EF1A - HALSA - GREMLIN Contacts

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EF1A - Elongation factor 1-alpha

UniProt:	Q9HM89	Sequences: MSDNRHQNLAVIGHVDHGKSTMVGRLLYETGSVPEHVIEQHKEEAEEKGKGGFEFAYVMDNLAEERERGVTIDIAHQEFTTDEYEFTIVDCPGHRDFVKNMITGASQADNAVLVVAADDGVAPQTREHVFLSRTLGIDELIVAVNKMDVVDYDESKYNEVVSGVKDLFGQVGFNPDDAKFIATSAFEGDNVSDHSDNTPWYDGPTLLEALNGLPVPQPPTDADLRLPIQDVYTISGIGTVPVGRIETGVMNTGDNVSFQPSDVGGEVKTIEMHHEEVPNAEPGDNVGFNVRGIGKDDIRRGDVCGPADDPPSVADTFQAQVVVMQHPSVITAGYTPVFHAHTAQVACTIESIDKKMDPASGETQEENPDFIQSGDAAVVTVRPQKPLSLEPSSEIPELGSFAVRDMGQTIAAGKVLDVDEA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	421 (322)
Sequences:	16637 (7370)
Seq/√Len:	410.7

ECOLI - CYSN EFTU2 SELB EFTU1 TYPA LEPA RF3 EFG
BACSU - EFTU TYPA LEPA EFG
HALSA - EF1A Q9HPE4 IF2G EF2 IF2P
SULSO - EF1A Q97W17 IF2G IF2P EF2 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
280_A	286_V	5.475	1.00
143_A	183_T	4.494	1.00
156_K	159_E	4.422	1.00
251_N	279_N	4.221	1.00
249_V	279_N	3.839	1.00
255_N	264_G	3.415	1.00
269_T	276_E	3.061	1.00
181_I	209_A	3.010	1.00
118_D	149_V	2.743	1.00
254_D	306_P	2.629	1.00
224_L	245_I	2.473	1.00
225_R	247_T	2.468	1.00
251_N	254_D	2.240	1.00
252_T	278_P	2.209	1.00
161_V	182_A	2.199	1.00
257_S	264_G	2.158	1.00
126_R	167_L	2.146	1.00
110_N	213_L	2.115	1.00
272_M	275_E	2.104	1.00
80_T	85_E	2.090	1.00
255_N	266_E	2.004	1.00
161_V	165_K	1.992	1.00
224_L	250_M	1.978	1.00
219_P	222_A	1.976	1.00
183_T	206_L	1.959	1.00
310_P	321_V	1.952	1.00
9_L	86_F	1.931	1.00
272_M	277_V	1.909	1.00
10_A	108_A	1.905	1.00
320_Q	323_V	1.867	1.00
249_V	281_E	1.840	1.00
250_M	267_V	1.825	1.00
63_A	67_E	1.814	1.00
222_A	247_T	1.809	1.00
281_E	284_D	1.777	1.00
226_L	243_G	1.769	1.00
224_L	256_V	1.767	1.00
23_V	88_I	1.761	1.00
25_R	188_G	1.734	1.00
252_T	276_E	1.732	1.00
161_V	180_F	1.725	1.00
245_I	280_A	1.717	1.00
329_V	332_A	1.708	1.00
112_V	143_A	1.706	1.00
117_A	144_V	1.701	1.00
129_V	164_V	1.700	1.00
313_V	321_V	1.688	1.00
256_V	267_V	1.678	1.00
243_G	288_F	1.669	1.00
317_F	321_V	1.666	1.00
78_E	85_E	1.662	1.00
116_A	119_D	1.660	1.00
115_V	125_T	1.645	1.00
240_V	287_G	1.640	1.00
228_I	241_P	1.622	1.00
259_Q	305_G	1.604	1.00
241_P	298_I	1.598	1.00
159_E	163_G	1.591	1.00
11_V	23_V	1.589	1.00
257_S	307_A	1.585	1.00
59_M	77_Q	1.575	1.00
145_N	185_A	1.570	1.00
314_A	322_V	1.532	1.00
317_F	323_V	1.505	1.00
143_A	185_A	1.488	1.00
311_P	315_D	1.473	1.00
277_V	280_A	1.471	1.00
208_E	211_N	1.469	1.00
314_A	323_V	1.461	1.00
64_E	72_I	1.458	1.00
