AVTA - ECOLI - GREMLIN Contacts

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AVTA - Valine--pyruvate aminotransferase

UniProt:	P09053	Sequences: MTFSLFGDKFTRHSGITLLMEDLNDGLRTPGAIMLGGGNPAQIPEMQDYFQTLLTDMLESGKATDALCNYDGPQGKTELLTLLAGMLREKLGWDIEPQNIALTNGSQSAFFYLFNLFAGRRADGRVKKVLFPLAPEYIGYADAGLEEDLFVSARPNIELLPEGQFKYHVDFEHLHIGEETGMICVSRPTNPTGNVITDEELLKLDALANQHGIPLVIDNAYGVPFPGIIFSEARPLWNPNIVLCMSLSKLGLPGSRCGIIIANEKIITAITNMNGIISLAPGGIGPAMMCEMIKRNDLLRLSETVIKPFYYQRVQETIAIIRRYLPENRCLIHKPEGAIFLWLWFKDLPITTKQLYQRLKARGVLMVPGHNFFPGLDKPWPHTHQCMRMNYVPEPEKIEAGVKILAEEIERAWAESH	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10107
Length:	417 (349)
Sequences:	41653 (28695)
Seq/√Len:	1536.0

ECOLI - AVTA YDCR YJIR YBDL ALAC ALAA MALY HIS8
BACSU - YDFD YISV PATA AAT2 YCXD AAT1 YDEF GABR YUGH YHDI YDEL MTNE CBL AAT3 HIS8
HALSA - Q9HQK2 Q9HRM6 Q9HRX4 Q9HQW2 HIS8 Q9HPL0
SULSO - AAT Y104 Q97TY7 Q97YX5 HIS8 Q97ZX4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
173_H	210_Q	3.136	1.00
55_T	59_E	3.127	1.00
312_Q	395_P	3.000	1.00
362_R	407_E	2.952	1.00
103_T	109_A	2.886	1.00
311_Y	315_Q	2.842	1.00
198_D	202_L	2.801	1.00
128_K	151_V	2.764	1.00
400_A	404_I	2.685	1.00
316_E	399_E	2.683	1.00
331_L	344_W	2.601	1.00
82_L	294_K	2.480	1.00
48_D	52_T	2.475	1.00
358_R	361_A	2.462	1.00
118_A	150_F	2.414	1.00
88_R	94_D	2.386	1.00
262_A	267_I	2.322	1.00
78_E	290_C	2.257	1.00
320_I	402_V	2.185	1.00
400_A	403_K	2.135	1.00
351_T	354_Q	2.100	1.00
257_C	289_M	2.081	1.00
111_F	115_N	2.075	1.00
202_L	206_A	2.034	1.00
197_T	200_E	2.032	1.00
212_G	240_N	1.995	1.00
52_T	56_D	1.992	1.00
81_T	85_G	1.963	1.00
35_L	401_G	1.940	1.00
170_D	203_K	1.919	1.00
158_E	200_E	1.890	1.00
354_Q	358_R	1.884	1.00
85_G	294_K	1.865	1.00
319_A	323_R	1.861	1.00
208_A	215_L	1.854	1.00
320_I	323_R	1.817	1.00
122_A	181_G	1.817	1.00
320_I	403_K	1.814	1.00
171_F	175_H	1.808	1.00
166_K	200_E	1.804	1.00
173_H	203_K	1.792	1.00
113_L	242_V	1.765	1.00
81_T	97_P	1.747	1.00
322_R	332_I	1.732	1.00
315_Q	319_A	1.717	1.00
220_A	246_S	1.716	1.00
318_I	322_R	1.714	1.00
84_A	97_P	1.708	1.00
316_E	395_P	1.696	1.00
56_D	291_E	1.670	1.00
216_V	244_C	1.668	1.00
320_I	406_A	1.659	1.00
316_E	320_I	1.650	1.00
168_H	171_F	1.643	1.00
128_K	177_G	1.625	1.00
113_L	216_V	1.617	1.00
