EFTU2 - ECOLI - GREMLIN Contacts

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EFTU2 - Elongation factor Tu 2

UniProt:	P0CE48	Sequences: MSKEKFERTKPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLGRQVGVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQYDFPGDDTPIVRGSALKALEGDAEWEAKILELAGFLDSYIPEPERAIDKPFLLPIEDVFSISGRGTVVTGRVERGIIKVGEEVEIVGIKETQKSTCTGVEMFRKLLDEGRAGENVGVLLRGIKREEIERGQVLAKPGTIKPHTKFESEVYILSKDEGGRHTPFFKGYRPQFYFRTTDVTGTIELPEGVEMVMPGDNIKMVVTLIHPIAMDDGLRFAIREGGRTVGAGVVAKVLS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11037
Length:	394 (340)
Sequences:	17507 (8175)
Seq/√Len:	443.4

ECOLI - EFTU2 EFTU1 CYSN TYPA SELB LEPA EFG RF3 IF2
BACSU - EFTU TYPA LEPA EFG IF2
HALSA - EF1A IF2G Q9HPE4 EF2 IF2P
SULSO - EF1A Q97W17 IF2G EF2 IF2P Q97ZV5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
269_G	275_V	5.391	1.00
238_K	268_E	4.316	1.00
134_F	173_G	4.284	1.00
236_I	268_E	4.199	1.00
171_V	195_F	3.581	1.00
144_E	148_E	2.875	1.00
212_L	234_R	2.838	1.00
254_S	257_T	2.837	1.00
241_E	295_K	2.703	1.00
151_E	155_R	2.560	1.00
211_F	232_V	2.518	1.00
238_K	241_E	2.512	1.00
109_T	140_M	2.502	1.00
242_E	251_T	2.471	1.00
144_E	149_L	2.444	1.00
258_G	265_L	2.406	1.00
173_G	192_L	2.320	1.00
239_V	267_D	2.274	1.00
194_G	198_S	2.263	1.00
54_P	58_A	2.183	1.00
244_E	251_T	2.136	1.00
236_I	270_R	2.080	1.00
101_G	200_I	2.079	1.00
211_F	237_I	2.050	1.00
149_L	153_E	2.049	1.00
71_D	76_H	2.045	1.00
16_G	99_M	1.993	1.00
230_G	277_V	1.991	1.00
206_A	209_K	1.969	1.00
15_V	77_Y	1.960	1.00
270_R	273_E	1.942	1.00
151_E	172_R	1.906	1.00
351_V	357_I	1.892	1.00
239_V	265_L	1.890	1.00
209_K	234_R	1.867	1.00
219_F	229_T	1.858	1.00
108_A	135_L	1.828	1.00
29_T	79_H	1.828	1.00
35_V	190_L	1.826	1.00
228_V	287_I	1.782	1.00
232_V	269_G	1.779	1.00
211_F	243_V	1.771	1.00
103_I	134_F	1.769	1.00
227_V	276_G	1.755	1.00
55_E	63_I	1.753	1.00
213_L	230_G	1.739	1.00
255_T	280_R	1.727	1.00
195_F	199_Y	1.726	1.00
232_V	275_V	1.711	1.00
147_L	151_E	1.701	1.00
50_I	68_V	1.695	1.00
107_A	110_D	1.690	1.00
244_E	296_P	1.682	1.00
151_E	170_I	1.676	1.00
159_S	162_D	1.665	1.00
120_I	154_V	1.664	1.00
17_T	29_T	1.639	1.00
106_V	116_T	1.636	1.00
69_E	76_H	1.634	1.00
215_I	228_V	1.616	1.00
246_V	294_A	1.606	1.00
42_G	45_R	1.585	1.00
254_S	258_G	1.569	1.00
152_M	156_E	1.553	1.00
75_R	197_D	1.525	1.00
226_T	333_F	1.518	1.00
73_P	194_G	1.512	1.00
237_I	256_C	1.507	1.00
134_F	175_A	1.502	1.00
148_E	152_M	1.487	1.00
188_K	191_E	1.472	1.00
190_L	194_G	1.469	1.00
158_L	161_Y	1.463	1.00
317_G	320_H	1.446	1.00
28_L	105_V	1.424	1.00
71_D	74_T	1.409	1.00
244_E	249_K	1.406	1.00