209_A	212_G	1.451	1.00
80_T	83_E	1.451	1.00
162_S	166_D	1.439	1.00
22_M	114_V	1.438	1.00
232_Y	242_V	1.437	1.00
147_M	189_D	1.434	1.00
252_T	270_I	1.434	1.00
22_M	185_A	1.424	1.00
263_V	297_D	1.424	1.00
314_A	321_V	1.405	1.00
338_F	347_C	1.400	1.00
169_G	174_N	1.388	1.00
321_V	324_M	1.377	1.00
169_G	172_G	1.361	1.00
12_I	132_S	1.348	1.00
310_P	314_A	1.344	1.00
315_D	320_Q	1.324	1.00
142_V	180_F	1.320	1.00
111_A	132_S	1.314	1.00
113_L	142_V	1.312	1.00
245_I	286_V	1.311	1.00
315_D	321_V	1.305	1.00
335_T	338_F	1.305	1.00
121_V	125_T	1.305	1.00
144_V	182_A	1.300	1.00
316_T	321_V	1.298	1.00
33_V	58_V	1.277	1.00
160_V	163_G	1.277	1.00
313_V	320_Q	1.268	1.00
317_F	320_Q	1.260	1.00
314_A	320_Q	1.252	1.00
184_S	187_E	1.252	1.00
350_E	354_K	1.248	1.00
317_F	325_Q	1.236	1.00
244_R	285_N	1.233	1.00
156_K	160_V	1.221	1.00
89_V	108_A	1.217	1.00
314_A	317_F	1.211	1.00
5_R	84_Y	1.201	1.00
158_N	162_S	1.197	1.00
353_D	359_A	1.194	1.00
190_N	193_D	1.192	1.00
23_V	59_M	1.190	1.00
265_G	293_I	1.190	1.00
119_D	122_A	1.173	1.00
333_G	336_P	1.167	1.00
25_R	28_Y	1.158	1.00
226_L	245_I	1.156	1.00
310_P	313_V	1.143	1.00
26_L	79_F	1.143	1.00
102_I	131_L	1.126	1.00
179_K	209_A	1.124	1.00
333_G	337_V	1.123	1.00
257_S	262_D	1.123	1.00
59_M	71_T	1.120	1.00
163_G	166_D	1.111	1.00
322_V	325_Q	1.111	1.00
250_M	288_F	1.108	1.00
271_E	276_E	1.107	1.00
320_Q	324_M	1.105	1.00
132_S	140_L	1.096	1.00
314_A	318_Q	1.094	1.00
8_N	87_T	1.089	1.00
318_Q	324_M	1.088	1.00
220_T	249_V	1.078	1.00
317_F	324_M	1.077	1.00
261_S	302_D	1.076	1.00
25_R	191_V	1.076	1.00
79_F	88_I	1.074	1.00
220_T	281_E	1.064	1.00
315_D	323_V	1.063	1.00
79_F	86_F	1.060	1.00
128_H	131_L	1.056	1.00
5_R	83_E	1.052	1.00
270_I	288_F	1.051	1.00
326_H	330_I	1.049	1.00
30_T	207_L	1.049	1.00
12_I	111_A	1.041	1.00
310_P	319_A	1.038	1.00
310_P	320_Q	1.035	1.00
170_Q	174_N	1.035	1.00
141_I	181_I	1.035	1.00
62_L	73_D	1.035	1.00
256_V	304_C	1.031	1.00
264_G	307_A	1.025	1.00
111_A	137_I	1.024	1.00
82_D	208_E	1.023	1.00
239_T	319_A	1.020	1.00
318_Q	321_V	1.016	1.00
117_A	147_M	1.006	1.00
313_V	316_T	1.002	1.00
314_A	325_Q	1.001	1.00
330_I	333_G	1.000	1.00
22_M	206_L	1.000	1.00
183_T	190_N	0.999	1.00
319_A	323_V	0.999	1.00
251_N	278_P	0.998	1.00
142_V	164_V	0.998	1.00
141_I	213_L	0.993	1.00
310_P	323_V	0.992	1.00
29_E	192_S	0.989	1.00
157_Y	182_A	0.985	1.00
315_D	324_M	0.985	1.00
22_M	143_A	0.980	1.00
255_N	307_A	0.975	1.00
81_T	208_E	0.975	1.00
243_G	286_V	0.971	1.00
269_T	289_N	0.970	1.00
158_N	161_V	0.969	1.00
