YGAE - BACSU - GREMLIN Contacts

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YGAE - UPF0421 protein YgaE

UniProt:	P71083	Sequences: MKLGARIFKTGIAITLALYLASWIGLPAPIFAGIAAIFAIQPSIYRSFLIIIDQVQANIIGAVIATVFGLIFGPSPIMIGLTAVIVITIMLKLKIEHTISIALVTVIAILESAGDDFLMFALIRTSTVILGVLSSFIVNLVFLPPKYETKLIHNTVENTEEIMKWIRLSMRQSTEHSILKEDIEKLKEKMIKLDQTYLLYKEERSYFKKTTYVKSRKLVLFRQAIITANRALDTLKKLHRLENEIYHMPEEFQETLTEELDYLLYWHERILMRFVGKIKPHDDAVEEGIRYKQLLTKSFLKNQQNTDEELIDYNMLNIMASAVEYREQLEHLETLITSFQTYHPKDCEIETEE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	353 (293)
Sequences:	5726 (4607)
Seq/√Len:	269.1

ECOLI - YCCS YHFK YEEA MDTO AAEB YDHK
BACSU - YGAE YQJA YVAC

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
17_A	134_S	3.164	1.00
9_K	139_N	2.852	1.00
262_Y	266_W	2.693	1.00
13_A	138_V	2.605	1.00
57_A	61_G	2.529	1.00
28_A	31_F	2.455	1.00
295_L	299_F	2.387	1.00
13_A	36_A	2.282	1.00
176_H	179_L	2.276	1.00
267_H	271_L	2.254	1.00
9_K	138_V	2.216	1.00
12_I	138_V	2.191	1.00
296_T	299_F	2.159	1.00
54_Q	124_R	2.130	1.00
17_A	36_A	2.112	1.00
58_N	124_R	2.104	1.00
14_I	37_I	2.058	1.00
293_Q	297_K	2.040	1.00
98_T	103_L	1.964	1.00
9_K	142_F	1.948	1.00
289_I	295_L	1.914	1.00
183_I	187_K	1.913	1.00
43_S	46_R	1.862	1.00
16_L	134_S	1.844	1.00
101_I	104_V	1.831	1.00
298_S	302_N	1.831	1.00
85_I	89_I	1.828	1.00
86_V	90_M	1.802	1.00
76_P	79_I	1.797	1.00
35_A	128_V	1.789	1.00
87_I	91_L	1.720	1.00
81_L	85_I	1.699	1.00
290_R	294_L	1.696	1.00
58_N	128_V	1.667	1.00
105_T	110_L	1.662	1.00
20_L	24_I	1.661	1.00
275_V	279_K	1.659	1.00
173_S	176_H	1.655	1.00
203_E	207_F	1.653	1.00
31_F	124_R	1.646	1.00
103_L	106_V	1.631	1.00
229_N	236_K	1.621	1.00
296_T	300_L	1.618	1.00
257_T	261_D	1.613	1.00
101_I	109_I	1.592	1.00
264_L	268_E	1.582	1.00
89_I	93_L	1.568	1.00
102_A	106_V	1.567	1.00
31_F	58_N	1.560	1.00
101_I	107_I	1.559	1.00
289_I	293_Q	1.554	1.00
288_G	295_L	1.553	1.00
137_I	141_V	1.548	1.00
264_L	271_L	1.547	1.00
20_L	134_S	1.538	1.00
288_G	291_Y	1.538	1.00
77_I	81_L	1.522	1.00
139_N	145_P	1.521	1.00
232_L	236_K	1.513	1.00
124_R	127_T	1.507	1.00
263_L	271_L	1.504	1.00
18_L	33_G	1.503	1.00
67_V	71_I	1.503	1.00
122_L	126_S	1.497	1.00
294_L	298_S	1.491	1.00
268_E	271_L	1.483	1.00
161_E	189_K	1.478	1.00
295_L	298_S	1.471	1.00
107_I	111_E	1.463	1.00
