IF2G - HALSA - GREMLIN Contacts

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IF2G - Translation initiation factor 2 subunit gamma

UniProt:	Q9HNK9	Sequences: MADEHRQPEVNIGLVGHVDHGKTTLVRALSGEWTDQHSEEMKRGISIRLGYADATLRRCPDCDEPECYTVAETCPEHDTATEIERTVSFVDAPGHETLMATMLSGAALMDGAVLVVGANEPVPQPQTEEHLMALDIIGIENIVIAQNKVDLVDAEEARQNYEEIQAFVEGTVAEDAPVVPVSAEQEINVDLVIDALQTEIATPDRDPSADPLLYAARSFDINRPGTEWGGLLGGVIGGSLVDGELEAGDELELRPGREVEEGGKTEWRPVTTDVRSLQAGGEDVDSASPGGLLGVGTGLDPSLTKGDALAGQVAGPPGSLPPTWESFEMDVDLLERLVGAADGEQIDDISTGEPLMLTVGTATTVGSVTSARDGECEVALKRPVCAPAGAKIAINRRVGARWRLIGVGTLTESE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	414 (344)
Sequences:	17570 (8321)
Seq/√Len:	448.6

ECOLI - CYSN SELB EFTU2 EFTU1 LEPA TYPA RF3 EFG IF2
BACSU - EFTU TYPA LEPA EFG IF2
HALSA - IF2G EF1A Q9HPE4 EF2 IF2P
SULSO - EF1A IF2G Q97W17 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
287_A	293_L	4.607	1.00
246_E	286_S	3.940	1.00
145_A	181_V	3.860	1.00
244_E	286_S	3.760	1.00
179_V	195_A	2.940	1.00
155_E	159_Q	2.620	1.00
249_D	316_P	2.526	1.00
212_L	242_D	2.497	1.00
80_A	84_E	2.447	1.00
211_P	240_L	2.412	1.00
246_E	249_D	2.272	1.00
47_I	52_A	2.203	1.00
119_N	151_L	2.195	1.00
247_A	285_D	2.163	1.00
194_D	198_T	2.116	1.00
181_V	192_V	2.103	1.00
170_G	173_A	2.075	1.00
348_D	353_E	1.996	1.00
48_R	52_A	1.969	1.00
250_E	271_T	1.947	1.00
161_Y	180_P	1.938	1.00
348_D	351_T	1.913	1.00
206_D	209_A	1.912	1.00
244_E	288_S	1.898	1.00
48_R	51_Y	1.890	1.00
78_D	86_T	1.850	1.00
211_P	245_L	1.827	1.00
154_A	158_R	1.826	1.00
49_L	52_A	1.815	1.00
111_G	200_I	1.811	1.00
13_G	109_M	1.792	1.00
161_Y	165_Q	1.790	1.00
161_Y	178_V	1.785	1.00
32_E	190_D	1.785	1.00
47_I	51_Y	1.783	1.00
348_D	357_L	1.778	1.00
247_A	283_D	1.759	1.00
128_E	167_F	1.751	1.00
354_P	358_T	1.732	1.00
351_T	354_P	1.715	1.00
209_A	242_D	1.709	1.00
118_A	146_Q	1.705	1.00
162_E	166_A	1.683	1.00
288_S	291_G	1.683	1.00
236_I	308_A	1.670	1.00
213_L	238_G	1.658	1.00
113_V	145_A	1.653	1.00
354_P	357_L	1.644	1.00
46_S	49_L	1.644	1.00
211_P	251_L	1.642	1.00
195_A	199_E	1.634	1.00
238_G	295_V	1.624	1.00
348_D	352_G	1.623	1.00
352_G	357_L	1.619	1.00
159_Q	163_E	1.610	1.00
348_D	354_P	1.587	1.00
353_E	357_L	1.573	1.00
12_I	87_V	1.572	1.00
240_L	287_A	1.572	1.00
26_V	89_F	1.571	1.00
47_I	50_G	1.571	1.00
252_E	317_P	1.568	1.00
349_I	354_P	1.564	1.00
346_I	352_G	1.552	1.00
240_L	293_L	1.547	1.00
60_P	65_P	1.544	1.00
355_L	358_T	1.535	1.00
61_D	70_V	1.533	1.00
360_G	364_T	1.518	1.00
235_V	294_G	1.513	1.00
351_T	356_M	1.506	1.00
219_F	237_G	1.501	1.00
351_T	357_L	1.501	1.00
14_L	26_V	1.499	1.00
46_S	51_Y	1.495	1.00
340_A	343_G	1.489	1.00
346_I	357_L	1.477	1.00