77_T	81_T	1.612	1.00
317_T	341_L	1.597	1.00
203_K	206_A	1.596	1.00
106_S	244_C	1.595	1.00
366_M	387_M	1.589	1.00
394_E	397_K	1.588	1.00
128_K	180_T	1.588	1.00
128_K	153_A	1.583	1.00
145_L	150_F	1.575	1.00
95_I	261_I	1.566	1.00
99_N	264_E	1.560	1.00
352_T	370_H	1.560	1.00
51_Q	55_T	1.544	1.00
87_L	261_I	1.543	1.00
320_I	324_Y	1.531	1.00
134_A	154_R	1.524	1.00
206_A	210_Q	1.515	1.00
182_M	216_V	1.495	1.00
318_I	334_K	1.484	1.00
395_P	399_E	1.480	1.00
78_E	294_K	1.480	1.00
199_E	202_L	1.478	1.00
342_W	369_G	1.469	1.00
173_H	211_H	1.451	1.00
317_T	402_V	1.446	1.00
208_A	213_I	1.446	1.00
82_L	85_G	1.443	1.00
260_I	270_I	1.432	1.00
171_F	174_L	1.432	1.00
323_R	406_A	1.416	1.00
242_V	262_A	1.415	1.00
169_V	207_L	1.408	1.00
83_L	259_I	1.406	1.00
141_A	146_E	1.397	1.00
247_L	289_M	1.396	1.00
318_I	341_L	1.395	1.00
176_I	180_T	1.391	1.00
282_G	285_G	1.379	1.00
128_K	179_E	1.371	1.00
309_F	395_P	1.370	1.00
362_R	404_I	1.367	1.00
169_V	203_K	1.364	1.00
98_Q	264_E	1.363	1.00
83_L	102_L	1.361	1.00
134_A	156_N	1.341	1.00
318_I	332_I	1.333	1.00
207_L	211_H	1.332	1.00
357_Q	360_K	1.324	1.00
309_F	312_Q	1.305	1.00
403_K	407_E	1.304	1.00
303_E	308_P	1.298	1.00
358_R	408_E	1.294	1.00
82_L	290_C	1.294	1.00
52_T	55_T	1.291	1.00
85_G	89_E	1.283	1.00
207_L	213_I	1.278	1.00
53_L	291_E	1.274	1.00
76_K	287_A	1.266	1.00
399_E	403_K	1.263	1.00
324_Y	406_A	1.257	1.00
54_L	58_L	1.255	1.00
74_Q	271_T	1.253	1.00
54_L	288_M	1.251	1.00
114_F	118_A	1.248	1.00
101_A	267_I	1.247	1.00
156_N	171_F	1.245	1.00
206_A	209_N	1.244	1.00
303_E	307_K	1.243	1.00
308_P	311_Y	1.240	1.00
351_T	384_H	1.230	1.00
51_Q	59_E	1.223	1.00
359_L	405_L	1.221	1.00
74_Q	80_L	1.215	1.00
30_P	363_G	1.207	1.00
158_E	168_H	1.206	1.00
80_L	84_A	1.206	1.00
355_L	358_R	1.206	1.00
344_W	386_C	1.205	1.00
114_F	145_L	1.202	1.00
83_L	100_I	1.201	1.00
357_Q	361_A	1.198	1.00
200_E	203_K	1.192	1.00
274_N	278_S	1.191	1.00
269_A	272_N	1.190	1.00
108_S	274_N	1.175	1.00
354_Q	357_Q	1.175	1.00
296_N	300_R	1.172	1.00
177_G	180_T	1.171	1.00
245_M	259_I	1.169	1.00
87_L	259_I	1.169	1.00
290_C	294_K	1.169	1.00
343_L	389_M	1.152	1.00
346_K	385_Q	1.148	1.00
114_F	184_C	1.146	1.00
56_D	60_S	1.145	1.00
308_P	312_Q	1.143	1.00
78_E	287_A	1.134	1.00
314_V	318_I	1.132	1.00
