YKUI - BACSU - GREMLIN Contacts

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YKUI - Uncharacterized EAL-domain containing protein YkuI

UniProt:	O35014	Sequences: MLDPLDILTNIDDVLPYYQAIFSAEEQKVVGYEVLGRILADSEIQSLGPFFLDAGIPEEYKLEVDNRIIRQALDRFLEADSDLLIFMNQDANLLMLDHGESFLELLKEYEAKGIELHRFVLEITEHNFEGDIEQLYHMLAYYRTYGIKIAVDNIGKESSNLDRIALLSPDLLKIDLQALKVSQPSPSYEHVLYSISLLARKIGAALLYEDIEANFQLQYAWRNGGRYFQGYYLVSPSETFLERDVLKQRLKTEFHQFITHEKKKLETVYEHSEQFYKRVHQAVTSLRKNNLSSDDDFIKKLAEELTDCSFRIYMCDEEGDQLTGNVFKQDGEWIYQPEYAEKNWSWRPYFLENIMRMRNLRKGFFSDLYSDLETGEMIRTFSYPMDDQMYLFIDLPYSYLYEQDGLI	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	407 (341)
Sequences:	577 (474)
Seq/√Len:	25.7

ECOLI - DOSP YLIE YFGF YEGE GMR YFEA YHJK CSRD YLAB YCGG YJCC RTN ADRB
BACSU - YKUI YKOW

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
172_L	199_A	4.121	1.00
70_R	111_A	4.054	1.00
125_E	209_E	3.377	1.00
35_L	209_E	3.217	1.00
125_E	153_N	3.181	1.00
155_G	159_S	3.179	1.00
35_L	88_N	3.144	1.00
35_L	212_E	2.890	1.00
125_E	155_G	2.858	1.00
35_L	152_D	2.827	1.00
231_Y	236_P	2.804	1.00
209_E	236_P	2.721	0.99
155_G	209_E	2.697	0.99
153_N	209_E	2.575	0.99
88_N	122_E	2.567	0.99
19_Q	37_R	2.541	0.99
153_N	157_E	2.483	0.99
125_E	159_S	2.480	0.99
24_A	228_F	2.477	0.99
35_L	236_P	2.408	0.99
35_L	122_E	2.398	0.98
37_R	231_Y	2.312	0.98
16_P	36_G	2.312	0.98
175_D	210_D	2.306	0.98
212_E	231_Y	2.293	0.98
40_A	44_I	2.273	0.98
70_R	74_D	2.260	0.98
37_R	152_D	2.223	0.97
19_Q	35_L	2.185	0.97
88_N	173_K	2.183	0.97
35_L	231_Y	2.177	0.97
122_E	212_E	2.129	0.97
37_R	88_N	2.126	0.97
37_R	122_E	2.069	0.96
153_N	210_D	2.052	0.96
38_I	51_F	2.000	0.95
209_E	231_Y	1.973	0.95
102_F	109_Y	1.935	0.94
88_N	152_D	1.918	0.94
69_I	105_L	1.906	0.94
59_E	147_I	1.899	0.94
41_D	44_I	1.880	0.93
205_A	226_R	1.869	0.93
159_S	175_D	1.865	0.93
67_R	71_Q	1.862	0.93
152_D	175_D	1.830	0.92
344_W	347_R	1.824	0.92
71_Q	74_D	1.823	0.92
35_L	125_E	1.776	0.91
18_Y	75_R	1.768	0.91
111_A	211_I	1.741	0.90
73_L	87_M	1.737	0.90
122_E	173_K	1.691	0.89
203_G	321_Q	1.687	0.89
35_L	173_K	1.673	0.89
88_N	212_E	1.669	0.88
14_V	36_G	1.658	0.88
157_E	209_E	1.654	0.88
200_R	226_R	1.654	0.88
46_S	240_F	1.646	0.88
152_D	212_E	1.642	0.88
208_Y	220_A	1.641	0.88
124_T	159_S	1.626	0.87
209_E	212_E	1.618	0.87
80_D	118_R	1.617	0.87
36_G	48_G	1.611	0.87
21_I	120_V	1.600	0.86
121_L	142_Y	1.577	0.85
69_I	142_Y	1.558	0.85
104_E	108_E	1.544	0.84
54_A	57_P	1.543	0.84
33_E	88_N	1.528	0.83
120_V	171_L	1.523	0.83
313_Y	319_G	1.523	0.83
37_R	229_Q	1.503	0.82
108_E	112_K	1.471	0.81
120_V	150_A	1.458	0.80
88_N	231_Y	1.433	0.79