11_G	15_T	1.457	1.00
180_K	183_I	1.454	1.00
105_T	124_R	1.454	1.00
204_R	207_F	1.449	1.00
233_D	237_K	1.444	1.00
291_Y	296_T	1.440	1.00
179_L	183_I	1.438	1.00
121_A	124_R	1.436	1.00
287_E	295_L	1.431	1.00
50_I	97_H	1.426	1.00
35_A	39_A	1.419	1.00
291_Y	295_L	1.398	1.00
100_S	111_E	1.394	1.00
105_T	109_I	1.368	1.00
54_Q	57_A	1.360	1.00
88_T	92_K	1.355	1.00
100_S	103_L	1.343	1.00
108_A	111_E	1.343	1.00
101_I	105_T	1.339	1.00
295_L	302_N	1.335	1.00
285_V	288_G	1.334	1.00
98_T	105_T	1.333	1.00
250_E	254_E	1.329	1.00
255_T	259_E	1.328	1.00
104_V	110_L	1.322	1.00
86_V	106_V	1.320	1.00
156_V	163_M	1.319	1.00
31_F	54_Q	1.318	1.00
61_G	65_A	1.311	1.00
288_G	296_T	1.309	1.00
257_T	260_L	1.302	1.00
129_I	133_L	1.301	1.00
253_Q	256_L	1.292	1.00
99_I	111_E	1.289	1.00
277_K	284_A	1.288	1.00
123_I	126_S	1.288	1.00
74_P	78_M	1.287	1.00
35_A	38_F	1.276	1.00
54_Q	58_N	1.271	1.00
102_A	109_I	1.271	1.00
104_V	107_I	1.260	1.00
260_L	264_L	1.235	1.00
32_A	36_A	1.231	1.00
106_V	109_I	1.229	1.00
65_A	69_G	1.227	1.00
269_R	273_R	1.226	1.00
217_K	221_F	1.221	1.00
194_D	229_N	1.207	1.00
260_L	263_L	1.206	1.00
52_I	56_Q	1.204	1.00
101_I	110_L	1.200	1.00
101_I	108_A	1.191	1.00
187_K	190_M	1.190	1.00
291_Y	294_L	1.184	1.00
286_E	289_I	1.184	1.00
233_D	236_K	1.182	1.00
185_K	189_K	1.182	1.00
225_I	229_N	1.179	1.00
66_T	70_L	1.179	1.00
7_I	11_G	1.176	1.00
75_S	78_M	1.176	1.00
292_K	295_L	1.171	1.00
253_Q	257_T	1.169	1.00
60_I	63_V	1.160	1.00
258_E	262_Y	1.155	1.00
188_E	192_K	1.155	1.00
49_L	53_D	1.154	1.00
295_L	300_L	1.152	1.00
40_I	135_S	1.150	1.00
296_T	302_N	1.141	1.00
187_K	193_L	1.139	1.00
106_V	110_L	1.138	1.00
193_L	197_Y	1.129	1.00
105_T	108_A	1.127	1.00
55_V	132_V	1.126	1.00
226_I	233_D	1.123	1.00
199_L	203_E	1.121	1.00
167_R	268_E	1.114	1.00
164_K	168_L	1.112	1.00
156_V	160_E	1.111	1.00
99_I	105_T	1.106	1.00
254_E	258_E	1.097	1.00
55_V	129_I	1.091	1.00
14_I	18_L	1.079	1.00
16_L	138_V	1.078	1.00
221_F	224_A	1.078	1.00
17_A	32_A	1.077	1.00
51_I	136_F	1.077	1.00
297_K	300_L	1.077	1.00
100_S	104_V	1.068	1.00
35_A	54_Q	1.068	1.00
164_K	167_R	1.068	1.00
147_Y	199_L	1.067	1.00
17_A	21_A	1.067	1.00
270_I	278_I	1.065	1.00
129_I	132_V	1.057	1.00
54_Q	97_H	1.051	1.00
44_I	47_S	1.042	1.00
126_S	130_L	1.041	1.00
292_K	296_T	1.025	1.00