198_D	231_S	1.131	1.00
51_Q	58_L	1.118	1.00
118_A	129_V	1.113	1.00
115_N	148_D	1.102	1.00
26_G	29_T	1.100	1.00
48_D	51_Q	1.097	1.00
309_F	313_R	1.094	1.00
96_E	264_E	1.093	1.00
199_E	203_K	1.086	1.00
235_P	238_N	1.085	1.00
116_L	273_M	1.084	1.00
84_A	100_I	1.083	1.00
104_N	108_S	1.076	1.00
131_F	152_S	1.074	1.00
344_W	385_Q	1.072	1.00
242_V	260_I	1.071	1.00
320_I	399_E	1.069	1.00
205_D	237_W	1.066	1.00
239_P	263_N	1.066	1.00
291_E	294_K	1.065	1.00
356_Y	366_M	1.058	1.00
353_K	357_Q	1.051	1.00
268_T	272_N	1.045	1.00
205_D	215_L	1.045	1.00
322_R	334_K	1.043	1.00
78_E	81_T	1.042	1.00
130_L	155_P	1.041	1.00
77_T	80_L	1.036	1.00
112_Y	274_N	1.034	1.00
317_T	398_I	1.034	1.00
96_E	99_N	1.033	1.00
314_V	391_Y	1.033	1.00
173_H	207_L	1.030	1.00
319_A	399_E	1.029	1.00
77_T	97_P	1.027	1.00
99_N	267_I	1.022	1.00
141_A	154_R	1.019	1.00
352_T	385_Q	1.016	1.00
209_N	239_P	1.015	1.00
49_Y	295_R	1.007	1.00
53_L	56_D	1.004	1.00
364_V	405_L	1.003	1.00
389_M	401_G	1.002	1.00
145_L	152_S	1.001	1.00
397_K	400_A	1.001	1.00
170_D	174_L	1.001	1.00
84_A	96_E	0.999	1.00
119_G	122_A	0.993	1.00
79_L	102_L	0.992	1.00
359_L	366_M	0.986	1.00
109_A	244_C	0.984	1.00
355_L	387_M	0.983	1.00
214_P	242_V	0.981	1.00
324_Y	329_R	0.980	1.00
236_L	239_P	0.979	1.00
117_F	214_P	0.976	1.00
120_R	149_L	0.973	1.00
226_P	336_E	0.971	1.00
396_E	399_E	0.969	1.00
155_P	175_H	0.968	1.00
40_P	310_Y	0.967	1.00
53_L	57_M	0.963	1.00
209_N	238_N	0.961	1.00
324_Y	403_K	0.955	1.00
353_K	370_H	0.947	1.00
116_L	270_I	0.941	1.00
330_C	343_L	0.939	1.00
104_N	282_G	0.937	1.00
100_I	261_I	0.935	1.00
221_Y	340_F	0.934	1.00
291_E	295_R	0.933	1.00
214_P	240_N	0.933	1.00
205_D	241_I	0.927	1.00
352_T	356_Y	0.926	1.00
146_E	152_S	0.924	1.00
233_A	241_I	0.923	1.00
109_A	260_I	0.923	1.00
113_L	270_I	0.919	1.00
244_C	260_I	0.918	1.00
99_N	238_N	0.917	1.00
31_G	363_G	0.915	1.00
324_Y	402_V	0.897	1.00
101_A	270_I	0.897	1.00
316_E	319_A	0.896	1.00
44_P	309_F	0.895	1.00
330_C	345_F	0.894	1.00
319_A	322_R	0.891	1.00
106_S	220_A	0.889	1.00
315_Q	334_K	0.888	1.00
35_L	398_I	0.883	1.00
358_R	362_R	0.883	1.00
136_E	186_S	0.882	1.00
313_R	395_P	0.881	1.00
158_E	171_F	0.877	1.00
107_Q	139_G	0.876	1.00
76_K	290_C	0.876	1.00
106_S	246_S	0.875	1.00
305_V	308_P	0.869	1.00
