IF2A - HALSA - GREMLIN Contacts

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IF2A - Translation initiation factor 2 subunit alpha

UniProt:	Q9HRT8	Sequences: MKYEGWPDEGELVVGKVDDIEDFGVFVDLEQYQDKRGLVHVSEVASGWIKNVRDHVNEDQTVVAKVLGVDESAQQIDLSLKDVNDHQHSDTIQEWKNEQKADKWLTLAFGEDMADDQFRRIANGLLADFGSLYDGFEQAAIHGHEALADTALEDDEIDAIVETARDNVSVPYVTVTGYVSLQSPDGDGVDTIKDALQAAEGNGEVPDEVDLDVTYVGAPEYRLRVQAPNYKTAESALEAAGDRAVDSVTAHDGSGAFHRERQLDDDA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	267 (231)
Sequences:	766 (567)
Seq/√Len:	37.3

HALSA - IF2A
SULSO - IF2A

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
37_G	78_L	5.730	1.00
43_E	68_G	3.622	1.00
79_S	84_N	3.521	1.00
29_L	78_L	3.362	1.00
16_K	61_T	2.867	1.00
135_G	138_Q	2.756	1.00
64_A	80_L	2.730	1.00
132_L	136_F	2.428	1.00
198_A	201_G	2.350	1.00
187_D	191_T	2.286	0.99
15_G	62_V	2.281	0.99
208_E	214_T	2.246	0.99
13_V	64_A	2.161	0.99
25_V	56_V	2.116	0.99
15_G	26_F	2.095	0.99
133_Y	136_F	2.094	0.99
131_S	135_G	2.091	0.99
39_V	75_Q	2.018	0.99
23_F	40_H	1.963	0.98
136_F	139_A	1.961	0.98
47_G	50_K	1.916	0.98
145_E	149_D	1.915	0.98
142_H	145_E	1.893	0.98
38_L	42_S	1.888	0.98
216_V	220_E	1.863	0.98
69_V	80_L	1.846	0.98
16_K	28_D	1.834	0.97
224_R	227_A	1.833	0.97
119_R	124_G	1.831	0.97
208_E	212_D	1.820	0.97
227_A	233_A	1.788	0.97
210_D	214_T	1.779	0.97
12_L	63_V	1.758	0.97
209_V	212_D	1.750	0.97
39_V	80_L	1.741	0.97
30_E	45_A	1.710	0.96
118_F	122_A	1.705	0.96
207_D	212_D	1.681	0.96
101_A	132_L	1.676	0.96
96_K	100_K	1.622	0.95
194_D	200_E	1.602	0.94
224_R	228_P	1.538	0.93
207_D	214_T	1.535	0.93
16_K	30_E	1.508	0.92
145_E	162_E	1.499	0.92
135_G	142_H	1.498	0.92
39_V	64_A	1.497	0.92
188_G	192_I	1.475	0.92
126_L	131_S	1.473	0.92
130_G	136_F	1.453	0.91
15_G	39_V	1.448	0.91
211_L	216_V	1.446	0.91
118_F	123_N	1.443	0.91
75_Q	80_L	1.432	0.90
223_L	226_Q	1.416	0.90
20_I	49_I	1.406	0.89
18_D	36_R	1.402	0.89
9_E	22_D	1.395	0.89
39_V	70_D	1.388	0.89
207_D	211_L	1.382	0.89
116_D	119_R	1.371	0.88
181_L	192_I	1.338	0.87
50_K	66_V	1.334	0.87
44_V	56_V	1.332	0.87
23_F	38_L	1.322	0.86
31_Q	50_K	1.314	0.86
28_D	34_D	1.308	0.86
205_V	210_D	1.290	0.85
109_F	128_D	1.289	0.85
19_D	58_E	1.272	0.84
30_E	61_T	1.265	0.84
13_V	80_L	1.256	0.83