231_A	236_K	1.022	1.00
186_L	189_K	1.019	1.00
197_Y	200_Y	1.019	1.00
19_Y	23_W	1.018	1.00
119_M	123_I	1.004	1.00
98_T	102_A	1.000	1.00
122_L	125_T	1.000	1.00
288_G	300_L	0.992	1.00
180_K	184_E	0.991	1.00
21_A	29_P	0.984	1.00
32_A	127_T	0.976	1.00
287_E	291_Y	0.975	1.00
294_L	302_N	0.970	1.00
131_G	135_S	0.967	1.00
242_E	245_I	0.955	1.00
70_L	74_P	0.954	1.00
31_F	127_T	0.953	1.00
252_F	256_L	0.952	1.00
289_I	300_L	0.944	1.00
124_R	128_V	0.944	1.00
294_L	297_K	0.943	1.00
161_E	164_K	0.940	1.00
256_L	260_L	0.939	1.00
78_M	81_L	0.937	1.00
230_R	234_T	0.934	1.00
275_V	281_H	0.934	1.00
181_E	185_K	0.933	1.00
28_A	127_T	0.931	1.00
182_D	185_K	0.931	1.00
270_I	275_V	0.920	1.00
265_Y	269_R	0.906	1.00
138_V	142_F	0.905	1.00
102_A	105_T	0.902	1.00
295_L	301_K	0.900	1.00
50_I	54_Q	0.898	1.00
175_E	179_L	0.892	1.00
192_K	196_T	0.890	1.00
30_I	127_T	0.889	1.00
54_Q	128_V	0.888	1.00
273_R	283_D	0.886	1.00
62_A	66_T	0.884	1.00
109_I	121_A	0.884	1.00
99_I	103_L	0.880	1.00
163_M	167_R	0.865	1.00
54_Q	61_G	0.864	1.00
18_L	22_S	0.862	1.00
252_F	255_T	0.862	1.00
175_E	178_I	0.859	1.00
261_D	264_L	0.857	1.00
14_I	33_G	0.857	1.00
259_E	262_Y	0.850	1.00
163_M	268_E	0.843	1.00
173_S	179_L	0.841	1.00
169_S	235_L	0.840	1.00
99_I	102_A	0.837	0.99
200_Y	204_R	0.835	0.99
13_A	134_S	0.835	0.99
287_E	293_Q	0.829	0.99
226_I	231_A	0.828	0.99
264_L	274_F	0.826	0.99
86_V	93_L	0.824	0.99
204_R	208_K	0.823	0.99
88_T	91_L	0.815	0.99
32_A	131_G	0.814	0.99
84_V	88_T	0.808	0.99
291_Y	297_K	0.808	0.99
74_P	83_A	0.804	0.99
273_R	277_K	0.804	0.99
80_G	84_V	0.802	0.99
167_R	272_M	0.801	0.99
13_A	17_A	0.800	0.99
266_W	270_I	0.799	0.99
241_L	245_I	0.798	0.99
239_H	242_E	0.798	0.99
298_S	301_K	0.797	0.99
292_K	300_L	0.796	0.99
31_F	35_A	0.795	0.99
50_I	124_R	0.794	0.99
222_R	225_I	0.793	0.99
234_T	238_L	0.791	0.99
277_K	280_P	0.789	0.99
285_V	289_I	0.787	0.99
223_Q	226_I	0.787	0.99
98_T	108_A	0.786	0.99
222_R	228_A	0.780	0.99
285_V	296_T	0.779	0.99
259_E	264_L	0.779	0.99
253_Q	260_L	0.773	0.99
199_L	205_S	0.768	0.99
226_I	232_L	0.766	0.99
86_V	104_V	0.762	0.99
37_I	40_I	0.759	0.99
253_Q	259_E	0.759	0.99
124_R	131_G	0.758	0.99
256_L	266_W	0.756	0.99
293_Q	298_S	0.756	0.99
289_I	292_K	0.753	0.99
299_F	302_N	0.753	0.99
281_H	284_A	0.750	0.99