344_W	348_P	1.432	0.79
56_I	59_E	1.431	0.79
296_D	299_K	1.423	0.79
153_N	173_K	1.400	0.78
57_P	60_Y	1.396	0.77
122_E	231_Y	1.395	0.77
89_Q	121_L	1.384	0.77
359_N	362_K	1.381	0.77
35_L	153_N	1.366	0.76
24_A	221_W	1.355	0.75
234_V	237_S	1.351	0.75
125_E	154_I	1.341	0.74
155_G	160_N	1.334	0.74
51_F	68_I	1.325	0.73
314_M	323_T	1.320	0.73
152_D	231_Y	1.320	0.73
18_Y	195_I	1.312	0.73
198_L	280_H	1.311	0.73
159_S	209_E	1.306	0.72
33_E	173_K	1.294	0.72
125_E	152_D	1.294	0.72
77_L	81_S	1.272	0.70
211_I	361_R	1.270	0.70
55_G	59_E	1.267	0.70
37_R	212_E	1.266	0.70
19_Q	229_Q	1.263	0.70
125_E	163_R	1.263	0.70
173_K	209_E	1.263	0.70
343_N	347_R	1.261	0.70
155_G	173_K	1.257	0.69
143_R	170_D	1.255	0.69
105_L	142_Y	1.251	0.69
19_Q	88_N	1.249	0.69
88_N	153_N	1.238	0.68
238_E	300_K	1.236	0.68
32_Y	52_L	1.232	0.68
37_R	173_K	1.226	0.67
203_G	313_Y	1.226	0.67
125_E	160_N	1.221	0.67
37_R	236_P	1.206	0.66
19_Q	122_E	1.197	0.66
267_T	284_T	1.192	0.65
217_L	233_L	1.189	0.65
65_D	93_L	1.188	0.65
37_R	209_E	1.187	0.65
115_E	207_L	1.182	0.65
258_I	261_E	1.182	0.65
344_W	350_F	1.181	0.64
258_I	343_N	1.173	0.64
54_A	59_E	1.172	0.64
18_Y	250_L	1.172	0.64
176_L	180_K	1.168	0.64
248_Q	252_T	1.168	0.64
213_A	233_L	1.158	0.63
36_G	172_L	1.158	0.63
196_S	223_N	1.149	0.62
51_F	216_Q	1.144	0.62
311_R	344_W	1.144	0.62
157_E	210_D	1.144	0.62
122_E	236_P	1.141	0.62
208_Y	343_N	1.139	0.62
32_Y	203_G	1.137	0.61
125_E	236_P	1.135	0.61
22_F	201_K	1.130	0.61
21_I	86_F	1.127	0.61
119_F	235_S	1.120	0.60
102_F	105_L	1.105	0.59
72_A	199_A	1.105	0.59
125_E	173_K	1.095	0.59
66_N	69_I	1.094	0.58
155_G	198_L	1.094	0.58
33_E	37_R	1.093	0.58
17_Y	238_E	1.082	0.58
333_W	346_W	1.077	0.57
105_L	121_L	1.074	0.57
139_L	149_I	1.071	0.57
122_E	229_Q	1.068	0.57
88_N	229_Q	1.066	0.56
23_S	150_A	1.063	0.56
19_Q	33_E	1.063	0.56
36_G	68_I	1.056	0.56
295_D	324_G	1.049	0.55
24_A	219_Y	1.046	0.55
16_P	68_I	1.045	0.55
122_E	153_N	1.044	0.55
34_V	233_L	1.044	0.55
210_D	213_A	1.042	0.55
169_P	204_A	1.039	0.54
153_N	159_S	1.036	0.54
109_Y	147_I	1.033	0.54
115_E	118_R	1.032	0.54
187_S	195_I	1.030	0.54
244_D	293_S	1.022	0.53
264_K	277_K	1.015	0.53
56_I	61_K	1.010	0.52
125_E	175_D	1.003	0.52
65_D	88_N	1.002	0.52
26_E	200_R	1.000	0.52
121_L	149_I	0.995	0.51
195_I	340_A	0.984	0.50
78_E	110_E	0.982	0.50
36_G	51_F	0.978	0.50
33_E	229_Q	0.977	0.50
325_N	348_P	0.968	0.49
275_F	286_L	0.965	0.49
203_G	319_G	0.962	0.49
154_I	175_D	0.961	0.49
122_E	209_E	0.957	0.48
19_Q	173_K	0.955	0.48
139_L	213_A	0.952	0.48
66_N	233_L	0.950	0.48
124_T	209_E	0.948	0.48
69_I	164_I	0.946	0.48
172_L	237_S	0.941	0.47