12_L	44_V	1.243	0.83
76_I	80_L	1.230	0.82
210_D	217_G	1.220	0.81
131_S	137_E	1.209	0.81
188_G	215_Y	1.206	0.81
23_F	41_V	1.191	0.80
185_D	191_T	1.191	0.80
18_D	44_V	1.189	0.80
36_R	79_S	1.178	0.79
17_V	53_R	1.176	0.79
38_L	67_L	1.176	0.79
75_Q	78_L	1.163	0.78
165_R	194_D	1.160	0.78
223_L	227_A	1.156	0.78
217_G	220_E	1.154	0.78
41_V	64_A	1.148	0.77
27_V	39_V	1.144	0.77
164_A	181_L	1.134	0.76
98_E	101_A	1.132	0.76
40_H	67_L	1.122	0.76
209_V	237_L	1.118	0.75
38_L	49_I	1.118	0.75
148_A	151_A	1.116	0.75
11_E	32_Y	1.114	0.75
67_L	79_S	1.111	0.75
131_S	136_F	1.107	0.75
43_E	48_W	1.102	0.74
214_T	217_G	1.101	0.74
26_F	38_L	1.097	0.74
153_E	156_E	1.093	0.74
19_D	36_R	1.073	0.72
7_P	66_V	1.072	0.72
207_D	217_G	1.069	0.72
205_V	212_D	1.066	0.72
43_E	81_K	1.065	0.72
194_D	202_N	1.065	0.72
70_D	87_Q	1.063	0.72
225_V	228_P	1.048	0.71
22_D	41_V	1.045	0.70
220_E	223_L	1.037	0.70
207_D	210_D	1.032	0.69
223_L	229_N	1.026	0.69
66_V	158_D	1.024	0.69
121_I	125_L	1.022	0.69
208_E	217_G	1.021	0.68
115_D	126_L	1.013	0.68
8_D	68_G	1.012	0.68
151_A	155_D	1.008	0.67
7_P	13_V	1.008	0.67
205_V	209_V	1.008	0.67
130_G	134_D	1.007	0.67
202_N	210_D	1.000	0.67
44_V	52_V	0.982	0.65
145_E	151_A	0.981	0.65
223_L	237_L	0.974	0.65
14_V	30_E	0.971	0.65
146_A	150_T	0.963	0.64
144_H	148_A	0.960	0.64
7_P	31_Q	0.955	0.63
114_A	120_R	0.951	0.63
13_V	75_Q	0.944	0.62
231_K	235_S	0.938	0.62
90_D	94_E	0.936	0.62
21_E	37_G	0.935	0.62
164_A	170_V	0.933	0.61
212_D	216_V	0.929	0.61
87_Q	92_I	0.926	0.61
7_P	69_V	0.925	0.61
212_D	217_G	0.917	0.60
225_V	230_Y	0.912	0.60
119_R	148_A	0.912	0.60
193_K	196_L	0.909	0.59
102_D	122_A	0.908	0.59
40_H	46_S	0.903	0.59
32_Y	79_S	0.891	0.58
23_F	81_K	0.890	0.58
119_R	128_D	0.884	0.57
66_V	155_D	0.880	0.57
187_D	194_D	0.878	0.57
87_Q	173_V	0.871	0.56
121_I	124_G	0.870	0.56
59_D	78_L	0.868	0.56
122_A	127_A	0.866	0.56
61_T	80_L	0.866	0.56
132_L	135_G	0.865	0.56
119_R	139_A	0.860	0.55
115_D	121_I	0.853	0.55
210_D	216_V	0.848	0.54
126_L	132_L	0.848	0.54
219_P	222_R	0.848	0.54
131_S	134_D	0.841	0.53
112_D	118_F	0.837	0.53
199_A	213_V	0.835	0.53
151_A	159_A	0.832	0.53
160_I	164_A	0.831	0.53
174_T	213_V	0.831	0.53
11_E	235_S	0.826	0.52
121_I	129_F	0.824	0.52
66_V	69_V	0.822	0.52