134_S	138_V	0.746	0.99
161_E	182_D	0.740	0.99
219_V	223_Q	0.736	0.99
106_V	111_E	0.735	0.99
266_W	269_R	0.734	0.99
225_I	228_A	0.733	0.99
271_L	278_I	0.731	0.99
121_A	125_T	0.730	0.99
51_I	54_Q	0.728	0.99
251_E	264_L	0.728	0.99
290_R	297_K	0.726	0.99
32_A	134_S	0.726	0.99
218_L	222_R	0.725	0.99
224_A	233_D	0.719	0.98
297_K	301_K	0.718	0.98
278_I	281_H	0.718	0.98
154_N	192_K	0.717	0.98
267_H	270_I	0.716	0.98
82_T	86_V	0.715	0.98
161_E	185_K	0.712	0.98
292_K	298_S	0.711	0.98
130_L	133_L	0.710	0.98
17_A	24_I	0.709	0.98
183_I	193_L	0.706	0.98
9_K	13_A	0.703	0.98
237_K	241_L	0.700	0.98
203_E	206_Y	0.698	0.98
293_Q	302_N	0.698	0.98
264_L	270_I	0.696	0.98
229_N	233_D	0.696	0.98
48_F	51_I	0.695	0.98
275_V	284_A	0.695	0.98
271_L	275_V	0.694	0.98
99_I	110_L	0.693	0.98
104_V	109_I	0.692	0.98
272_M	279_K	0.691	0.98
42_P	47_S	0.688	0.98
180_K	187_K	0.687	0.98
201_K	205_S	0.687	0.98
47_S	128_V	0.684	0.98
226_I	229_N	0.684	0.98
173_S	177_S	0.682	0.98
51_I	132_V	0.679	0.98
34_I	37_I	0.678	0.98
280_P	283_D	0.677	0.98
65_A	110_L	0.676	0.98
147_Y	200_Y	0.674	0.98
182_D	186_L	0.672	0.98
63_V	67_V	0.665	0.97
34_I	40_I	0.663	0.97
249_P	253_Q	0.663	0.97
61_G	124_R	0.662	0.97
225_I	234_T	0.661	0.97
62_A	121_A	0.658	0.97
241_L	244_E	0.653	0.97
234_T	242_E	0.653	0.97
57_A	124_R	0.650	0.97
279_K	282_D	0.649	0.97
291_Y	300_L	0.647	0.97
41_Q	54_Q	0.647	0.97
268_E	272_M	0.646	0.97
220_L	223_Q	0.643	0.97
94_K	97_H	0.638	0.97
94_K	102_A	0.637	0.97
132_V	136_F	0.635	0.97
20_L	130_L	0.633	0.97
236_K	239_H	0.633	0.97
42_P	45_Y	0.632	0.97
31_F	57_A	0.632	0.97
217_K	224_A	0.632	0.97
230_R	236_K	0.629	0.96
105_T	111_E	0.629	0.96
271_L	277_K	0.629	0.96
103_L	107_I	0.629	0.96
289_I	296_T	0.628	0.96
220_L	226_I	0.627	0.96
168_L	182_D	0.626	0.96
54_Q	131_G	0.626	0.96
10_T	14_I	0.624	0.96
224_A	227_T	0.623	0.96
220_L	227_T	0.623	0.96
274_F	278_I	0.622	0.96
65_A	199_L	0.622	0.96
50_I	128_V	0.619	0.96
76_P	80_G	0.619	0.96
293_Q	299_F	0.617	0.96
234_T	237_K	0.617	0.96
251_E	259_E	0.614	0.96
79_I	87_I	0.612	0.96
221_F	225_I	0.610	0.96
255_T	258_E	0.610	0.96
276_G	283_D	0.609	0.96
183_I	186_L	0.603	0.96
252_F	257_T	0.599	0.95
174_T	178_I	0.599	0.95
243_N	246_Y	0.599	0.95
274_F	277_K	0.598	0.95
234_T	240_R	0.598	0.95
191_I	195_Q	0.596	0.95
99_I	104_V	0.596	0.95