348_D	356_M	1.465	1.00
353_E	358_T	1.461	1.00
46_S	50_G	1.461	1.00
78_D	84_E	1.458	1.00
348_D	355_L	1.457	1.00
76_E	86_T	1.451	1.00
46_S	52_A	1.444	1.00
353_E	356_M	1.438	1.00
348_D	358_T	1.433	1.00
215_A	236_I	1.433	1.00
352_G	355_L	1.416	1.00
341_A	344_E	1.409	1.00
56_L	75_P	1.407	1.00
117_G	120_E	1.404	1.00
276_S	283_D	1.398	1.00
25_L	115_V	1.395	1.00
254_R	315_G	1.377	1.00
131_L	164_I	1.376	1.00
349_I	358_T	1.375	1.00
85_R	197_Q	1.363	1.00
342_D	345_Q	1.353	1.00
28_A	31_G	1.352	1.00
351_T	358_T	1.343	1.00
346_I	349_I	1.342	1.00
350_S	353_E	1.331	1.00
158_R	162_E	1.323	1.00
349_I	356_M	1.323	1.00
80_A	194_D	1.313	1.00
349_I	357_L	1.309	1.00
352_G	356_M	1.303	1.00
351_T	355_L	1.299	1.00
116_V	127_T	1.294	1.00
325_E	328_E	1.292	1.00
160_N	163_E	1.290	1.00
8_P	85_R	1.271	1.00
245_L	295_V	1.257	1.00
36_Q	55_T	1.252	1.00
347_D	351_T	1.252	1.00
279_A	282_E	1.248	1.00
28_A	186_E	1.246	1.00
341_A	345_Q	1.242	1.00
360_G	363_T	1.237	1.00
284_V	287_A	1.237	1.00
144_I	164_I	1.237	1.00
368_V	374_G	1.234	1.00
147_N	183_A	1.234	1.00
29_L	77_H	1.233	1.00
349_I	352_G	1.232	1.00
349_I	353_E	1.228	1.00
182_S	185_Q	1.223	1.00
177_P	199_E	1.221	1.00
295_V	314_A	1.218	1.00
120_E	124_Q	1.213	1.00
77_H	87_V	1.206	1.00
207_P	288_S	1.205	1.00
346_I	351_T	1.201	1.00
352_G	358_T	1.201	1.00
347_D	354_P	1.201	1.00
145_A	183_A	1.198	1.00
369_T	372_R	1.196	1.00
80_A	197_Q	1.193	1.00
346_I	354_P	1.190	1.00
349_I	355_L	1.180	1.00
25_L	183_A	1.177	1.00
112_A	134_L	1.169	1.00
149_V	180_P	1.169	1.00
346_I	355_L	1.165	1.00
346_I	356_M	1.156	1.00
79_T	194_D	1.154	1.00
239_S	292_L	1.152	1.00
144_I	178_V	1.150	1.00
103_L	133_A	1.150	1.00
15_V	134_L	1.144	1.00
347_D	352_G	1.135	1.00
346_I	358_T	1.134	1.00
252_E	257_R	1.133	1.00
339_G	345_Q	1.133	1.00
347_D	353_E	1.131	1.00
33_W	193_I	1.131	1.00
338_V	341_A	1.124	1.00
149_V	187_I	1.113	1.00
372_R	379_A	1.112	1.00
213_L	240_L	1.108	1.00
59_C	71_A	1.099	1.00
77_H	89_F	1.095	1.00
346_I	353_E	1.090	1.00
143_V	195_A	1.083	1.00
359_V	363_T	1.080	1.00
25_L	192_V	1.079	1.00
114_L	144_I	1.079	1.00
347_D	355_L	1.073	1.00
324_W	327_F	1.073	1.00
339_G	344_E	1.068	1.00
146_Q	180_P	1.063	1.00
338_V	343_G	1.059	1.00
330_D	333_L	1.059	1.00
334_L	337_L	1.059	1.00
340_A	344_E	1.056	1.00
11_N	88_S	1.053	1.00
252_E	320_L	1.053	1.00
326_S	379_A	1.051	1.00
251_L	270_V	1.048	1.00
130_H	133_A	1.046	1.00
28_A	189_V	1.045	1.00
316_P	319_S	1.040	1.00
122_V	127_T	1.038	1.00
334_L	339_G	1.036	1.00
350_S	355_L	1.034	1.00
336_R	339_G	1.034	1.00
347_D	358_T	1.033	1.00
275_R	284_V	1.032	1.00
15_V	112_A	1.032	1.00
90_V	109_M	1.030	1.00
331_V	376_C	1.027	1.00
334_L	338_V	1.026	1.00
