TSAD - BACSU - GREMLIN Contacts

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TSAD - tRNA N6-adenosine threonylcarbamoyltransferase

UniProt:	O05518	Sequences: MSEQKDMYVLGIETSCDETAAAIVKNGKEIISNVVASQIESHKRFGGVVPEIASRHHVEQITLVIEEAFRKAGMTYSDIDAIAVTEGPGLVGALLIGVNAAKALSFAYNIPLVGVHHIAGHIYANRLVEDIVFPALALVVSGGHTELVYMKEHGSFEVIGETLDDAAGEAYDKVARTMGLPYPGGPQIDKLAEKGNDNIPLPRAWLEEGSYNFSFSGLKSAVINTLHNASQKGQEIAPEDLSASFQNSVIDVLVTKTARAAKEYDVKQVLLAGGVAANRGLRAALEKEFAQHEGITLVIPPLALCTDNAAMIAAAGTIAFEKGIRGAYDMNGQPGLELTSYQSLTR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	346 (328)
Sequences:	4332 (2458)
Seq/√Len:	135.7

ECOLI - TSAD
BACSU - TSAD
HALSA - KAE1B
SULSO - KAE1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
151_K	155_S	3.901	1.00
11_G	313_A	3.341	1.00
25_K	29_E	3.337	1.00
67_E	71_K	3.253	1.00
128_V	301_P	3.209	1.00
211_Y	263_E	3.110	1.00
120_G	312_I	3.011	1.00
83_A	316_G	2.969	1.00
195_G	240_D	2.742	1.00
149_Y	266_V	2.611	1.00
175_A	184_G	2.574	1.00
8_Y	74_M	2.561	1.00
82_I	104_L	2.528	1.00
65_I	100_A	2.483	1.00
151_K	157_E	2.440	1.00
181_P	187_Q	2.410	1.00
84_V	112_L	2.381	1.00
8_Y	25_K	2.337	1.00
247_N	280_G	2.313	1.00
189_D	279_R	2.285	1.00
79_I	110_I	2.220	1.00
201_L	225_T	2.209	1.00
268_Q	296_T	2.203	1.00
76_Y	108_Y	2.136	1.00
286_E	291_Q	2.131	1.00
21_A	64_V	2.050	1.00
223_I	227_H	2.035	1.00
34_V	67_E	2.003	1.00
15_S	85_T	2.000	1.00
193_E	279_R	1.995	1.00
261_A	269_V	1.969	1.00
245_F	249_V	1.959	1.00
203_R	251_D	1.953	1.00
174_V	222_V	1.947	1.00
188_I	242_S	1.936	1.00
257_T	269_V	1.895	1.00
317_T	321_E	1.892	1.00
199_I	225_T	1.886	1.00
21_A	65_I	1.855	1.00
34_V	71_K	1.838	1.00
56_H	59_E	1.832	1.00
66_E	70_R	1.802	1.00
84_V	98_V	1.793	1.00
105_S	112_L	1.782	1.00
120_G	315_A	1.762	1.00
262_K	293_E	1.729	1.00
9_V	81_A	1.728	1.00
40_E	43_K	1.718	1.00
174_V	245_F	1.709	1.00
11_G	316_G	1.708	1.00
135_A	150_M	1.701	1.00
76_Y	104_L	1.689	1.00
187_Q	190_K	1.686	1.00
149_Y	157_E	1.686	1.00
167_A	249_V	1.681	1.00
224_N	227_H	1.674	1.00
118_I	139_V	1.657	1.00
7_M	26_N	1.635	1.00
69_F	76_Y	1.602	1.00
80_D	110_I	1.596	1.00
81_A	320_F	1.574	1.00
201_L	241_L	1.568	1.00
290_A	297_L	1.567	1.00
194_K	239_E	1.565	1.00
261_A	295_I	1.561	1.00
76_Y	79_I	1.557	1.00
203_R	248_S	1.548	1.00
119_A	156_F	1.539	1.00
202_P	221_A	1.538	1.00
191_L	239_E	1.519	1.00
163_L	212_N	1.515	1.00
191_L	238_P	1.510	1.00
34_V	64_V	1.503	1.00
243_A	247_N	1.502	1.00
149_Y	264_Y	1.493	1.00
254_V	284_A	1.491	1.00
33_N	303_A	1.490	1.00