120_V	169_P	0.935	0.47
122_E	155_G	0.933	0.47
332_E	335_Y	0.930	0.46
86_F	220_A	0.922	0.46
124_T	175_D	0.917	0.46
118_R	227_Y	0.913	0.45
172_L	309_S	0.910	0.45
173_K	212_E	0.906	0.45
114_I	299_K	0.905	0.45
123_I	151_V	0.905	0.45
110_E	288_K	0.902	0.44
15_L	39_L	0.900	0.44
17_Y	237_S	0.899	0.44
31_G	120_V	0.897	0.44
169_P	319_G	0.896	0.44
175_D	209_E	0.894	0.44
268_V	279_V	0.894	0.44
68_I	71_Q	0.892	0.44
51_F	76_F	0.889	0.44
231_Y	235_S	0.887	0.43
122_E	152_D	0.886	0.43
107_K	277_K	0.885	0.43
33_E	212_E	0.882	0.43
65_D	163_R	0.881	0.43
152_D	173_K	0.878	0.43
285_S	295_D	0.875	0.43
65_D	171_L	0.871	0.42
238_E	248_Q	0.870	0.42
159_S	210_D	0.868	0.42
64_V	155_G	0.866	0.42
169_P	203_G	0.865	0.42
121_L	147_I	0.861	0.42
49_P	191_V	0.861	0.42
108_E	172_L	0.860	0.41
198_L	231_Y	0.859	0.41
155_G	210_D	0.858	0.41
153_N	156_K	0.852	0.41
208_Y	225_G	0.852	0.41
128_F	131_D	0.850	0.41
52_L	61_K	0.849	0.41
91_A	124_T	0.846	0.40
34_V	159_S	0.845	0.40
114_I	135_L	0.844	0.40
85_I	197_L	0.839	0.40
19_Q	212_E	0.837	0.40
48_G	152_D	0.836	0.40
198_L	209_E	0.831	0.39
23_S	148_K	0.831	0.39
319_G	325_N	0.827	0.39
52_L	135_L	0.827	0.39
52_L	119_F	0.824	0.39
107_K	110_E	0.822	0.39
175_D	231_Y	0.822	0.39
91_A	202_I	0.819	0.39
35_L	155_G	0.819	0.39
69_I	169_P	0.818	0.38
116_L	147_I	0.815	0.38
55_G	188_Y	0.812	0.38
160_N	163_R	0.812	0.38
48_G	68_I	0.812	0.38
315_C	319_G	0.807	0.38
154_I	165_A	0.806	0.38
125_E	157_E	0.806	0.38
62_L	93_L	0.802	0.37
158_S	198_L	0.802	0.37
52_L	169_P	0.801	0.37
338_E	342_K	0.800	0.37
105_L	109_Y	0.798	0.37
41_D	231_Y	0.798	0.37
37_R	65_D	0.798	0.37
62_L	98_H	0.788	0.36
32_Y	242_E	0.785	0.36
72_A	201_K	0.778	0.36
273_E	276_Y	0.771	0.35
272_S	278_R	0.770	0.35
345_S	360_L	0.770	0.35
169_P	221_W	0.769	0.35
335_Y	338_E	0.765	0.35
351_L	362_K	0.764	0.35
313_Y	321_Q	0.761	0.35
321_Q	325_N	0.758	0.34
123_I	164_I	0.758	0.34
33_E	152_D	0.755	0.34
85_I	135_L	0.755	0.34
76_F	216_Q	0.752	0.34
25_E	226_R	0.750	0.34
169_P	313_Y	0.749	0.34
37_R	125_E	0.748	0.34
16_P	51_F	0.746	0.34
135_L	148_K	0.742	0.33
21_I	32_Y	0.740	0.33
84_L	121_L	0.739	0.33
76_F	118_R	0.739	0.33
52_L	142_Y	0.737	0.33
34_V	309_S	0.736	0.33
159_S	198_L	0.736	0.33
18_Y	69_I	0.735	0.33
341_E	350_F	0.734	0.33
319_G	349_Y	0.732	0.33
122_E	125_E	0.732	0.33
90_D	93_L	0.732	0.33
283_V	293_S	0.730	0.33
36_G	154_I	0.729	0.32
107_K	293_S	0.728	0.32
155_G	175_D	0.726	0.32
345_S	350_F	0.725	0.32
72_A	84_L	0.722	0.32
22_F	245_V	0.721	0.32
22_F	120_V	0.721	0.32
220_A	344_W	0.721	0.32
83_L	243_R	0.717	0.32
76_F	174_I	0.716	0.32
143_R	183_Q	0.716	0.32
82_D	149_I	0.716	0.32
40_A	123_I	0.716	0.32