339_G	342_D	1.024	1.00
326_S	329_M	1.023	1.00
181_V	188_N	1.020	1.00
150_D	182_S	1.014	1.00
207_P	244_E	1.005	1.00
251_L	314_A	1.001	1.00
388_A	391_K	0.996	1.00
112_A	139_I	0.993	1.00
325_E	329_M	0.993	1.00
258_E	307_D	0.993	1.00
274_V	277_L	0.989	1.00
309_L	312_Q	0.988	1.00
87_V	197_Q	0.987	1.00
256_G	312_Q	0.985	1.00
359_V	364_T	0.983	1.00
330_D	336_R	0.982	1.00
326_S	377_E	0.980	1.00
340_A	345_Q	0.980	1.00
347_D	356_M	0.977	1.00
177_P	195_A	0.970	1.00
58_R	73_T	0.968	1.00
157_A	180_P	0.964	1.00
146_Q	157_A	0.960	1.00
162_E	165_Q	0.960	1.00
8_P	84_E	0.959	1.00
28_A	32_E	0.953	1.00
190_D	194_D	0.952	1.00
328_E	377_E	0.949	1.00
255_P	312_Q	0.947	1.00
238_G	293_L	0.941	1.00
58_R	71_A	0.937	1.00
207_P	289_P	0.936	1.00
315_G	321_P	0.936	1.00
333_L	336_R	0.936	1.00
338_V	345_Q	0.934	1.00
33_W	77_H	0.930	1.00
143_V	200_I	0.927	1.00
26_V	56_L	0.927	1.00
350_S	354_P	0.927	1.00
328_E	375_E	0.927	1.00
157_A	160_N	0.924	1.00
359_V	362_A	0.919	1.00
350_S	358_T	0.915	1.00
335_E	338_V	0.914	1.00
338_V	342_D	0.913	1.00
245_L	274_V	0.911	1.00
324_W	328_E	0.911	1.00
272_T	283_D	0.911	1.00
56_L	69_T	0.907	1.00
250_E	317_P	0.906	1.00
158_R	161_Y	0.904	1.00
192_V	197_Q	0.904	1.00
192_V	196_L	0.903	1.00
163_E	166_A	0.903	1.00
116_V	164_I	0.899	1.00
350_S	357_L	0.895	1.00
157_A	161_Y	0.895	1.00
337_L	340_A	0.895	1.00
143_V	179_V	0.893	1.00
25_L	145_A	0.891	1.00
37_H	48_R	0.891	1.00
14_L	113_V	0.889	1.00
210_D	316_P	0.888	1.00
362_A	365_V	0.886	1.00
273_D	276_S	0.876	1.00
24_T	183_A	0.873	1.00
63_D	67_C	0.872	1.00
336_R	344_E	0.869	1.00
37_H	46_S	0.867	1.00
114_L	127_T	0.862	1.00
15_V	114_L	0.862	1.00
339_G	343_G	0.860	1.00
361_T	364_T	0.857	1.00
165_Q	169_E	0.855	1.00
72_E	90_V	0.853	1.00
350_S	356_M	0.852	1.00
245_L	287_A	0.849	1.00
61_D	66_E	0.849	1.00
336_R	343_G	0.845	1.00
144_I	176_A	0.844	1.00
172_V	175_D	0.843	1.00
12_I	196_L	0.837	1.00
131_L	142_I	0.835	1.00
29_L	189_V	0.835	1.00
56_L	73_T	0.829	1.00
118_A	149_V	0.827	1.00
242_D	321_P	0.823	1.00
338_V	344_E	0.818	1.00
215_A	308_A	0.818	1.00
13_G	92_A	0.816	1.00
245_L	251_L	0.816	1.00
347_D	357_L	0.815	1.00
330_D	375_E	0.813	1.00
287_A	291_G	0.813	1.00
339_G	379_A	0.812	1.00
194_D	197_Q	0.807	1.00
336_R	340_A	0.806	1.00
113_V	143_V	0.805	1.00
253_L	308_A	0.802	1.00
32_E	186_E	0.798	1.00
331_V	334_L	0.797	1.00
134_L	142_I	0.797	1.00
19_D	95_H	0.796	1.00
274_V	278_Q	0.793	1.00
193_I	197_Q	0.792	1.00
315_G	320_L	0.791	1.00
154_A	159_Q	0.790	1.00
25_L	189_V	0.788	1.00
60_P	64_E	0.784	1.00
346_I	350_S	0.784	1.00
212_L	321_P	0.777	1.00
253_L	314_A	0.775	1.00
339_G	381_K	0.772	1.00
246_E	285_D	0.769	1.00
32_E	189_V	0.767	1.00