201_L	221_A	1.480	1.00
101_A	112_L	1.479	1.00
32_S	68_A	1.447	1.00
189_D	246_Q	1.442	1.00
280_G	284_A	1.442	1.00
152_E	155_S	1.427	1.00
271_L	299_I	1.425	1.00
36_A	60_Q	1.412	1.00
284_A	288_E	1.399	1.00
234_Q	237_A	1.398	1.00
30_I	304_L	1.389	1.00
20_A	309_A	1.381	1.00
177_T	223_I	1.369	1.00
140_V	281_L	1.366	1.00
186_P	190_K	1.350	1.00
319_A	324_I	1.332	1.00
147_L	257_T	1.329	1.00
26_N	317_T	1.327	1.00
247_N	284_A	1.320	1.00
33_N	68_A	1.310	1.00
12_I	97_G	1.309	1.00
222_V	245_F	1.309	1.00
11_G	309_A	1.306	1.00
75_T	78_D	1.300	1.00
23_I	32_S	1.296	1.00
103_A	107_A	1.275	1.00
9_V	83_A	1.269	1.00
250_I	284_A	1.267	1.00
114_G	326_G	1.260	1.00
250_I	281_L	1.258	1.00
23_I	68_A	1.251	1.00
218_L	249_V	1.241	1.00
8_Y	23_I	1.240	1.00
25_K	31_I	1.235	1.00
227_H	231_Q	1.235	1.00
133_F	153_H	1.234	1.00
280_G	283_A	1.223	1.00
289_F	293_E	1.221	1.00
314_A	318_I	1.216	1.00
196_N	240_D	1.215	1.00
9_V	320_F	1.211	1.00
20_A	35_V	1.209	1.00
159_I	264_Y	1.209	1.00
191_L	194_K	1.203	1.00
18_E	39_I	1.198	1.00
152_E	322_K	1.198	1.00
196_N	243_A	1.197	1.00
190_K	194_K	1.189	1.00
277_A	302_L	1.177	0.99
32_S	72_A	1.172	0.99
190_K	193_E	1.169	0.99
258_A	289_F	1.156	0.99
268_Q	298_V	1.133	0.99
165_D	219_K	1.131	0.99
125_N	270_L	1.128	0.99
84_V	101_A	1.125	0.99
8_Y	80_D	1.125	0.99
82_I	105_S	1.124	0.99
74_M	78_D	1.122	0.99
229_A	234_Q	1.119	0.99
246_Q	280_G	1.114	0.99
34_V	68_A	1.112	0.99
257_T	285_L	1.109	0.99
226_L	241_L	1.107	0.99
283_A	288_E	1.105	0.99
126_R	318_I	1.102	0.99
135_A	270_L	1.100	0.99
198_N	247_N	1.100	0.99
147_L	213_F	1.099	0.99
222_V	241_L	1.098	0.99
68_A	72_A	1.091	0.99
7_M	80_D	1.091	0.99
289_F	292_H	1.082	0.99
69_F	74_M	1.077	0.99
81_A	113_V	1.069	0.99
91_V	332_G	1.068	0.99
160_G	260_A	1.067	0.99
209_G	259_R	1.064	0.99
258_A	293_E	1.063	0.99
177_T	226_L	1.060	0.99
12_I	65_I	1.056	0.99
86_E	114_G	1.056	0.99
288_E	292_H	1.055	0.99
23_I	79_I	1.055	0.99
122_I	137_A	1.030	0.99
189_D	193_E	1.030	0.99
233_G	236_I	1.030	0.99
91_V	334_P	1.026	0.99
100_A	103_A	1.017	0.98
187_Q	191_L	1.017	0.98
104_L	108_Y	1.015	0.98
224_N	228_N	1.013	0.98
199_I	240_D	1.010	0.98
243_A	246_Q	1.006	0.98
113_V	325_R	1.002	0.98
318_I	321_E	0.995	0.98
203_R	252_V	0.992	0.98
33_N	310_A	0.990	0.98
98_V	332_G	0.983	0.98
132_V	268_Q	0.981	0.98
195_G	243_A	0.979	0.98
79_I	108_Y	0.979	0.98
23_I	74_M	0.978	0.98
158_V	161_E	0.977	0.98
207_E	210_S	0.971	0.98
174_V	177_T	0.969	0.98
228_N	231_Q	0.966	0.98
41_S	56_H	0.966	0.98
225_T	229_A	0.964	0.98
61_I	100_A	0.964	0.98