153_N	160_N	0.715	0.32
40_A	79_A	0.714	0.32
119_F	290_N	0.712	0.31
173_K	229_Q	0.711	0.31
35_L	229_Q	0.710	0.31
279_V	298_I	0.710	0.31
101_S	142_Y	0.709	0.31
24_A	207_L	0.709	0.31
99_G	102_F	0.707	0.31
52_L	163_R	0.705	0.31
109_Y	123_I	0.703	0.31
146_G	230_G	0.700	0.31
29_V	195_I	0.699	0.31
169_P	205_A	0.697	0.30
103_L	110_E	0.693	0.30
154_I	234_V	0.691	0.30
186_P	219_Y	0.690	0.30
88_N	209_E	0.690	0.30
140_A	143_R	0.690	0.30
131_D	157_E	0.688	0.30
174_I	195_I	0.687	0.30
211_I	234_V	0.686	0.30
79_A	243_R	0.684	0.30
206_L	226_R	0.681	0.29
38_I	225_G	0.681	0.29
16_P	34_V	0.681	0.29
65_D	147_I	0.680	0.29
35_L	175_D	0.676	0.29
82_D	113_G	0.675	0.29
18_Y	185_S	0.674	0.29
40_A	170_D	0.674	0.29
212_E	236_P	0.672	0.29
299_K	303_E	0.672	0.29
99_G	103_L	0.671	0.29
21_I	150_A	0.665	0.29
240_F	264_K	0.665	0.29
152_D	155_G	0.664	0.28
217_L	222_R	0.664	0.28
311_R	315_C	0.659	0.28
161_L	165_A	0.658	0.28
150_A	159_S	0.658	0.28
103_L	149_I	0.656	0.28
38_I	46_S	0.654	0.28
122_E	175_D	0.654	0.28
28_K	280_H	0.653	0.28
347_R	350_F	0.649	0.28
290_N	297_F	0.649	0.28
192_L	329_Q	0.648	0.28
199_A	353_N	0.645	0.27
72_A	321_Q	0.644	0.27
16_P	72_A	0.643	0.27
122_E	157_E	0.642	0.27
65_D	69_I	0.638	0.27
221_W	234_V	0.638	0.27
142_Y	169_P	0.637	0.27
179_L	208_Y	0.636	0.27
128_F	156_K	0.632	0.27
68_I	121_L	0.632	0.27
248_Q	259_T	0.631	0.27
192_L	208_Y	0.631	0.27
138_M	183_Q	0.630	0.26
76_F	91_A	0.630	0.26
197_L	217_L	0.630	0.26
283_V	289_N	0.630	0.26
20_A	341_E	0.629	0.26
311_R	347_R	0.628	0.26
21_I	204_A	0.628	0.26
90_D	124_T	0.627	0.26
77_L	215_F	0.625	0.26
42_S	149_I	0.623	0.26
118_R	163_R	0.623	0.26
151_V	274_Q	0.622	0.26
18_Y	85_I	0.621	0.26
44_I	164_I	0.621	0.26
325_N	347_R	0.619	0.26
155_G	212_E	0.619	0.26
53_D	56_I	0.619	0.26
281_Q	297_F	0.617	0.26
139_L	168_S	0.617	0.26
240_F	308_C	0.616	0.26
143_R	222_R	0.614	0.26
265_L	268_V	0.613	0.26
69_I	108_E	0.612	0.25
333_W	347_R	0.612	0.25
169_P	321_Q	0.612	0.25
206_L	262_K	0.610	0.25
84_L	353_N	0.610	0.25
128_F	232_Y	0.609	0.25
180_K	184_P	0.609	0.25
35_L	65_D	0.608	0.25
56_I	60_Y	0.606	0.25
151_V	176_L	0.605	0.25
72_A	161_L	0.604	0.25
164_I	204_A	0.604	0.25
14_V	240_F	0.603	0.25
321_Q	345_S	0.603	0.25
135_L	194_S	0.601	0.25
37_R	175_D	0.599	0.25
21_I	234_V	0.598	0.25
194_S	295_D	0.596	0.25
179_L	182_S	0.595	0.25
48_G	220_A	0.595	0.25
29_V	181_V	0.595	0.25
50_F	203_G	0.590	0.24
255_H	258_I	0.589	0.24
202_I	224_G	0.589	0.24
19_Q	209_E	0.587	0.24
124_T	158_S	0.585	0.24
335_Y	360_L	0.583	0.24
256_Q	259_T	0.581	0.24
339_Y	346_W	0.579	0.24
325_N	350_F	0.579	0.24
14_V	86_F	0.577	0.24
120_V	311_R	0.577	0.24