119_R	151_A	0.820	0.52
120_R	156_E	0.819	0.52
193_K	200_E	0.818	0.51
217_G	225_V	0.816	0.51
232_T	238_E	0.812	0.51
68_G	73_A	0.811	0.51
208_E	211_L	0.806	0.50
20_I	41_V	0.804	0.50
18_D	21_E	0.801	0.50
130_G	140_A	0.798	0.50
117_Q	127_A	0.791	0.49
40_H	77_D	0.787	0.49
57_N	63_V	0.782	0.48
205_V	208_E	0.781	0.48
16_K	21_E	0.779	0.48
148_A	155_D	0.778	0.48
22_D	25_V	0.778	0.48
13_V	76_I	0.778	0.48
146_A	149_D	0.776	0.48
31_Q	69_V	0.775	0.48
201_G	238_E	0.773	0.47
218_A	221_Y	0.772	0.47
44_V	58_E	0.770	0.47
10_G	100_K	0.765	0.47
222_R	234_E	0.762	0.46
99_Q	102_D	0.762	0.46
211_L	214_T	0.758	0.46
118_F	121_I	0.758	0.46
81_K	85_D	0.758	0.46
23_F	42_S	0.757	0.46
117_Q	122_A	0.754	0.46
38_L	44_V	0.752	0.46
211_L	218_A	0.752	0.46
202_N	226_Q	0.750	0.45
12_L	57_N	0.748	0.45
149_D	153_E	0.747	0.45
69_V	136_F	0.744	0.45
224_R	236_A	0.744	0.45
105_L	124_G	0.743	0.45
143_G	146_A	0.742	0.45
210_D	236_A	0.741	0.45
23_F	62_V	0.740	0.45
16_K	19_D	0.735	0.44
196_L	213_V	0.735	0.44
87_Q	171_P	0.728	0.43
191_T	194_D	0.728	0.43
234_E	237_L	0.728	0.43
68_G	75_Q	0.726	0.43
14_V	29_L	0.723	0.43
224_R	232_T	0.714	0.42
109_F	117_Q	0.714	0.42
102_D	105_L	0.710	0.42
230_Y	234_E	0.709	0.42
41_V	71_E	0.708	0.42
9_E	185_D	0.695	0.41
46_S	75_Q	0.692	0.40
159_A	163_T	0.691	0.40
26_F	75_Q	0.688	0.40
181_L	187_D	0.685	0.40
85_D	90_D	0.684	0.40
219_P	223_L	0.683	0.40
139_A	142_H	0.679	0.39
58_E	72_S	0.678	0.39
110_G	162_E	0.678	0.39
217_G	221_Y	0.678	0.39
39_V	62_V	0.678	0.39
12_L	15_G	0.678	0.39
23_F	39_V	0.677	0.39
12_L	52_V	0.675	0.39
114_A	148_A	0.673	0.39
163_T	166_D	0.671	0.39
226_Q	235_S	0.670	0.39
215_Y	218_A	0.663	0.38
133_Y	138_Q	0.662	0.38
145_E	158_D	0.661	0.38
49_I	61_T	0.657	0.37
6_W	60_Q	0.656	0.37
130_G	133_Y	0.656	0.37
147_L	152_L	0.654	0.37
102_D	126_L	0.654	0.37
205_V	214_T	0.646	0.37
186_G	194_D	0.644	0.36
34_D	185_D	0.644	0.36
217_G	222_R	0.639	0.36
24_G	29_L	0.638	0.36
96_K	101_A	0.635	0.36
180_S	183_S	0.631	0.35
29_L	174_T	0.629	0.35
18_D	28_D	0.629	0.35
25_V	55_H	0.627	0.35
57_N	65_K	0.625	0.35
19_D	78_L	0.624	0.35
177_G	180_S	0.621	0.35
34_D	206_P	0.621	0.35
53_R	69_V	0.621	0.35
23_F	46_S	0.619	0.34
133_Y	173_V	0.619	0.34
49_I	187_D	0.617	0.34
179_V	183_S	0.614	0.34