334_L	343_G	0.761	1.00
158_R	180_P	0.761	1.00
269_P	273_D	0.759	1.00
207_P	210_D	0.758	1.00
115_V	147_N	0.756	1.00
188_N	191_L	0.756	1.00
29_L	193_I	0.754	1.00
324_W	329_M	0.752	1.00
272_T	302_S	0.746	1.00
347_D	350_S	0.745	1.00
250_E	269_P	0.744	1.00
328_E	331_V	0.744	1.00
369_T	374_G	0.743	1.00
336_R	345_Q	0.742	1.00
195_A	198_T	0.740	1.00
208_S	244_E	0.740	1.00
30_S	35_D	0.739	1.00
205_R	209_A	0.734	1.00
13_G	106_A	0.733	1.00
331_V	338_V	0.732	1.00
13_G	112_A	0.728	1.00
165_Q	175_D	0.724	1.00
284_V	291_G	0.718	1.00
119_N	153_D	0.717	1.00
273_D	278_Q	0.715	1.00
256_G	309_L	0.714	1.00
368_V	372_R	0.714	1.00
145_A	192_V	0.713	1.00
205_R	289_P	0.712	1.00
164_I	168_V	0.711	1.00
331_V	336_R	0.710	1.00
205_R	242_D	0.708	1.00
210_D	319_S	0.708	1.00
316_P	320_L	0.706	1.00
362_A	366_G	0.704	1.00
184_E	188_N	0.703	1.00
122_V	160_N	0.702	1.00
17_H	20_H	0.702	1.00
270_V	273_D	0.701	1.00
9_E	88_S	0.700	1.00
71_A	101_T	0.694	1.00
193_I	196_L	0.693	1.00
113_V	196_L	0.692	1.00
252_E	318_G	0.692	1.00
337_L	345_Q	0.691	1.00
116_V	144_I	0.691	1.00
31_G	38_S	0.690	1.00
272_T	276_S	0.683	1.00
221_I	235_V	0.683	1.00
333_L	338_V	0.682	1.00
114_L	130_H	0.681	1.00
252_E	315_G	0.679	1.00
164_I	167_F	0.677	1.00
244_E	289_P	0.669	1.00
333_L	357_L	0.669	1.00
334_L	341_A	0.668	1.00
155_E	158_R	0.667	1.00
16_G	20_H	0.666	1.00
281_G	294_G	0.663	1.00
18_V	95_H	0.663	1.00
159_Q	162_E	0.659	1.00
30_S	55_T	0.655	1.00
111_G	143_V	0.654	1.00
166_A	169_E	0.654	1.00
18_V	68_Y	0.652	1.00
250_E	270_V	0.644	0.99
213_L	295_V	0.640	0.99
160_N	164_I	0.640	0.99
334_L	342_D	0.639	0.99
245_L	270_V	0.639	0.99
111_G	201_A	0.637	0.99
363_T	370_S	0.637	0.99
180_P	187_I	0.635	0.99
215_A	314_A	0.634	0.99
118_A	154_A	0.633	0.99
128_E	132_M	0.630	0.99
63_D	66_E	0.630	0.99
275_R	278_Q	0.629	0.99
370_S	375_E	0.627	0.99
242_D	387_P	0.623	0.99
218_S	310_A	0.621	0.99
51_Y	55_T	0.619	0.99
221_I	232_L	0.619	0.99
252_E	271_T	0.618	0.99
337_L	342_D	0.618	0.99
66_E	70_V	0.615	0.99
79_T	84_E	0.614	0.99
333_L	345_Q	0.613	0.99
274_V	283_D	0.612	0.99
15_V	106_A	0.611	0.99
329_M	333_L	0.611	0.99
29_L	33_W	0.606	0.99
303_L	308_A	0.606	0.99
334_L	340_A	0.605	0.99
30_S	75_P	0.604	0.99
273_D	301_P	0.602	0.99
149_V	157_A	0.602	0.99
185_Q	188_N	0.601	0.99
337_L	343_G	0.601	0.99
10_V	203_P	0.598	0.99
284_V	293_L	0.597	0.99
72_E	105_G	0.596	0.99
334_L	345_Q	0.594	0.99
110_D	239_S	0.593	0.99
213_L	245_L	0.593	0.99
131_L	135_D	0.591	0.99
253_L	256_G	0.591	0.99
278_Q	283_D	0.588	0.99
327_F	380_L	0.585	0.99
165_Q	178_V	0.584	0.99
336_R	342_D	0.583	0.99
317_P	320_L	0.582	0.99
325_E	331_V	0.582	0.99
277_L	282_E	0.581	0.99
253_L	272_T	0.580	0.99