94_L	174_I	0.576	0.23
211_I	342_K	0.576	0.23
19_Q	231_Y	0.575	0.23
34_V	210_D	0.575	0.23
30_V	227_Y	0.575	0.23
154_I	210_D	0.571	0.23
225_G	228_F	0.571	0.23
283_V	287_R	0.570	0.23
18_Y	38_I	0.566	0.23
177_Q	281_Q	0.565	0.23
353_N	360_L	0.564	0.23
139_L	228_F	0.563	0.23
21_I	313_Y	0.563	0.23
67_R	151_V	0.563	0.23
64_V	196_S	0.563	0.23
254_F	261_E	0.563	0.23
176_L	182_S	0.562	0.23
69_I	119_F	0.562	0.23
181_V	303_E	0.559	0.23
87_M	172_L	0.558	0.23
48_G	153_N	0.558	0.23
86_F	236_P	0.555	0.22
40_A	243_R	0.555	0.22
215_F	241_L	0.552	0.22
158_S	175_D	0.551	0.22
35_L	48_G	0.551	0.22
51_F	353_N	0.551	0.22
227_Y	333_W	0.550	0.22
332_E	336_Q	0.549	0.22
51_F	69_I	0.547	0.22
61_K	90_D	0.547	0.22
56_I	90_D	0.546	0.22
210_D	231_Y	0.546	0.22
325_N	349_Y	0.546	0.22
202_I	231_Y	0.545	0.22
142_Y	232_Y	0.545	0.22
256_Q	290_N	0.544	0.22
33_E	48_G	0.544	0.22
12_D	70_R	0.543	0.22
270_E	284_T	0.543	0.22
23_S	226_R	0.542	0.22
268_V	286_L	0.542	0.22
171_L	233_L	0.541	0.22
119_F	313_Y	0.540	0.22
153_N	213_A	0.540	0.22
39_L	290_N	0.540	0.22
110_E	167_L	0.539	0.22
63_E	70_R	0.538	0.22
87_M	139_L	0.538	0.22
65_D	122_E	0.537	0.21
150_A	163_R	0.536	0.21
65_D	233_L	0.534	0.21
105_L	108_E	0.534	0.21
26_E	199_A	0.534	0.21
100_E	103_L	0.534	0.21
148_K	170_D	0.533	0.21
165_A	191_V	0.533	0.21
174_I	192_L	0.533	0.21
32_Y	123_I	0.533	0.21
94_L	233_L	0.533	0.21
29_V	243_R	0.531	0.21
188_Y	193_Y	0.531	0.21
227_Y	325_N	0.530	0.21
135_L	163_R	0.529	0.21
121_L	162_D	0.527	0.21
15_L	45_Q	0.526	0.21
43_E	66_N	0.525	0.21
18_Y	307_D	0.525	0.21
140_A	239_T	0.523	0.21
59_E	64_V	0.521	0.21
321_Q	349_Y	0.521	0.21
36_G	206_L	0.520	0.21
70_R	302_A	0.517	0.21
250_L	257_F	0.517	0.21
135_L	142_Y	0.517	0.21
33_E	230_G	0.517	0.21
248_Q	330_D	0.515	0.20
188_Y	196_S	0.515	0.20
315_C	343_N	0.514	0.20
63_E	76_F	0.510	0.20
130_G	133_E	0.509	0.20
128_F	204_A	0.509	0.20
149_I	181_V	0.508	0.20
86_F	227_Y	0.506	0.20
86_F	171_L	0.506	0.20
168_S	202_I	0.505	0.20
140_A	259_T	0.505	0.20
124_T	153_N	0.505	0.20
29_V	245_V	0.504	0.20
266_E	282_A	0.500	0.20
174_I	282_A	0.500	0.20

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
2basA	2	0.9803	100	0.249	Contact Map
4hjfA	1	0.6167	100	0.417	Contact Map
4kieA	1	0.6044	100	0.423	Contact Map
4rnhA	2	0.602	100	0.425	Contact Map
3sy8A	6	0.6216	100	0.434	Contact Map
4j40A	2	0.5946	100	0.434	Contact Map
2r6oA	2	0.6143	100	0.441	Contact Map
4rniA	2	0.6044	100	0.446	Contact Map
3pjxA	1	0.5774	100	0.447	Contact Map
4hu4A	1	0.5897	100	0.448	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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