.66
109_R	118_L	1.054	0.66
68_F	163_L	1.050	0.66
223_N	269_E	1.050	0.66
44_T	47_E	1.048	0.66
243_I	254_A	1.042	0.65
67_Y	79_E	1.039	0.65
25_R	54_G	1.037	0.65
229_L	271_G	1.034	0.65
53_T	196_V	1.033	0.65
161_A	169_F	1.033	0.65
90_R	109_R	1.031	0.64
68_F	79_E	1.026	0.64
164_I	170_V	1.026	0.64
266_K	271_G	1.026	0.64
95_L	151_L	1.025	0.64
37_L	142_V	1.011	0.63
286_N	307_E	1.006	0.63
46_F	50_L	1.006	0.63
233_N	264_E	1.005	0.62
30_G	106_N	1.004	0.62
50_L	55_Q	0.996	0.62
24_R	32_D	0.994	0.62
17_R	21_L	0.983	0.61
271_G	278_A	0.981	0.61
75_I	79_E	0.978	0.60
79_E	82_I	0.978	0.60
67_Y	82_I	0.975	0.60
290_T	294_K	0.973	0.60
297_F	300_V	0.963	0.59
49_W	198_G	0.960	0.59
48_L	51_D	0.957	0.59
17_R	70_S	0.949	0.58
195_K	203_A	0.948	0.58
242_L	246_Q	0.945	0.58
132_E	172_K	0.936	0.57
152_G	181_I	0.933	0.57
300_V	304_V	0.931	0.56
262_K	280_W	0.930	0.56
118_L	161_A	0.929	0.56
193_N	197_L	0.925	0.56
24_R	52_K	0.922	0.56
239_Q	243_I	0.920	0.56
49_W	195_K	0.918	0.55
123_T	127_N	0.911	0.55
296_Q	303_K	0.902	0.54
250_L	254_A	0.902	0.54
49_W	201_A	0.896	0.54
232_A	260_Q	0.891	0.53
293_L	301_Y	0.888	0.53
86_K	114_E	0.886	0.53
61_S	66_A	0.881	0.52
64_E	79_E	0.881	0.52
246_Q	249_E	0.877	0.52
73_E	119_E	0.875	0.52
105_A	147_Y	0.874	0.52
159_Y	173_E	0.873	0.52
31_S	38_G	0.870	0.51
284_V	307_E	0.862	0.51
47_E	51_D	0.862	0.51
149_G	176_R	0.855	0.50
77_A	90_R	0.849	0.50
134_E	172_K	0.838	0.49
85_G	105_A	0.836	0.49
67_Y	71_L	0.833	0.48
257_L	264_E	0.831	0.48
297_F	303_K	0.828	0.48
160_F	174_I	0.825	0.48
68_F	167_N	0.823	0.47
245_E	252_S	0.822	0.47
68_F	166_G	0.820	0.47
131_W	160_F	0.819	0.47
162_V	169_F	0.818	0.47
163_L	166_G	0.815	0.47
184_I	187_A	0.812	0.47
108_D	143_Q	0.810	0.46
240_Y	258_E	0.809	0.46
60_E	63_S	0.808	0.46
253_Q	257_L	0.807	0.46
21_L	25_R	0.806	0.46
108_D	121_K	0.802	0.46
121_K	143_Q	0.802	0.46
102_F	188_E	0.800	0.46
80_F	116_A	0.800	0.46
236_R	257_L	0.800	0.46
255_K	259_N	0.799	0.45
76_V	161_A	0.799	0.45
48_L	54_G	0.796	0.45
92_K	109_R	0.795	0.45
46_F	210_A	0.794	0.45
250_L	253_Q	0.790	0.45
97_H	101_N	0.790	0.45
103_I	150_V	0.788	0.45
205_D	271_G	0.782	0.44
131_W	164_I	0.781	0.44
240_Y	244_K	0.778	0.44
286_N	300_V	0.778	0.44
289_D	306_K	0.777	0.44
88_V	111_I	0.777	0.44
240_Y	254_A	0.774	0.43
97_H	185_F	0.773	0.43
30_G	140_Y	0.773	0.43
257_L	261_I	0.772	0.43
288_I	304_V	0.769	0.43
41_K	209_A	0.767	0.43
59_S	66_A	0.764	0.43
272_F	277_Q	0.762	0.42
111_I	160_F	0.761	0.42
96_R	99_E	0.758	0.42
103_I	107_V	0.757	0.42
64_E	68_F	0.756	0.42
58_V	63_S	0.756	0.42
162_V	209_A	0.752	0.42
75_I	83_R	0.752	0.42
125_A	145_Q	0.750	0.41