318_Q	322_V	0.968	1.00
315_D	319_A	0.963	1.00
288_F	304_C	0.956	1.00
30_T	79_F	0.956	1.00
21_T	185_A	0.955	1.00
330_I	336_P	0.953	1.00
310_P	317_F	0.949	1.00
327_P	336_P	0.945	1.00
328_S	331_T	0.943	1.00
12_I	113_L	0.943	1.00
258_F	265_G	0.943	1.00
25_R	29_E	0.942	1.00
16_D	94_H	0.942	1.00
141_I	209_A	0.937	1.00
61_N	73_D	0.937	1.00
112_V	141_I	0.937	1.00
223_D	306_P	0.935	1.00
319_A	322_V	0.935	1.00
293_I	298_I	0.933	1.00
313_V	323_V	0.933	1.00
171_V	174_N	0.925	1.00
316_T	322_V	0.925	1.00
147_M	182_A	0.920	1.00
312_S	321_V	0.918	1.00
208_E	212_G	0.913	1.00
144_V	157_Y	0.912	1.00
64_E	68_R	0.911	1.00
320_Q	325_Q	0.908	1.00
337_V	348_T	0.905	1.00
334_Y	338_F	0.895	1.00
343_A	349_I	0.894	1.00
147_M	157_Y	0.890	1.00
142_V	178_A	0.890	1.00
313_V	322_V	0.889	1.00
280_A	284_D	0.887	1.00
60_D	65_E	0.884	1.00
258_F	298_I	0.883	1.00
311_P	320_Q	0.882	1.00
315_D	318_Q	0.882	1.00
331_T	337_V	0.881	1.00
306_P	309_D	0.881	1.00
299_R	302_D	0.880	1.00
331_T	335_T	0.878	1.00
326_H	329_V	0.874	1.00
327_P	334_Y	0.869	1.00
310_P	322_V	0.869	1.00
310_P	315_D	0.868	1.00
59_M	75_A	0.864	1.00
258_F	304_C	0.859	1.00
313_V	317_F	0.851	1.00
224_L	267_V	0.850	1.00
226_L	229_Q	0.845	1.00
311_P	314_A	0.843	1.00
313_V	319_A	0.841	1.00
331_T	334_Y	0.841	1.00
174_N	177_D	0.840	1.00
336_P	339_H	0.835	1.00
148_D	184_S	0.834	1.00
317_F	322_V	0.834	1.00
74_I	89_V	0.834	1.00
326_H	335_T	0.833	1.00
126_R	130_F	0.831	1.00
312_S	323_V	0.826	1.00
165_K	169_G	0.825	1.00
329_V	336_P	0.823	1.00
316_T	323_V	0.822	1.00
327_P	338_F	0.816	1.00
206_L	210_L	0.811	1.00
61_N	75_A	0.810	1.00
10_A	91_C	0.806	1.00
316_T	320_Q	0.806	1.00
182_A	189_D	0.802	1.00
233_T	236_G	0.802	1.00
228_I	298_I	0.802	1.00
329_V	334_Y	0.801	1.00
11_V	112_V	0.801	1.00
260_P	302_D	0.801	1.00
15_V	94_H	0.798	1.00
332_A	335_T	0.798	1.00
16_D	70_V	0.791	1.00
161_V	173_F	0.790	1.00
268_K	271_E	0.790	1.00
321_V	325_Q	0.785	1.00
166_D	169_G	0.785	1.00
311_P	317_F	0.785	1.00
220_T	282_P	0.784	1.00
330_I	335_T	0.784	1.00
315_D	322_V	0.782	1.00
312_S	320_Q	0.774	1.00
334_Y	339_H	0.772	1.00
6_H	87_T	0.766	1.00
164_V	172_G	0.766	1.00
243_G	304_C	0.765	1.00
162_S	165_K	0.765	1.00
129_V	140_L	0.765	1.00
250_M	256_V	0.764	1.00
327_P	335_T	0.764	1.00
164_V	168_F	0.764	1.00
4_N	84_Y	0.763	1.00
329_V	335_T	0.763	1.00
329_V	333_G	0.763	1.00
13_G	17_H	0.762	1.00
210_L	213_L	0.760	1.00
311_P	321_V	0.758	1.00
328_S	333_G	0.757	1.00
26_L	191_V	0.757	1.00
318_Q	323_V	0.756	1.00
334_Y	337_V	0.756	1.00
33_V	38_I	0.750	1.00