110_D	113_M	1.395	1.00
28_L	175_A	1.392	1.00
320_H	323_F	1.386	1.00
261_M	264_K	1.380	1.00
310_Y	316_E	1.375	1.00
143_D	147_L	1.360	1.00
136_N	175_A	1.332	1.00
254_S	259_V	1.322	1.00
11_P	75_R	1.321	1.00
150_V	153_E	1.319	1.00
41_G	44_A	1.313	1.00
31_A	34_T	1.309	1.00
32_I	70_Y	1.307	1.00
207_I	270_R	1.304	1.00
43_A	48_D	1.299	1.00
39_T	49_Q	1.299	1.00
163_F	167_D	1.298	1.00
153_E	156_E	1.292	1.00
332_Y	338_V	1.284	1.00
158_L	162_D	1.281	1.00
147_L	158_L	1.274	1.00
266_L	269_G	1.271	1.00
319_R	322_P	1.256	1.00
231_R	274_N	1.255	1.00
102_A	123_G	1.254	1.00
32_I	189_I	1.252	1.00
29_T	50_I	1.245	1.00
72_T	194_G	1.242	1.00
31_A	178_A	1.241	1.00
213_L	232_V	1.227	1.00
344_L	347_G	1.218	1.00
155_R	159_S	1.218	1.00
41_G	48_D	1.216	1.00
237_I	277_V	1.216	1.00
323_F	326_G	1.215	1.00
28_L	192_L	1.214	1.00
117_R	157_L	1.207	1.00
93_I	122_L	1.204	1.00
322_P	325_K	1.203	1.00
104_L	133_V	1.202	1.00
36_L	193_A	1.195	1.00
153_E	158_L	1.192	1.00
151_E	159_S	1.188	1.00
70_Y	79_H	1.187	1.00
174_S	177_K	1.187	1.00
242_E	255_T	1.182	1.00
50_I	62_T	1.178	1.00
310_Y	315_D	1.178	1.00
169_P	199_Y	1.175	1.00
53_A	64_N	1.175	1.00
331_F	335_T	1.174	1.00
191_E	194_G	1.161	1.00
18_I	123_G	1.157	1.00
102_A	128_V	1.155	1.00
73_P	197_D	1.154	1.00
18_I	104_L	1.151	1.00
341_T	352_M	1.149	1.00
328_R	331_F	1.144	1.00
70_Y	77_Y	1.144	1.00
36_L	70_Y	1.140	1.00
135_L	172_R	1.139	1.00
133_V	170_I	1.137	1.00
14_N	78_A	1.137	1.00
119_H	122_L	1.133	1.00
306_E	358_K	1.128	1.00
138_C	179_L	1.124	1.00
80_V	99_M	1.116	1.00
277_V	293_L	1.114	1.00
295_K	298_T	1.106	1.00
248_I	291_Q	1.105	1.00
310_Y	313_S	1.105	1.00
327_Y	366_P	1.102	1.00
250_E	286_E	1.100	1.00
335_T	338_V	1.096	1.00
151_E	158_L	1.087	1.00
304_K	362_T	1.087	1.00
153_E	157_L	1.083	1.00
37_A	40_Y	1.081	1.00
322_P	326_G	1.079	1.00
288_E	291_Q	1.075	1.00
77_Y	197_D	1.073	1.00
138_C	172_R	1.067	1.00
242_E	296_P	1.055	1.00
309_V	339_T	1.054	1.00
230_G	275_V	1.053	1.00
43_A	47_F	1.052	1.00
313_S	316_E	1.051	1.00
51_D	56_E	1.051	1.00
302_H	305_F	1.051	1.00
144_E	150_V	1.051	1.00
11_P	74_T	1.049	1.00
313_S	352_M	1.046	1.00
31_A	35_V	1.045	1.00
147_L	150_V	1.037	1.00
243_V	293_L	1.030	1.00
311_I	315_D	1.029	1.00
244_E	299_I	1.024	1.00
169_P	195_F	1.023	1.00
112_P	116_T	1.017	1.00
44_A	48_D	1.014	1.00
155_R	158_L	1.009	1.00
45_R	48_D	1.006	1.00
35_V	178_A	1.002	1.00
139_D	174_S	1.001	1.00
42_G	47_F	1.001	1.00
41_G	45_R	1.001	1.00
351_V	362_T	0.998	1.00
18_I	102_A	0.995	1.00
251_T	296_P	0.995	1.00
238_K	267_D	0.993	1.00
269_G	273_E	0.991	1.00
46_A	49_Q	0.984	1.00
321_T	325_K	0.983	1.00
323_F	327_Y	0.971	1.00