50_I	61_G	0.595	0.95
154_N	193_L	0.593	0.95
247_H	250_E	0.593	0.95
185_K	188_E	0.591	0.95
6_R	40_I	0.590	0.95
193_L	201_K	0.589	0.95
228_A	237_K	0.588	0.95
108_A	128_V	0.587	0.95
65_A	144_P	0.587	0.95
44_I	143_L	0.585	0.95
202_E	207_F	0.584	0.95
200_Y	208_K	0.578	0.94
247_H	252_F	0.576	0.94
270_I	274_F	0.575	0.94
68_F	72_F	0.575	0.94
43_S	47_S	0.571	0.94
26_L	29_P	0.570	0.94
285_V	290_R	0.567	0.94
291_Y	302_N	0.567	0.94
83_A	91_L	0.566	0.94
109_I	113_A	0.563	0.94
293_Q	300_L	0.561	0.93
103_L	108_A	0.560	0.93
77_I	80_G	0.560	0.93
190_M	194_D	0.558	0.93
60_I	102_A	0.557	0.93
98_T	109_I	0.556	0.93
260_L	271_L	0.555	0.93
120_F	124_R	0.552	0.93
99_I	108_A	0.552	0.93
41_Q	53_D	0.548	0.93
264_L	280_P	0.547	0.93
99_I	106_V	0.547	0.93
31_F	128_V	0.546	0.93
289_I	297_K	0.543	0.92
7_I	31_F	0.540	0.92
178_I	182_D	0.540	0.92
254_E	259_E	0.540	0.92
99_I	107_I	0.539	0.92
135_S	144_P	0.539	0.92
46_R	50_I	0.537	0.92
236_K	242_E	0.536	0.92
289_I	294_L	0.535	0.92
107_I	110_L	0.534	0.92
255_T	264_L	0.531	0.91
102_A	108_A	0.529	0.91
230_R	238_L	0.528	0.91
35_A	57_A	0.527	0.91
274_F	280_P	0.527	0.91
45_Y	50_I	0.524	0.91
287_E	297_K	0.522	0.91
42_P	147_Y	0.521	0.91
85_I	92_K	0.518	0.90
277_K	281_H	0.518	0.90
39_A	54_Q	0.518	0.90
275_V	291_Y	0.516	0.90
41_Q	45_Y	0.513	0.90
98_T	106_V	0.513	0.90
66_T	82_T	0.512	0.90
191_I	194_D	0.508	0.90
45_Y	51_I	0.508	0.90
292_K	301_K	0.507	0.90
29_P	32_A	0.504	0.89
252_F	259_E	0.503	0.89
43_S	87_I	0.503	0.89
64_I	86_V	0.503	0.89
245_I	248_M	0.503	0.89
285_V	291_Y	0.502	0.89
46_R	54_Q	0.502	0.89
184_E	194_D	0.501	0.89
125_T	129_I	0.501	0.89
277_K	282_D	0.500	0.89

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
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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
2oltA	5	0.5439	79.9	0.907	Contact Map
3ne5A	3	0.4306	49.7	0.925	Contact Map
4k0jA	3	0.4136	42.8	0.928	Contact Map
3l39A	3	0.5581	41	0.928	Contact Map
4cgkA	3	0.4986	40.2	0.929	Contact Map
4q4gX	1	0	39.4	0.929	Contact Map
3w9iA	3	0.4334	35.2	0.931	Contact Map
4dx5A	3	0.4306	31.5	0.933	Contact Map
4bgnA	3	0.2776	26.1	0.935	Contact Map
4i5sA	2	0.5524	23.9	0.937	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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