YBDL - ECOLI - GREMLIN Contacts

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YBDL - Methionine aminotransferase

UniProt:	P77806	Sequences: MTNNPLIPQSKLPQLGTTIFTQMSALAQQHQAINLSQGFPDFDGPRYLQERLAHHVAQGANQYAPMTGVQALREAIAQKTERLYGYQPDADSDITVTAGATEALYAAITALVRNGDEVICFDPSYDSYAPAIALSGGIVKRMALQPPHFRVDWQEFAALLSERTRLVILNTPHNPSATVWQQADFAALWQAIAGHEIFVISDEVYEHINFSQQGHASVLAHPQLRERAVAVSSFGKTYHMTGWKVGYCVAPAPISAEIRKVHQYLTFSVNTPAQLALADMLRAEPEHYLALPDFYRQKRDILVNALNESRLEILPCEGTYFLLVDYSAVSTLDDVEFCQWLTQEHGVAAIPLSVFCADPFPHKLIRLCFAKKESTLLAAAERLRQL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13531
Length:	386 (346)
Sequences:	43527 (29710)
Seq/√Len:	1597.2

ECOLI - YBDL ALAC ALAA YDCR YJIR MALY AVTA HIS8
BACSU - PATA YUGH MTNE AAT2 AAT1 YISV YDFD CBL YDEL YDEF YHDI AAT3 YCXD GABR HIS8
HALSA - Q9HQK2 Q9HRM6 Q9HRX4 Q9HQW2 HIS8 Q9HPL0
SULSO - AAT Y104 Q97YX5 Q97TY7 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
53_A	57_A	3.272	1.00
117_E	138_I	3.056	1.00
97_T	103_A	2.901	1.00
75_A	282_R	2.865	1.00
112_V	137_G	2.682	1.00
296_R	300_D	2.674	1.00
297_Q	373_E	2.652	1.00
182_Q	186_A	2.591	1.00
81_E	87_Q	2.584	1.00
312_E	325_D	2.578	1.00
116_D	165_R	2.494	1.00
301_I	377_L	2.435	1.00
71_A	278_A	2.385	1.00
157_A	194_G	2.373	1.00
250_A	255_S	2.361	1.00
340_W	344_E	2.244	1.00
117_E	140_K	2.219	1.00
46_R	50_E	2.197	1.00
105_Y	109_T	2.144	1.00
181_Q	184_D	2.134	1.00
378_A	382_R	2.079	1.00
303_V	307_N	2.076	1.00
303_V	315_P	2.058	1.00
122_D	141_R	1.947	1.00
74_E	90_A	1.934	1.00
245_V	277_L	1.926	1.00
75_A	78_Q	1.917	1.00
305_A	308_E	1.883	1.00
305_A	381_E	1.865	1.00
186_A	190_Q	1.860	1.00
155_E	159_L	1.823	1.00
78_Q	282_R	1.818	1.00
301_I	305_A	1.815	1.00
305_A	309_S	1.799	1.00
372_K	375_T	1.784	1.00
77_A	90_A	1.759	1.00
82_R	285_P	1.756	1.00
200_I	231_V	1.745	1.00
70_Q	74_E	1.741	1.00
50_E	54_H	1.739	1.00
93_D	252_A	1.708	1.00
305_A	380_A	1.708	1.00
49_Q	53_A	1.707	1.00
132_I	137_G	1.703	1.00
333_D	336_E	1.701	1.00
152_D	155_E	1.692	1.00
192_I	199_V	1.684	1.00
157_A	187_A	1.680	1.00
345_H	382_R	1.679	1.00
129_A	133_A	1.672	1.00
54_H	279_D	1.665	1.00
307_N	313_I	1.645	1.00
150_R	184_D	1.643	1.00
155_E	158_A	1.638	1.00
74_E	78_Q	1.632	1.00
107_A	229_V	1.629	1.00
270_N	273_A	1.629	1.00
301_I	373_E	1.618	1.00
117_E	163_R	1.610	1.00
196_E	227_R	1.607	1.00
204_V	233_S	1.606	1.00
304_N	308_E	1.586	1.00
300_D	304_N	1.583	1.00
75_A	278_A	1.579	1.00
118_V	132_I	1.552	1.00
108_I	132_I	1.539	1.00
129_A	141_R	1.533	1.00
122_D	143_A	1.519	1.00
182_Q	216_A	1.517	1.00
153_W	187_A	1.516	1.00
119_I	164_T	1.512	1.00
107_A	200_I	1.508	1.00
336_E	340_W	1.503	1.00
373_E	377_L	1.502	1.00
154_Q	187_A	1.499	1.00
76_I	247_Y	1.496	1.00
187_A	190_Q	1.493	1.00
117_E	161_S	1.486	1.00
378_A	381_E	1.473	1.00
248_C	258_I	1.471	1.00
50_E	53_A	1.454	1.00
100_A	231_V	1.436	1.00
303_V	313_I	1.435	1.00
302_L	322_L	1.430	1.00
184_D	187_A	1.428	1.00
69_V	275_L	1.419	1.00
145_Q	184_D	1.418	1.00
67_T	259_R	1.411	1.00
35_L	379_A	1.410	1.00
166_L	200_I	1.406	1.00