44_A	47_F	0.970	1.00
52_N	66_S	0.969	1.00
237_I	269_G	0.969	1.00
304_K	360_V	0.969	1.00
52_N	64_N	0.967	1.00
338_V	362_T	0.967	1.00
311_I	316_E	0.965	1.00
319_R	327_Y	0.960	1.00
151_E	162_D	0.960	1.00
345_P	348_V	0.960	1.00
148_E	151_E	0.960	1.00
328_R	335_T	0.960	1.00
144_E	147_L	0.959	1.00
154_V	158_L	0.957	1.00
245_I	287_I	0.957	1.00
54_P	57_K	0.954	1.00
308_E	358_K	0.953	1.00
104_L	116_T	0.946	1.00
150_V	158_L	0.944	1.00
245_I	293_L	0.940	1.00
40_Y	43_A	0.940	1.00
133_V	168_T	0.938	1.00
307_S	310_Y	0.937	1.00
338_V	351_V	0.936	1.00
45_R	49_Q	0.929	1.00
132_I	195_F	0.927	1.00
42_G	46_A	0.925	1.00
310_Y	314_K	0.921	1.00
41_G	46_A	0.921	1.00
215_I	287_I	0.921	1.00
43_A	46_A	0.917	1.00
309_V	359_M	0.910	1.00
55_E	59_R	0.910	1.00
352_M	355_D	0.902	1.00
306_E	360_V	0.898	1.00
243_V	256_C	0.896	1.00
31_A	189_I	0.894	1.00
28_L	134_F	0.892	1.00
331_F	338_V	0.891	1.00
239_V	259_V	0.880	1.00
17_T	103_I	0.879	1.00
247_G	291_Q	0.879	1.00
207_I	271_A	0.878	1.00
15_V	196_L	0.875	1.00
294_A	300_K	0.870	1.00
311_I	314_K	0.868	1.00
39_T	45_R	0.867	1.00
123_G	131_I	0.866	1.00
210_P	295_K	0.860	1.00
248_I	288_E	0.858	1.00
245_I	254_S	0.857	1.00
108_A	138_C	0.856	1.00
147_L	160_Q	0.855	1.00
343_E	346_E	0.851	1.00
328_R	337_D	0.849	1.00
207_I	210_P	0.841	1.00
329_P	332_Y	0.841	1.00
324_F	327_Y	0.841	1.00
255_T	258_G	0.840	1.00
27_T	175_A	0.840	1.00
50_I	66_S	0.840	1.00
65_T	80_V	0.837	1.00
44_A	49_Q	0.828	1.00
147_L	159_S	0.827	1.00
143_D	149_L	0.826	1.00
16_G	82_C	0.820	1.00
208_D	236_I	0.810	1.00
346_E	350_M	0.810	1.00
155_R	160_Q	0.809	1.00
35_V	189_I	0.805	1.00
147_L	155_R	0.805	1.00
154_V	162_D	0.805	1.00
56_E	60_G	0.803	1.00
335_T	340_G	0.801	1.00
109_T	142_D	0.794	1.00
237_I	243_V	0.793	1.00
255_T	259_V	0.793	1.00
143_D	153_E	0.792	1.00
22_D	85_H	0.790	1.00
149_L	152_M	0.789	1.00
322_P	327_Y	0.787	1.00
207_I	236_I	0.786	1.00
266_L	273_E	0.781	1.00
103_I	192_L	0.778	1.00
254_S	280_R	0.776	1.00
41_G	49_Q	0.772	1.00
319_R	323_F	0.772	1.00
32_I	193_A	0.771	1.00
236_I	271_A	0.763	1.00
155_R	162_D	0.763	1.00
147_L	172_R	0.763	1.00
328_R	333_F	0.762	1.00
308_E	314_K	0.762	1.00
120_I	131_I	0.761	1.00
331_F	340_G	0.759	1.00
20_H	23_H	0.756	1.00
135_L	147_L	0.756	1.00
12_H	78_A	0.754	1.00
150_V	154_V	0.753	1.00
156_E	159_S	0.751	1.00
106_V	133_V	0.751	1.00
132_I	171_V	0.751	1.00
104_L	119_H	0.750	1.00
239_V	258_G	0.745	1.00
258_G	266_L	0.743	1.00
260_E	265_L	0.740	1.00
328_R	340_G	0.736	1.00
40_Y	44_A	0.733	1.00
152_M	155_R	0.731	1.00
28_L	189_I	0.730	1.00
39_T	43_A	0.725	1.00
133_V	154_V	0.724	1.00
101_G	132_I	0.724	1.00
112_P	150_V	0.724	1.00