17_V	46_S	0.612	0.34
202_N	205_V	0.610	0.34
124_G	135_G	0.610	0.34
225_V	233_A	0.610	0.34
11_E	61_T	0.609	0.34
12_L	84_N	0.608	0.33
200_E	232_T	0.608	0.33
138_Q	155_D	0.608	0.33
207_D	232_T	0.608	0.33
218_A	223_L	0.607	0.33
223_L	228_P	0.604	0.33
217_G	223_L	0.602	0.33
111_E	162_E	0.598	0.33
31_Q	52_V	0.598	0.33
36_R	190_D	0.598	0.33
95_W	188_G	0.598	0.33
161_V	165_R	0.597	0.33
78_L	92_I	0.595	0.32
106_T	110_G	0.594	0.32
86_H	93_Q	0.590	0.32
140_A	145_E	0.588	0.32
20_I	44_V	0.587	0.32
113_M	152_L	0.584	0.32
209_V	214_T	0.584	0.32
158_D	162_E	0.582	0.31
39_V	58_E	0.581	0.31
103_K	106_T	0.578	0.31
124_G	150_T	0.577	0.31
54_D	86_H	0.576	0.31
66_V	83_V	0.576	0.31
202_N	236_A	0.573	0.31
42_S	48_W	0.568	0.30
32_Y	42_S	0.567	0.30
25_V	29_L	0.564	0.30
62_V	116_D	0.563	0.30
84_N	87_Q	0.559	0.30
49_I	55_H	0.557	0.30
22_D	52_V	0.554	0.29
22_D	38_L	0.554	0.29
184_P	187_D	0.551	0.29
212_D	218_A	0.550	0.29
105_L	108_A	0.550	0.29
15_G	27_V	0.548	0.29
27_V	43_E	0.548	0.29
208_E	236_A	0.548	0.29
105_L	122_A	0.548	0.29
95_W	99_Q	0.545	0.29
200_E	226_Q	0.545	0.29
86_H	90_D	0.545	0.29
29_L	77_D	0.542	0.28
218_A	227_A	0.540	0.28
130_G	135_G	0.540	0.28
234_E	238_E	0.538	0.28
140_A	161_V	0.537	0.28
201_G	210_D	0.536	0.28
216_V	219_P	0.536	0.28
13_V	32_Y	0.535	0.28
49_I	58_E	0.535	0.28
144_H	158_D	0.533	0.28
102_D	153_E	0.528	0.27
91_T	94_E	0.525	0.27
228_P	234_E	0.523	0.27
120_R	142_H	0.521	0.27
65_K	80_L	0.520	0.27
214_T	231_K	0.519	0.27
131_S	138_Q	0.518	0.27
232_T	237_L	0.516	0.27
106_T	111_E	0.515	0.27
230_Y	233_A	0.511	0.26
39_V	42_S	0.511	0.26
42_S	49_I	0.511	0.26
114_A	124_G	0.511	0.26
106_T	109_F	0.506	0.26
93_Q	97_N	0.502	0.26
200_E	213_V	0.501	0.26
195_A	201_G	0.500	0.26

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
3j81j	1	0.9139	100	0.296	Contact Map
1q8kA	1	0.9888	100	0.308	Contact Map
3aevA	1	0.6217	100	0.334	Contact Map
3cw2C	1	0.9738	100	0.344	Contact Map
1yz7A	1	0.6517	100	0.525	Contact Map
1kl9A	2	0.5768	99.9	0.57	Contact Map
2a19A	1	0.588	99.9	0.576	Contact Map
4aidA	3	0	99.7	0.694	Contact Map
3psfA	1	0.1124	99.7	0.694	Contact Map
1luzA	1	0.3146	99.7	0.696	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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