27_G	80_F	0.749	0.41
22_I	26_K	0.748	0.41
286_N	305_K	0.738	0.41
87_K	90_R	0.737	0.40
122_T	163_L	0.732	0.40
247_I	265_M	0.731	0.40
21_L	27_G	0.730	0.40
34_S	66_A	0.730	0.40
43_K	47_E	0.729	0.40
51_D	56_V	0.729	0.40
100_Y	103_I	0.729	0.40
125_A	168_K	0.727	0.40
183_M	186_K	0.726	0.40
23_E	104_L	0.725	0.39
249_E	253_Q	0.724	0.39
35_I	49_W	0.721	0.39
299_D	302_E	0.719	0.39
36_I	187_A	0.715	0.39
140_Y	147_Y	0.715	0.39
286_N	293_L	0.714	0.39
52_K	165_G	0.714	0.39
269_E	281_K	0.711	0.38
131_W	166_G	0.709	0.38
148_L	176_R	0.706	0.38
45_P	48_L	0.706	0.38
58_V	287_R	0.704	0.38
73_E	143_Q	0.704	0.38
73_E	108_D	0.704	0.38
261_I	264_E	0.703	0.38
177_D	180_L	0.700	0.37
253_Q	256_E	0.695	0.37
146_H	192_W	0.695	0.37
34_S	142_V	0.694	0.37
142_V	187_A	0.692	0.37
203_A	245_E	0.691	0.37
131_W	202_P	0.689	0.37
49_W	202_P	0.689	0.37
73_E	121_K	0.688	0.37
109_R	113_G	0.687	0.36
145_Q	174_I	0.686	0.36
226_A	229_L	0.678	0.36
20_W	24_R	0.676	0.36
72_L	122_T	0.675	0.36
244_K	258_E	0.673	0.35
83_R	167_N	0.672	0.35
141_I	177_D	0.671	0.35
107_V	158_A	0.668	0.35
286_N	290_T	0.667	0.35
115_K	154_E	0.664	0.35
80_F	147_Y	0.663	0.35
44_T	207_S	0.661	0.34
23_E	93_A	0.659	0.34
222_E	269_E	0.659	0.34
69_G	143_Q	0.656	0.34
69_G	108_D	0.656	0.34
255_K	279_C	0.655	0.34
132_E	170_V	0.654	0.34
240_Y	250_L	0.654	0.34
239_Q	260_Q	0.654	0.34
223_N	267_D	0.653	0.34
301_Y	306_K	0.650	0.34
50_L	53_T	0.647	0.33
18_D	22_I	0.647	0.33
161_A	201_A	0.646	0.33
240_Y	247_I	0.644	0.33
131_W	136_I	0.644	0.33
96_R	104_L	0.644	0.33
59_S	170_V	0.642	0.33
69_G	121_K	0.642	0.33
244_K	248_S	0.640	0.33
302_E	307_E	0.640	0.33
77_A	92_K	0.639	0.33
87_K	92_K	0.638	0.33
300_V	303_K	0.637	0.33
205_D	278_A	0.633	0.32
205_D	210_A	0.632	0.32
140_Y	160_F	0.630	0.32
27_G	32_D	0.630	0.32
30_G	80_F	0.630	0.32
289_D	296_Q	0.625	0.32
141_I	180_L	0.625	0.32
84_S	146_H	0.624	0.32
79_E	184_I	0.623	0.32
230_T	264_E	0.622	0.32
99_E	185_F	0.619	0.31
89_R	109_R	0.619	0.31
33_A	142_V	0.619	0.31
26_K	96_R	0.619	0.31
31_S	36_I	0.618	0.31
293_L	296_Q	0.618	0.31
295_D	300_V	0.616	0.31
102_F	146_H	0.616	0.31
297_F	301_Y	0.616	0.31
20_W	106_N	0.615	0.31
91_K	110_M	0.612	0.31
187_A	190_E	0.610	0.31
30_G	40_N	0.609	0.31
37_L	177_D	0.609	0.31
206_G	209_A	0.605	0.30
285_S	307_E	0.605	0.30
279_C	283_V	0.605	0.30
67_Y	166_G	0.604	0.30
72_L	163_L	0.603	0.30
195_K	200_Q	0.602	0.30
30_G	52_K	0.602	0.30
42_W	123_T	0.601	0.30
150_V	188_E	0.596	0.30
297_F	302_E	0.596	0.30
95_L	152_G	0.595	0.30
76_V	163_L	0.594	0.30
213_Y	217_R	0.592	0.29
159_Y	171_W	0.589	0.29
68_F	165_G	0.588	0.29
32_D	165_G	0.588	0.29