148_E	172_R	0.722	1.00
296_P	299_I	0.722	1.00
134_F	192_L	0.721	1.00
195_F	198_S	0.720	1.00
294_A	299_I	0.719	1.00
150_V	162_D	0.716	1.00
213_L	216_E	0.716	1.00
309_V	312_L	0.715	1.00
144_E	151_E	0.713	1.00
37_A	45_R	0.712	1.00
51_D	57_K	0.712	1.00
157_L	162_D	0.711	1.00
101_G	201_P	0.711	1.00
329_P	342_I	0.710	1.00
332_Y	336_T	0.708	1.00
320_H	325_K	0.707	1.00
205_R	234_R	0.706	1.00
331_F	336_T	0.701	1.00
163_F	166_D	0.701	1.00
325_K	329_P	0.699	1.00
319_R	325_K	0.697	1.00
16_G	96_A	0.697	1.00
34_T	42_G	0.692	1.00
329_P	340_G	0.691	1.00
212_L	300_K	0.688	1.00
308_E	311_I	0.687	1.00
37_A	41_G	0.687	1.00
149_L	158_L	0.687	1.00
259_V	269_G	0.683	1.00
19_G	23_H	0.682	1.00
329_P	365_H	0.681	1.00
332_Y	335_T	0.680	1.00
309_V	314_K	0.680	1.00
221_I	224_R	0.680	1.00
325_K	330_Q	0.679	1.00
282_I	287_I	0.678	1.00
332_Y	340_G	0.676	1.00
329_P	333_F	0.675	1.00
256_C	259_V	0.674	1.00
150_V	155_R	0.674	1.00
150_V	157_L	0.673	1.00
120_I	124_R	0.669	1.00
306_E	309_V	0.669	1.00
244_E	297_G	0.669	1.00
138_C	147_L	0.668	1.00
150_V	159_S	0.668	1.00
16_G	102_A	0.667	1.00
105_V	136_N	0.667	1.00
324_F	333_F	0.666	1.00
308_E	313_S	0.663	1.00
21_V	61_I	0.660	1.00
144_E	158_L	0.659	1.00
245_I	248_I	0.657	1.00
344_L	348_V	0.657	1.00
326_G	329_P	0.656	1.00
263_R	276_G	0.655	1.00
278_L	281_G	0.654	1.00
305_F	363_L	0.652	1.00
40_Y	45_R	0.651	1.00
244_E	294_A	0.651	1.00
134_F	188_K	0.650	1.00
21_V	85_H	0.649	0.99
205_R	209_K	0.645	0.99
259_V	277_V	0.645	0.99
194_G	197_D	0.644	0.99
22_D	61_I	0.644	0.99
266_L	275_V	0.640	0.99
156_E	160_Q	0.640	0.99
37_A	44_A	0.640	0.99
221_I	227_V	0.639	0.99
151_E	161_Y	0.639	0.99
213_L	277_V	0.639	0.99
107_A	140_M	0.638	0.99
328_R	334_R	0.637	0.99
39_T	42_G	0.635	0.99
337_D	360_V	0.634	0.99
147_L	157_L	0.633	0.99
312_L	315_D	0.633	0.99
18_I	96_A	0.629	0.99
340_G	343_E	0.629	0.99
243_V	254_S	0.629	0.99
41_G	47_F	0.628	0.99
13_V	203_P	0.627	0.99
103_I	196_L	0.624	0.99
234_R	300_K	0.623	0.99
211_F	256_C	0.623	0.99
254_S	282_I	0.622	0.99
92_M	119_H	0.622	0.99
205_R	271_A	0.621	0.99
295_K	299_I	0.620	0.99
33_T	68_V	0.618	0.99
309_V	315_D	0.617	0.99
64_N	91_N	0.617	0.99
246_V	300_K	0.617	0.99
61_I	85_H	0.616	0.99
143_D	150_V	0.616	0.99
157_L	160_Q	0.613	0.99
42_G	48_D	0.613	0.99
307_S	311_I	0.612	0.99
341_T	355_D	0.610	0.99
155_R	161_Y	0.610	0.99
328_R	336_T	0.608	0.99
65_T	95_G	0.607	0.99
332_Y	339_T	0.607	0.99
330_Q	333_F	0.605	0.99
328_R	342_I	0.605	0.99
147_L	162_D	0.603	0.99
74_T	198_S	0.603	0.99
318_G	323_F	0.599	0.99
319_R	326_G	0.599	0.99
210_P	298_T	0.596	0.99
162_D	166_D	0.594	0.99
72_T	193_A	0.593	0.99
336_T	340_G	0.593	0.99