199_E	202_T	0.580	0.99
113_V	192_V	0.578	0.99
86_T	291_G	0.577	0.99
163_E	167_F	0.575	0.99
79_T	197_Q	0.573	0.99
212_L	323_T	0.571	0.99
79_T	193_I	0.571	0.99
219_F	294_G	0.571	0.99
171_T	174_E	0.570	0.99
154_A	157_A	0.569	0.99
273_D	303_L	0.568	0.99
106_A	137_I	0.568	0.99
240_L	245_L	0.567	0.99
368_V	371_A	0.567	0.99
359_V	365_V	0.564	0.99
254_R	321_P	0.564	0.99
114_L	164_I	0.562	0.99
50_G	55_T	0.562	0.99
251_L	272_T	0.560	0.99
238_G	314_A	0.559	0.99
64_E	67_C	0.558	0.99
63_D	70_V	0.555	0.98
35_D	77_H	0.554	0.98
36_Q	52_A	0.553	0.98
272_T	278_Q	0.553	0.98
38_S	49_L	0.553	0.98
329_M	332_D	0.552	0.98
122_V	163_E	0.550	0.98
103_L	130_H	0.550	0.98
327_F	330_D	0.550	0.98
31_G	35_D	0.549	0.98
102_M	130_H	0.548	0.98
368_V	382_R	0.547	0.98
196_L	200_I	0.547	0.98
356_M	367_S	0.547	0.98
17_H	124_Q	0.546	0.98
107_A	241_V	0.545	0.98
19_D	68_Y	0.545	0.98
121_P	163_E	0.544	0.98
327_F	331_V	0.543	0.98
216_A	237_G	0.543	0.98
335_E	341_A	0.542	0.98
365_V	368_V	0.541	0.98
131_L	168_V	0.539	0.98
36_Q	49_L	0.539	0.98
71_A	75_P	0.539	0.98
327_F	332_D	0.537	0.98
75_P	277_L	0.537	0.98
272_T	301_P	0.536	0.98
327_F	378_V	0.536	0.98
331_V	339_G	0.533	0.98
250_E	273_D	0.533	0.98
7_Q	85_R	0.533	0.98
132_M	135_D	0.532	0.98
10_V	202_T	0.532	0.98
18_V	69_T	0.532	0.98
92_A	102_M	0.531	0.98
333_L	340_A	0.531	0.98
76_E	88_S	0.531	0.98
253_L	312_Q	0.527	0.98
211_P	244_E	0.524	0.98
99_M	133_A	0.524	0.98
52_A	55_T	0.523	0.98
360_G	374_G	0.523	0.98
220_D	234_G	0.522	0.98
135_D	168_V	0.522	0.98
235_V	281_G	0.522	0.98
146_Q	161_Y	0.521	0.98
330_D	334_L	0.521	0.98
366_G	370_S	0.521	0.98
61_D	369_T	0.521	0.98
86_T	275_R	0.520	0.98
254_R	320_L	0.520	0.98
336_R	341_A	0.518	0.98
111_G	196_L	0.518	0.98
36_Q	48_R	0.516	0.98
329_M	334_L	0.516	0.98
96_E	125_P	0.516	0.98
61_D	65_P	0.515	0.98
273_D	283_D	0.515	0.98
273_D	277_L	0.513	0.98
154_A	160_N	0.512	0.97
170_G	174_E	0.511	0.97
60_P	374_G	0.510	0.97
96_E	129_E	0.509	0.97
215_A	238_G	0.509	0.97
335_E	344_E	0.508	0.97
172_V	176_A	0.508	0.97
127_T	144_I	0.507	0.97
360_G	366_G	0.506	0.97
337_L	344_E	0.506	0.97
335_E	343_G	0.502	0.97
120_E	151_L	0.501	0.97
330_D	335_E	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
1jnyA	1	0.8865	100	0.296	Contact Map
3mcaA	1	0.7947	100	0.305	Contact Map
4d61i	1	0.9082	100	0.309	Contact Map
3wy9A	1	0.9106	100	0.309	Contact Map
1d2eA	3	0.8889	100	0.31	Contact Map
4crnP	1	0.913	100	0.311	Contact Map
1f60A	1	0.9227	100	0.312	Contact Map
2c78A	1	0.8937	100	0.317	Contact Map
1r5bA	1	0.8261	100	0.319	Contact Map
3avxA	1	0.8478	100	0.323	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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