203_R	255_T	0.959	0.98
22_A	309_A	0.956	0.98
251_D	284_A	0.955	0.98
136_L	264_Y	0.953	0.98
119_A	154_G	0.951	0.98
320_F	325_R	0.947	0.98
191_L	242_S	0.946	0.97
112_L	330_M	0.946	0.97
238_P	242_S	0.943	0.97
87_G	116_H	0.943	0.97
21_A	68_A	0.933	0.97
146_E	161_E	0.931	0.97
178_M	226_L	0.928	0.97
301_P	304_L	0.927	0.97
77_S	108_Y	0.926	0.97
24_V	314_A	0.923	0.97
271_L	285_L	0.920	0.97
255_T	259_R	0.919	0.97
31_I	74_M	0.918	0.97
326_G	330_M	0.918	0.97
189_D	280_G	0.907	0.97
123_Y	153_H	0.905	0.97
290_A	295_I	0.900	0.97
269_V	290_A	0.898	0.97
321_E	324_I	0.896	0.97
333_Q	336_L	0.895	0.96
82_I	110_I	0.893	0.96
26_N	321_E	0.889	0.96
20_A	33_N	0.885	0.96
125_N	272_A	0.883	0.96
248_S	252_V	0.880	0.96
167_A	253_L	0.880	0.96
258_A	262_K	0.880	0.96
99_N	103_A	0.880	0.96
171_Y	189_D	0.875	0.96
286_E	297_L	0.872	0.96
21_A	34_V	0.871	0.96
210_S	263_E	0.870	0.96
27_G	317_T	0.865	0.96
86_E	333_Q	0.864	0.96
258_A	292_H	0.863	0.96
247_N	251_D	0.857	0.96
178_M	242_S	0.854	0.95
98_V	102_K	0.854	0.95
119_A	319_A	0.850	0.95
197_D	247_N	0.843	0.95
167_A	215_F	0.842	0.95
229_A	237_A	0.839	0.95
113_V	320_F	0.839	0.95
123_Y	314_A	0.839	0.95
24_V	30_I	0.838	0.95
114_G	330_M	0.837	0.95
240_D	244_S	0.836	0.95
283_A	286_E	0.833	0.95
104_L	110_I	0.831	0.95
205_W	210_S	0.828	0.95
211_Y	259_R	0.827	0.95
70_R	73_G	0.826	0.95
126_R	314_A	0.822	0.94
129_E	296_T	0.815	0.94
62_T	100_A	0.811	0.94
82_I	108_Y	0.806	0.94
51_E	55_R	0.802	0.94
21_A	309_A	0.801	0.94
148_V	158_V	0.800	0.94
131_I	135_A	0.800	0.94
175_A	181_P	0.799	0.93
258_A	261_A	0.798	0.93
169_E	219_K	0.795	0.93
254_V	289_F	0.794	0.93
176_R	242_S	0.793	0.93
221_A	225_T	0.792	0.93
7_M	25_K	0.791	0.93
203_R	247_N	0.791	0.93
193_E	283_A	0.789	0.93
215_F	249_V	0.787	0.93
18_E	93_A	0.777	0.93
171_Y	246_Q	0.773	0.92
170_A	245_F	0.771	0.92
31_I	68_A	0.770	0.92
267_K	296_T	0.765	0.92
54_S	92_G	0.765	0.92
127_L	310_A	0.765	0.92
286_E	299_I	0.764	0.92
227_H	230_S	0.764	0.92
277_A	306_T	0.764	0.92
180_L	191_L	0.759	0.92
51_E	92_G	0.757	0.92
123_Y	315_A	0.755	0.91
105_S	110_I	0.751	0.91
240_D	243_A	0.750	0.91
254_V	257_T	0.750	0.91
210_S	259_R	0.747	0.91
98_V	330_M	0.747	0.91
276_A	305_C	0.746	0.91
174_V	178_M	0.745	0.91
148_V	156_F	0.743	0.91
137_A	272_A	0.742	0.91
230_S	233_G	0.742	0.91
136_L	266_V	0.741	0.91
24_V	313_A	0.738	0.90
18_E	182_Y	0.736	0.90
261_A	264_Y	0.733	0.90
122_I	139_V	0.733	0.90
284_A	289_F	0.732	0.90
199_I	237_A	0.730	0.90
146_E	158_V	0.730	0.90
140_V	253_L	0.728	0.90