90_K	337_D	0.589	0.99
33_T	49_Q	0.589	0.99
72_T	197_D	0.588	0.99
73_P	198_S	0.586	0.99
327_Y	333_F	0.585	0.99
323_F	330_Q	0.585	0.99
213_L	237_I	0.583	0.99
93_I	119_H	0.583	0.99
257_T	280_R	0.583	0.99
100_D	231_R	0.582	0.99
144_E	159_S	0.582	0.99
153_E	162_D	0.581	0.99
196_L	200_I	0.580	0.99
47_F	57_K	0.580	0.99
48_D	57_K	0.579	0.99
305_F	308_E	0.579	0.99
22_D	60_G	0.577	0.99
188_K	192_L	0.574	0.99
239_V	257_T	0.574	0.99
337_D	341_T	0.574	0.99
320_H	324_F	0.573	0.99
346_E	349_E	0.573	0.99
192_L	196_L	0.570	0.99
331_F	334_R	0.568	0.99
133_V	158_L	0.567	0.99
239_V	268_E	0.563	0.99
211_F	236_I	0.561	0.99
39_T	44_A	0.561	0.99
55_E	58_A	0.558	0.98
321_T	324_F	0.558	0.98
69_E	78_A	0.557	0.98
215_I	230_G	0.556	0.98
338_V	343_E	0.555	0.98
32_I	36_L	0.555	0.98
261_M	266_L	0.555	0.98
246_V	299_I	0.553	0.98
256_C	277_V	0.551	0.98
312_L	316_E	0.549	0.98
148_E	155_R	0.549	0.98
97_A	233_E	0.549	0.98
212_L	302_H	0.547	0.98
204_E	209_K	0.545	0.98
21_V	62_T	0.543	0.98
82_C	92_M	0.543	0.98
328_R	343_E	0.543	0.98
331_F	337_D	0.542	0.98
318_G	322_P	0.541	0.98
116_T	133_V	0.540	0.98
309_V	316_E	0.540	0.98
107_A	113_M	0.539	0.98
155_R	170_I	0.536	0.98
328_R	338_V	0.535	0.98
327_Y	331_F	0.532	0.98
222_S	225_G	0.531	0.98
154_V	157_L	0.529	0.98
330_Q	335_T	0.529	0.98
288_E	307_S	0.528	0.98
147_L	153_E	0.527	0.98
40_Y	49_Q	0.526	0.98
232_V	237_I	0.526	0.98
335_T	343_E	0.526	0.98
77_Y	196_L	0.525	0.98
49_Q	57_K	0.522	0.98
345_P	349_E	0.522	0.98
151_E	157_L	0.520	0.98
76_H	273_E	0.519	0.98
156_E	162_D	0.518	0.98
46_A	57_K	0.518	0.98
153_E	161_Y	0.516	0.98
313_S	350_M	0.516	0.98
324_F	331_F	0.514	0.97
212_L	294_A	0.514	0.97
59_R	63_I	0.513	0.97
124_R	127_G	0.513	0.97
307_S	313_S	0.512	0.97
179_L	188_K	0.511	0.97
326_G	330_Q	0.511	0.97
319_R	324_F	0.510	0.97
317_G	323_F	0.508	0.97
219_F	276_G	0.508	0.97
154_V	159_S	0.507	0.97
327_Y	335_T	0.506	0.97
339_T	360_V	0.505	0.97
12_H	76_H	0.504	0.97
131_I	163_F	0.504	0.97
285_E	332_Y	0.503	0.97
86_A	114_P	0.503	0.97
335_T	341_T	0.503	0.97
20_H	113_M	0.503	0.97
107_A	137_K	0.502	0.97
153_E	159_S	0.500	0.97

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
1d2eA	3	0.9594	100	0.267	Contact Map
2c78A	1	0.9594	100	0.267	Contact Map
3avxA	1	0.9213	100	0.281	Contact Map
1f60A	1	0.9772	100	0.283	Contact Map
1jnyA	1	0.9391	100	0.284	Contact Map
3wy9A	1	0.9619	100	0.285	Contact Map
4crnP	1	0.967	100	0.286	Contact Map
3mcaA	1	0.8604	100	0.286	Contact Map
4d61i	1	0.9619	100	0.292	Contact Map
1r5bA	1	0.901	100	0.305	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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