86_M	91_L	0.869	1.00
215_L	233_A	0.865	1.00
317_T	320_I	0.864	1.00
202_L	237_W	0.861	1.00
52_T	59_E	0.860	1.00
316_E	402_V	0.858	1.00
267_I	271_T	0.858	1.00
167_Y	200_E	0.840	1.00
264_E	268_T	0.840	1.00
314_V	335_P	0.836	1.00
234_R	237_W	0.828	1.00
56_D	59_E	0.825	1.00
393_P	397_K	0.825	1.00
169_V	204_L	0.824	1.00
129_V	145_L	0.820	1.00
214_P	266_I	0.819	1.00
313_R	316_E	0.819	1.00
169_V	200_E	0.819	1.00
274_N	281_P	0.815	1.00
105_G	256_R	0.815	1.00
49_Y	291_E	0.814	1.00
79_L	83_L	0.814	1.00
366_M	389_M	0.813	1.00
158_E	163_G	0.812	1.00
224_P	227_G	0.811	1.00
108_S	278_S	0.809	1.00
362_R	408_E	0.808	1.00
163_G	171_F	0.808	1.00
209_N	240_N	0.808	1.00
219_N	243_L	0.807	1.00
118_A	122_A	0.805	1.00
305_V	309_F	0.803	1.00
31_G	397_K	0.802	1.00
130_L	180_T	0.800	1.00
130_L	172_E	0.797	1.00
165_F	197_T	0.794	1.00
242_V	266_I	0.790	1.00
122_A	180_T	0.789	1.00
47_Q	50_F	0.786	1.00
317_T	391_Y	0.786	1.00
198_D	229_I	0.784	1.00
364_V	404_I	0.783	1.00
262_A	270_I	0.782	1.00
170_D	173_H	0.782	1.00
224_P	230_F	0.780	1.00
176_I	207_L	0.778	1.00
31_G	400_A	0.773	1.00
57_M	288_M	0.773	1.00
89_E	297_D	0.772	1.00
345_F	387_M	0.771	1.00
117_F	182_M	0.768	1.00
49_Y	52_T	0.765	1.00
247_L	259_I	0.763	1.00
257_C	281_P	0.762	1.00
226_P	314_V	0.761	1.00
331_L	346_K	0.759	1.00
86_M	250_L	0.759	1.00
209_N	236_L	0.757	1.00
134_A	375_G	0.755	1.00
237_W	241_I	0.755	1.00
85_G	88_R	0.752	1.00
287_A	290_C	0.749	1.00
107_Q	137_Y	0.748	1.00
49_Y	297_D	0.747	1.00
312_Q	315_Q	0.746	1.00
356_Y	368_P	0.745	1.00
130_L	175_H	0.743	1.00
140_Y	183_I	0.740	1.00
67_L	287_A	0.736	1.00
114_F	182_M	0.736	1.00
355_L	359_L	0.735	1.00
108_S	112_Y	0.730	1.00
306_I	310_Y	0.730	1.00
315_Q	318_I	0.726	1.00
226_P	311_Y	0.724	1.00
112_Y	273_M	0.723	1.00
183_I	213_I	0.721	1.00
38_G	221_Y	0.721	1.00
316_E	398_I	0.720	1.00
80_L	97_P	0.720	1.00
172_E	207_L	0.719	1.00
239_P	265_K	0.717	1.00
46_M	50_F	0.716	1.00
353_K	368_P	0.716	1.00
229_I	232_E	0.716	1.00
352_T	368_P	0.715	1.00
101_A	260_I	0.714	1.00
190_N	221_Y	0.713	1.00
369_G	386_C	0.713	1.00
364_V	401_G	0.710	1.00
237_W	240_N	0.708	1.00
168_H	200_E	0.708	1.00
169_V	173_H	0.704	1.00
41_A	313_R	0.703	1.00
131_F	145_L	0.702	1.00
113_L	244_C	0.700	1.00
114_F	150_F	0.698	1.00
238_N	241_I	0.698	1.00