30_I	310_A	0.724	0.90
123_Y	135_A	0.724	0.90
252_V	256_K	0.724	0.90
40_E	44_R	0.720	0.89
74_M	79_I	0.720	0.89
33_N	304_L	0.719	0.89
319_A	325_R	0.719	0.89
195_G	244_S	0.716	0.89
61_I	96_I	0.716	0.89
171_Y	245_F	0.715	0.89
123_Y	156_F	0.715	0.89
82_I	101_A	0.705	0.88
32_S	71_K	0.704	0.88
36_A	64_V	0.702	0.88
199_I	229_A	0.700	0.88
81_A	114_G	0.700	0.88
102_K	112_L	0.699	0.88
98_V	112_L	0.695	0.88
316_G	320_F	0.694	0.88
14_T	19_T	0.693	0.88
67_E	70_R	0.692	0.87
235_E	238_P	0.692	0.87
237_A	240_D	0.690	0.87
229_A	233_G	0.689	0.87
12_I	21_A	0.687	0.87
285_L	297_L	0.687	0.87
91_V	94_L	0.683	0.87
136_L	261_A	0.683	0.87
261_A	289_F	0.682	0.87
86_E	330_M	0.676	0.86
201_L	218_L	0.675	0.86
124_A	272_A	0.675	0.86
200_P	244_S	0.674	0.86
133_F	150_M	0.672	0.86
38_Q	42_H	0.672	0.86
95_L	332_G	0.671	0.86
197_D	243_A	0.671	0.86
254_V	285_L	0.669	0.86
138_L	257_T	0.668	0.86
16_C	48_V	0.664	0.85
18_E	37_S	0.663	0.85
8_Y	79_I	0.662	0.85
30_I	313_A	0.660	0.85
139_V	146_E	0.660	0.85
178_M	238_P	0.658	0.85
211_Y	264_Y	0.656	0.85
288_E	291_Q	0.656	0.85
8_Y	11_G	0.656	0.85
236_I	239_E	0.651	0.84
165_D	169_E	0.651	0.84
198_N	244_S	0.648	0.84
65_I	104_L	0.648	0.84
84_V	330_M	0.648	0.84
290_A	293_E	0.646	0.84
86_E	336_L	0.645	0.84
32_S	69_F	0.643	0.83
14_T	97_G	0.643	0.83
171_Y	188_I	0.642	0.83
160_G	212_N	0.642	0.83
24_V	81_A	0.642	0.83
46_G	173_K	0.640	0.83
157_E	264_Y	0.639	0.83
167_A	218_L	0.634	0.82
174_V	249_V	0.634	0.82
77_S	110_I	0.630	0.82
62_T	309_A	0.627	0.82
76_Y	110_I	0.625	0.82
21_A	32_S	0.624	0.82
258_A	295_I	0.624	0.82
189_D	250_I	0.624	0.82
7_M	81_A	0.623	0.81
137_A	270_L	0.621	0.81
221_A	224_N	0.619	0.81
45_F	52_I	0.618	0.81
12_I	61_I	0.618	0.81
8_Y	78_D	0.616	0.81
18_E	35_V	0.616	0.81
276_A	301_P	0.615	0.81
87_G	336_L	0.615	0.81
115_V	315_A	0.614	0.80
250_I	280_G	0.613	0.80
7_M	317_T	0.612	0.80
224_N	231_Q	0.609	0.80
159_I	263_E	0.609	0.80
81_A	316_G	0.608	0.80
14_T	61_I	0.608	0.80
36_A	67_E	0.608	0.80
205_W	208_E	0.606	0.80
229_A	236_I	0.605	0.79
169_E	173_K	0.603	0.79
131_I	298_V	0.602	0.79
205_W	256_K	0.602	0.79
248_S	251_D	0.601	0.79
179_G	238_P	0.599	0.79
30_I	33_N	0.596	0.78
314_A	317_T	0.596	0.78
123_Y	126_R	0.594	0.78
9_V	316_G	0.593	0.78
24_V	29_E	0.593	0.78
54_S	96_I	0.592	0.78
251_D	255_T	0.592	0.78
333_Q	337_E	0.589	0.78
170_A	219_K	0.587	0.77
325_R	329_D	0.586	0.77
164_D	214_S	0.585	0.77
51_E	54_S	0.582	0.77
90_L	219_K	0.582	0.77
84_V	97_G	0.582	0.77
246_Q	278_N	0.580	0.77
136_L	257_T	0.580	0.77
123_Y	133_F	0.578	0.76