210_A	259_N	0.586	0.29
185_F	188_E	0.584	0.29
205_D	214_L	0.584	0.29
260_Q	264_E	0.583	0.29
102_F	185_F	0.582	0.29
40_N	139_S	0.582	0.29
293_L	298_P	0.581	0.29
111_I	116_A	0.579	0.29
109_R	112_V	0.578	0.29
265_M	278_A	0.577	0.28
73_E	140_Y	0.577	0.28
160_F	163_L	0.576	0.28
239_Q	294_K	0.574	0.28
295_D	303_K	0.572	0.28
77_A	111_I	0.571	0.28
64_E	167_N	0.570	0.28
39_L	142_V	0.570	0.28
225_K	269_E	0.570	0.28
252_S	255_K	0.567	0.28
32_D	43_K	0.566	0.28
86_K	159_Y	0.564	0.28
102_F	189_I	0.562	0.27
90_R	267_D	0.562	0.27
235_E	246_Q	0.561	0.27
54_G	57_P	0.558	0.27
105_A	150_V	0.558	0.27
57_P	175_E	0.556	0.27
80_F	161_A	0.556	0.27
61_S	174_I	0.553	0.27
25_R	303_K	0.552	0.27
250_L	257_L	0.551	0.27
56_V	61_S	0.550	0.27
36_I	48_L	0.550	0.27
26_K	190_E	0.549	0.27
204_L	209_A	0.548	0.27
68_F	160_F	0.548	0.27
27_G	150_V	0.547	0.26
206_G	259_N	0.547	0.26
235_E	238_Q	0.545	0.26
30_G	43_K	0.544	0.26
118_L	144_V	0.543	0.26
161_A	166_G	0.542	0.26
186_K	190_E	0.542	0.26
14_E	18_D	0.538	0.26
292_K	306_K	0.538	0.26
46_F	49_W	0.536	0.26
68_F	71_L	0.536	0.26
195_K	198_G	0.535	0.26
290_T	306_K	0.534	0.26
64_E	166_G	0.533	0.26
246_Q	253_Q	0.529	0.25
97_H	100_Y	0.529	0.25
134_E	182_D	0.528	0.25
255_K	258_E	0.528	0.25
69_G	73_E	0.528	0.25
39_L	184_I	0.526	0.25
74_D	90_R	0.526	0.25
162_V	166_G	0.525	0.25
274_G	278_A	0.524	0.25
62_Q	83_R	0.524	0.25
99_E	152_G	0.524	0.25
290_T	301_Y	0.522	0.25
148_L	160_F	0.522	0.25
114_E	162_V	0.521	0.25
106_N	150_V	0.519	0.25
29_G	165_G	0.518	0.25
243_I	279_C	0.518	0.25
224_N	227_I	0.517	0.25
47_E	268_A	0.516	0.24
134_E	168_K	0.516	0.24
44_T	209_A	0.515	0.24
28_I	192_W	0.514	0.24
116_A	173_E	0.513	0.24
236_R	264_E	0.512	0.24
91_K	271_G	0.510	0.24
23_E	44_T	0.510	0.24
190_E	195_K	0.510	0.24
119_E	140_Y	0.507	0.24
36_I	111_I	0.505	0.24
287_R	290_T	0.504	0.24
236_R	291_K	0.504	0.24
42_W	136_I	0.504	0.24
96_R	151_L	0.504	0.24
165_G	168_K	0.503	0.24
154_E	157_K	0.502	0.24
71_L	79_E	0.502	0.24
124_S	127_N	0.502	0.24
184_I	188_E	0.501	0.24
219_A	224_N	0.500	0.24
182_D	220_E	0.500	0.24

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
3syyA	3	0.5768	100	0.488	Contact Map
3sm4A	3	0.6458	100	0.498	Contact Map
3k93A	3	0.5674	100	0.55	Contact Map
2w45A	1	0.7868	99.9	0.701	Contact Map
3fhdA	1	0.7555	99.7	0.788	Contact Map
4r5qA	1	0.5768	96.5	0.919	Contact Map
4ic1A	5	0.6082	95.1	0.927	Contact Map
3l0aA	3	0.6708	93.3	0.933	Contact Map
3h4rA	3	0.5705	79.9	0.946	Contact Map
4r8aA	1	0.442	39.5	0.959	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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