82_L	293_I	0.698	1.00
54_L	284_I	0.695	1.00
102_L	286_P	0.694	1.00
356_Y	387_M	0.692	1.00
153_A	177_G	0.691	1.00
45_E	51_Q	0.690	1.00
91_L	222_G	0.689	1.00
34_M	39_N	0.688	1.00
158_E	164_Q	0.686	1.00
140_Y	145_L	0.684	1.00
102_L	257_C	0.684	1.00
103_T	260_I	0.683	1.00
355_L	408_E	0.681	1.00
129_V	150_F	0.680	1.00
112_Y	270_I	0.678	1.00
317_T	389_M	0.676	1.00
165_F	200_E	0.674	1.00
86_M	222_G	0.674	1.00
84_A	95_I	0.674	1.00
209_N	237_W	0.671	1.00
352_T	355_L	0.669	1.00
301_L	306_I	0.667	1.00
128_K	176_I	0.665	1.00
323_R	399_E	0.664	1.00
157_I	189_T	0.663	1.00
184_C	216_V	0.661	1.00
257_C	285_G	0.656	1.00
142_D	146_E	0.650	1.00
369_G	372_F	0.647	1.00
60_S	291_E	0.644	1.00
312_Q	316_E	0.644	1.00
155_P	171_F	0.644	1.00
134_A	373_F	0.643	1.00
185_V	201_L	0.642	1.00
53_L	288_M	0.642	1.00
114_F	148_D	0.642	1.00
189_T	192_T	0.641	1.00
55_T	58_L	0.638	1.00
343_L	386_C	0.637	1.00
87_L	243_L	0.637	1.00
195_V	337_G	0.637	1.00
228_I	336_E	0.636	1.00
46_M	49_Y	0.634	1.00
225_F	311_Y	0.632	1.00
50_F	292_M	0.630	1.00
342_W	386_C	0.628	1.00
111_F	143_A	0.628	1.00
208_A	212_G	0.627	1.00
403_K	406_A	0.626	1.00
75_G	80_L	0.625	1.00
107_Q	279_L	0.625	1.00
359_L	408_E	0.624	1.00
49_Y	301_L	0.619	1.00
46_M	301_L	0.619	1.00
230_F	233_A	0.616	1.00
215_L	237_W	0.612	1.00
110_F	143_A	0.611	1.00
301_L	305_V	0.605	1.00
321_I	343_L	0.605	1.00
166_K	197_T	0.603	1.00
223_V	307_K	0.602	1.00
50_F	252_L	0.601	1.00
198_D	235_P	0.601	1.00
132_P	167_Y	0.601	1.00
111_F	148_D	0.596	1.00
101_A	262_A	0.594	1.00
188_P	337_G	0.593	1.00
101_A	271_T	0.593	1.00
332_I	341_L	0.593	1.00
187_R	219_N	0.591	1.00
225_F	314_V	0.590	1.00
36_G	365_L	0.590	1.00
217_I	243_L	0.590	1.00
331_L	347_D	0.589	1.00
330_C	409_I	0.587	1.00
33_I	400_A	0.585	1.00
46_M	51_Q	0.583	1.00
404_I	407_E	0.582	1.00
263_N	266_I	0.582	1.00
180_T	213_I	0.581	1.00
262_A	266_I	0.580	1.00
118_A	182_M	0.580	1.00
302_S	307_K	0.579	1.00
153_A	175_H	0.579	1.00
81_T	294_K	0.579	1.00
344_W	347_D	0.578	1.00
297_D	300_R	0.577	1.00
350_I	358_R	0.576	1.00
248_S	256_R	0.576	1.00
225_F	391_Y	0.575	1.00
121_R	151_V	0.574	1.00
89_E	294_K	0.571	1.00
271_T	274_N	0.571	1.00
172_E	183_I	0.571	1.00
265_K	268_T	0.571	1.00
196_I	200_E	0.569	1.00
38_G	340_F	0.569	1.00
130_L	179_E	0.568	1.00
287_A	291_E	0.568	1.00