113_L	125_T	0.747	1.00
261_S	299_R	0.746	1.00
121_V	160_V	0.744	1.00
330_I	338_F	0.742	1.00
78_E	87_T	0.742	1.00
158_N	182_A	0.739	1.00
22_M	191_V	0.735	1.00
10_A	111_A	0.734	1.00
63_A	66_R	0.733	1.00
34_P	38_I	0.731	1.00
9_L	210_L	0.731	1.00
85_E	284_D	0.724	1.00
157_Y	160_V	0.723	1.00
14_H	17_H	0.719	1.00
155_S	159_E	0.718	1.00
330_I	337_V	0.717	1.00
311_P	318_Q	0.715	1.00
15_V	71_T	0.713	1.00
324_M	337_V	0.713	1.00
179_K	212_G	0.713	1.00
218_P	222_A	0.712	1.00
218_P	247_T	0.711	1.00
110_N	141_I	0.711	1.00
331_T	336_P	0.710	1.00
332_A	337_V	0.709	1.00
170_Q	173_F	0.709	1.00
328_S	332_A	0.708	1.00
12_I	105_A	0.705	1.00
311_P	316_T	0.705	1.00
327_P	330_I	0.702	1.00
270_I	280_A	0.702	1.00
333_G	338_F	0.701	1.00
326_H	333_G	0.701	1.00
234_I	240_V	0.701	1.00
311_P	319_A	0.700	1.00
351_S	355_K	0.696	1.00
115_V	142_V	0.694	1.00
85_E	272_M	0.693	1.00
256_V	265_G	0.691	1.00
82_D	211_N	0.688	1.00
165_K	174_N	0.687	1.00
311_P	323_V	0.687	1.00
358_P	361_G	0.686	1.00
339_H	344_Q	0.684	1.00
163_G	167_L	0.682	1.00
171_V	178_A	0.681	1.00
172_G	178_A	0.681	1.00
310_P	324_M	0.679	1.00
220_T	223_D	0.677	1.00
314_A	319_A	0.676	1.00
55_F	59_M	0.675	0.99
157_Y	161_V	0.672	0.99
117_A	155_S	0.670	0.99
233_T	239_T	0.670	0.99
35_E	39_E	0.666	0.99
226_L	288_F	0.664	0.99
250_M	280_A	0.663	0.99
67_E	354_K	0.660	0.99
29_E	188_G	0.655	0.99
316_T	324_M	0.655	0.99
64_E	67_E	0.653	0.99
10_A	105_A	0.650	0.99
337_V	344_Q	0.649	0.99
168_F	172_G	0.648	0.99
143_A	206_L	0.647	0.99
310_P	316_T	0.647	0.99
114_V	145_N	0.645	0.99
65_E	69_G	0.644	0.99
312_S	319_A	0.643	0.99
159_E	162_S	0.642	0.99
252_T	269_T	0.641	0.99
319_A	324_M	0.641	0.99
28_Y	35_E	0.640	0.99
183_T	191_V	0.638	0.99
257_S	305_G	0.637	0.99
161_V	174_N	0.636	0.99
257_S	308_D	0.632	0.99
332_A	336_P	0.632	0.99
165_K	170_Q	0.629	0.99
268_K	272_M	0.629	0.99
329_V	339_H	0.628	0.99
272_M	284_D	0.627	0.99
353_D	357_D	0.623	0.99
328_S	336_P	0.623	0.99
314_A	324_M	0.621	0.99
335_T	339_H	0.621	0.99
252_T	268_K	0.620	0.99
112_V	206_L	0.620	0.99
311_P	322_V	0.613	0.99
330_I	334_Y	0.613	0.99
327_P	337_V	0.611	0.99
340_A	343_A	0.611	0.99
16_D	69_G	0.610	0.99
234_I	237_I	0.610	0.99
116_A	149_V	0.609	0.99
311_P	325_Q	0.608	0.99
263_V	296_D	0.607	0.99
110_N	214_P	0.606	0.99
175_P	178_A	0.605	0.99
312_S	317_F	0.605	0.99
70_V	94_H	0.602	0.99
221_D	249_V	0.595	0.99
27_L	32_S	0.595	0.99
168_F	171_V	0.593	0.99
348_T	352_I	0.592	0.99
243_G	280_A	0.589	0.99
316_T	319_A	0.588	0.99
107_Q	227_P	0.587	0.99
211_N	214_P	0.586	0.99