60_Q	63_L	0.578	0.76
35_V	303_A	0.578	0.76
126_R	133_F	0.577	0.76
14_T	36_A	0.570	0.75
86_E	98_V	0.568	0.75
129_E	298_V	0.568	0.75
118_I	146_E	0.565	0.75
103_A	108_Y	0.565	0.75
69_F	108_Y	0.565	0.75
153_H	318_I	0.564	0.75
235_E	239_E	0.564	0.75
10_L	21_A	0.564	0.75
163_L	205_W	0.563	0.74
257_T	261_A	0.562	0.74
259_R	263_E	0.562	0.74
195_G	199_I	0.562	0.74
258_A	290_A	0.561	0.74
82_I	112_L	0.558	0.74
283_A	291_Q	0.557	0.74
205_W	252_V	0.557	0.74
123_Y	150_M	0.557	0.74
125_N	271_L	0.556	0.74
37_S	40_E	0.554	0.73
93_A	116_H	0.553	0.73
135_A	153_H	0.552	0.73
129_E	301_P	0.551	0.73
118_I	148_V	0.551	0.73
269_V	297_L	0.551	0.73
160_G	211_Y	0.550	0.73
135_A	268_Q	0.547	0.72
127_L	270_L	0.545	0.72
175_A	306_T	0.544	0.72
319_A	326_G	0.544	0.72
7_M	320_F	0.543	0.72
136_L	289_F	0.543	0.72
225_T	228_N	0.541	0.72
25_K	317_T	0.541	0.72
32_S	35_V	0.540	0.71
313_A	316_G	0.539	0.71
8_Y	31_I	0.538	0.71
90_L	169_E	0.537	0.71
106_F	328_Y	0.537	0.71
95_L	99_N	0.537	0.71
116_H	119_A	0.536	0.71
282_R	299_I	0.536	0.71
11_G	118_I	0.535	0.71
177_T	227_H	0.533	0.70
100_A	104_L	0.532	0.70
23_I	69_F	0.531	0.70
244_S	247_N	0.530	0.70
219_K	223_I	0.530	0.70
132_V	296_T	0.527	0.70
319_A	323_G	0.526	0.69
189_D	278_N	0.526	0.69
128_V	304_L	0.526	0.69
199_I	244_S	0.525	0.69
139_V	144_H	0.524	0.69
133_F	152_E	0.524	0.69
202_P	248_S	0.523	0.69
202_P	305_C	0.517	0.68
136_L	269_V	0.517	0.68
39_I	48_V	0.517	0.68
220_S	224_N	0.516	0.68
165_D	170_A	0.515	0.68
197_D	240_D	0.515	0.68
326_G	331_N	0.513	0.68
23_I	72_A	0.513	0.68
31_I	72_A	0.513	0.68
18_E	58_V	0.512	0.67
126_R	153_H	0.512	0.67
30_I	127_L	0.510	0.67
156_F	319_A	0.508	0.67
147_L	260_A	0.506	0.66
139_V	335_G	0.506	0.66
12_I	104_L	0.505	0.66
183_P	186_P	0.504	0.66
72_A	78_D	0.503	0.66
312_I	315_A	0.503	0.66
225_T	241_L	0.503	0.66
321_E	325_R	0.503	0.66
56_H	276_A	0.503	0.66
222_V	244_S	0.503	0.66
122_I	148_V	0.503	0.66
10_L	23_I	0.502	0.66
15_S	309_A	0.502	0.66
90_L	183_P	0.500	0.66

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
3en9A	1	0.9422	100	0.342	Contact Map
4k25A	2	0.9277	100	0.371	Contact Map
3zeuB	1	0.9682	100	0.424	Contact Map
2ivnA	1	0.9364	100	0.447	Contact Map
3enoA	1	0.9451	100	0.457	Contact Map
3venA	1	0.9249	100	0.489	Contact Map
3vthA	1	0.8353	100	0.596	Contact Map
4g9iA	1	0.8555	100	0.624	Contact Map
3ttcA	1	0.815	100	0.631	Contact Map
4m7xA	2	0.7514	100	0.681	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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