398_I	401_G	0.567	1.00
76_K	286_P	0.566	1.00
227_G	230_F	0.566	1.00
118_A	181_G	0.565	1.00
164_Q	336_E	0.565	1.00
187_R	195_V	0.565	1.00
314_V	334_K	0.564	1.00
208_A	211_H	0.561	1.00
288_M	291_E	0.560	1.00
122_A	179_E	0.560	1.00
104_N	281_P	0.560	1.00
247_L	293_I	0.559	1.00
131_F	141_A	0.557	1.00
400_A	407_E	0.557	1.00
80_L	98_Q	0.556	1.00
322_R	331_L	0.554	1.00
201_L	217_I	0.553	1.00
307_K	311_Y	0.552	1.00
172_E	204_L	0.551	1.00
350_I	355_L	0.548	1.00
71_D	76_K	0.547	1.00
35_L	389_M	0.546	1.00
88_R	92_G	0.545	1.00
236_L	240_N	0.545	1.00
111_F	277_I	0.544	1.00
122_A	128_K	0.542	1.00
29_T	363_G	0.542	1.00
26_G	30_P	0.542	1.00
167_Y	172_E	0.541	1.00
115_N	273_M	0.541	1.00
260_I	267_I	0.541	1.00
33_I	404_I	0.541	1.00
130_L	183_I	0.540	1.00
156_N	168_H	0.539	1.00
313_R	398_I	0.539	1.00
342_W	388_R	0.539	1.00
232_E	243_L	0.538	1.00
79_L	289_M	0.535	1.00
228_I	231_S	0.535	1.00
196_I	201_L	0.535	1.00
320_I	398_I	0.534	1.00
198_D	234_R	0.534	1.00
156_N	175_H	0.534	1.00
114_F	143_A	0.533	1.00
402_V	406_A	0.533	1.00
300_R	305_V	0.531	1.00
310_Y	339_I	0.531	1.00
158_E	165_F	0.527	1.00
329_R	346_K	0.527	1.00
32_A	365_L	0.524	1.00
194_N	336_E	0.523	1.00
205_D	236_L	0.523	1.00
205_D	233_A	0.521	1.00
155_P	167_Y	0.521	1.00
41_A	44_P	0.520	1.00
132_P	155_P	0.520	1.00
283_G	287_A	0.519	1.00
356_Y	360_K	0.519	1.00
268_T	271_T	0.518	1.00
81_T	84_A	0.518	1.00
300_R	303_E	0.516	1.00
183_I	208_A	0.516	1.00
222_G	245_M	0.515	1.00
352_T	387_M	0.514	1.00
76_K	283_G	0.513	1.00
190_N	388_R	0.513	1.00
99_N	262_A	0.509	1.00
131_F	154_R	0.507	1.00
72_G	77_T	0.507	1.00
40_P	313_R	0.506	1.00
129_V	182_M	0.505	1.00
143_A	148_D	0.502	1.00
235_P	239_P	0.502	1.00
71_D	283_G	0.501	1.00
351_T	370_H	0.500	1.00

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
3g7qA	2	0.9185	100	0.305	Contact Map
3if2A	2	0.9928	100	0.306	Contact Map
1vp4A	2	0.9472	100	0.313	Contact Map
2r2nA	2	0.9376	100	0.321	Contact Map
3pplA	2	0.9329	100	0.324	Contact Map
4je5A	2	0.9616	100	0.324	Contact Map
2zc0A	4	0.9329	100	0.327	Contact Map
3ez1A	2	0.9113	100	0.33	Contact Map
3dydA	2	0.8825	100	0.335	Contact Map
2zyjA	2	0.9257	100	0.343	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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