328_S	335_T	0.583	0.99
226_L	230_D	0.583	0.99
313_V	352_I	0.582	0.99
144_V	161_V	0.582	0.99
232_Y	287_G	0.582	0.99
326_H	337_V	0.579	0.98
27_L	77_Q	0.579	0.98
243_G	250_M	0.578	0.98
277_V	284_D	0.578	0.98
327_P	333_G	0.577	0.98
27_L	58_V	0.576	0.98
73_D	100_N	0.574	0.98
349_I	353_D	0.573	0.98
60_D	69_G	0.572	0.98
14_H	125_T	0.571	0.98
164_V	167_L	0.571	0.98
187_E	190_N	0.570	0.98
218_P	282_P	0.570	0.98
26_L	207_L	0.569	0.98
214_P	217_Q	0.568	0.98
113_L	128_H	0.567	0.98
182_A	190_N	0.564	0.98
105_A	135_L	0.563	0.98
95_R	123_P	0.562	0.98
326_H	334_Y	0.561	0.98
171_V	180_F	0.559	0.98
223_D	309_D	0.558	0.98
265_G	298_I	0.558	0.98
312_S	316_T	0.555	0.98
106_S	246_E	0.555	0.98
116_A	146_K	0.555	0.98
31_G	34_P	0.553	0.98
326_H	336_P	0.553	0.98
224_L	306_P	0.553	0.98
229_Q	242_V	0.552	0.98
115_V	160_V	0.552	0.98
115_V	164_V	0.552	0.98
265_G	271_E	0.551	0.98
113_L	164_V	0.550	0.98
112_V	210_L	0.549	0.98
352_I	355_K	0.549	0.98
312_S	315_D	0.547	0.98
91_C	101_M	0.546	0.98
357_D	360_S	0.546	0.98
188_G	191_V	0.543	0.98
7_Q	216_P	0.543	0.98
333_G	339_H	0.542	0.98
265_G	268_K	0.542	0.98
15_V	70_V	0.540	0.98
207_L	210_L	0.537	0.98
241_P	288_F	0.536	0.97
57_Y	66_R	0.535	0.97
14_H	122_A	0.534	0.97
99_K	323_V	0.534	0.97
60_D	66_R	0.534	0.97
328_S	334_Y	0.533	0.97
26_L	30_T	0.532	0.97
313_V	324_M	0.531	0.97
234_I	238_G	0.531	0.97
125_T	142_V	0.531	0.97
206_L	209_A	0.530	0.97
249_V	282_P	0.529	0.97
332_A	338_F	0.528	0.97
6_H	284_D	0.525	0.97
165_K	180_F	0.525	0.97
102_I	128_H	0.525	0.97
271_E	289_N	0.523	0.97
28_Y	188_G	0.523	0.97
30_T	80_T	0.522	0.97
16_D	146_K	0.522	0.97
118_D	151_D	0.520	0.97
250_M	270_I	0.520	0.97
66_R	69_G	0.517	0.97
165_K	168_F	0.517	0.97
17_H	119_D	0.516	0.97
331_T	338_F	0.511	0.97
224_L	249_V	0.508	0.97
110_N	210_L	0.508	0.97
133_R	168_F	0.508	0.97
74_I	104_G	0.507	0.96
312_S	322_V	0.504	0.96
29_E	191_V	0.504	0.96
172_G	179_K	0.504	0.96
326_H	332_A	0.504	0.96
32_S	79_F	0.501	0.96
73_D	77_Q	0.500	0.96

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
1jnyA	1	0.9667	100	0.187	Contact Map
1f60A	1	0.9952	100	0.196	Contact Map
4crnP	1	0.9905	100	0.203	Contact Map
4d61i	1	0.9881	100	0.205	Contact Map
3wy9A	1	0.9667	100	0.209	Contact Map
1r5bA	1	0.8955	100	0.214	Contact Map
3p26A	1	0.9359	100	0.224	Contact Map
3mcaA	1	0.8266	100	0.225	Contact Map
3izq1	1	0.9952	100	0.226	Contact Map
1zunB	1	0.924	100	0.247	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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