307_N	315_P	1.398	1.00
305_A	377_L	1.396	1.00
88_P	249_V	1.395	1.00
51_R	279_D	1.390	1.00
294_F	373_E	1.389	1.00
294_F	297_Q	1.389	1.00
234_F	277_L	1.381	1.00
349_A	365_I	1.380	1.00
309_S	381_E	1.377	1.00
117_E	164_T	1.377	1.00
114_N	136_G	1.365	1.00
334_D	353_S	1.362	1.00
289_L	293_D	1.359	1.00
80_T	249_V	1.357	1.00
120_C	139_V	1.350	1.00
49_Q	57_A	1.349	1.00
70_Q	90_A	1.339	1.00
303_V	322_L	1.332	1.00
278_A	282_R	1.314	1.00
78_Q	82_R	1.311	1.00
336_E	339_Q	1.306	1.00
52_L	276_A	1.299	1.00
91_D	252_A	1.297	1.00
335_V	353_S	1.297	1.00
160_L	191_A	1.292	1.00
192_I	197_I	1.288	1.00
323_L	352_L	1.285	1.00
157_A	161_S	1.285	1.00
71_A	282_R	1.281	1.00
51_R	54_H	1.280	1.00
325_D	364_L	1.278	1.00
143_A	155_E	1.272	1.00
191_A	195_H	1.272	1.00
375_T	378_A	1.271	1.00
186_A	221_H	1.264	1.00
30_H	346_G	1.260	1.00
325_D	363_K	1.256	1.00
257_E	260_K	1.253	1.00
232_S	247_Y	1.253	1.00
89_D	93_D	1.250	1.00
190_Q	194_G	1.246	1.00
109_T	135_S	1.245	1.00
324_V	367_L	1.238	1.00
52_L	56_V	1.230	1.00
183_A	186_A	1.228	1.00
153_W	191_A	1.221	1.00
119_I	142_M	1.213	1.00
182_Q	220_A	1.205	1.00
95_T	255_S	1.202	1.00
226_E	251_P	1.197	1.00
183_A	187_A	1.195	1.00
302_L	380_A	1.191	1.00
157_A	195_H	1.190	1.00
103_A	248_C	1.189	1.00
191_A	197_I	1.188	1.00
67_T	73_R	1.188	1.00
145_Q	155_E	1.185	1.00
294_F	298_K	1.184	1.00
190_Q	193_A	1.176	1.00
108_I	112_V	1.175	1.00
108_I	168_I	1.173	1.00
98_A	102_E	1.168	1.00
113_R	116_D	1.166	1.00
289_L	292_P	1.162	1.00
256_A	260_K	1.156	1.00
299_R	369_F	1.155	1.00
279_D	282_R	1.153	1.00
71_A	275_L	1.149	1.00
293_D	296_R	1.142	1.00
79_K	285_P	1.138	1.00
193_A	225_R	1.132	1.00
211_S	317_E	1.129	1.00
157_A	191_A	1.126	1.00
182_Q	221_H	1.125	1.00
73_R	77_A	1.121	1.00
299_R	303_V	1.116	1.00
285_P	289_L	1.116	1.00
54_H	58_Q	1.113	1.00
279_D	283_A	1.109	1.00
298_K	301_I	1.108	1.00
102_E	262_H	1.108	1.00
229_V	250_A	1.106	1.00
145_Q	152_D	1.100	1.00
377_L	381_E	1.091	1.00
167_V	197_I	1.090	1.00
198_F	229_V	1.083	1.00
47_Y	50_E	1.081	1.00
110_A	261_V	1.077	1.00
338_C	349_A	1.075	1.00
186_A	224_L	1.062	1.00
76_I	96_V	1.061	1.00
301_I	304_N	1.058	1.00
46_R	49_Q	1.054	1.00
54_H	57_A	1.054	1.00
293_D	297_Q	1.052	1.00
47_Y	283_A	1.051	1.00
158_A	162_E	1.044	1.00
275_L	278_A	1.041	1.00
290_A	294_F	1.038	1.00
161_S	164_T	1.031	1.00
341_L	349_A	1.023	1.00
71_A	74_E	1.018	1.00
72_L	96_V	1.018	1.00
89_D	252_A	1.017	1.00
333_D	362_H	1.015	1.00
262_H	266_T	1.013	1.00
112_V	118_V	1.012	1.00
160_L	197_I	1.011	1.00
80_T	247_Y	1.010	1.00
327_S	363_K	1.010	1.00
217_S	220_A	1.009	1.00
334_D	363_K	1.008	1.00
189_W	228_A	1.004	1.00
312_E	327_S	0.999	1.00
304_N	307_N	0.997	1.00
210_F	296_R	0.996	1.00
229_V	248_C	0.994	1.00
286_E	290_A	0.987	1.00
340_W	345_H	0.983	1.00
132_I	139_V	0.982	1.00
161_S	195_H	0.981	1.00
335_V	339_Q	0.981	1.00
193_A	226_E	0.980	1.00
31_Q	346_G	0.976	1.00
76_I	94_I	0.973	1.00
42_F	294_F	0.966	1.00
300_D	315_P	0.965	1.00
341_L	383_L	0.964	1.00
311_L	326_Y	0.959	1.00
198_F	227_R	0.957	1.00
153_W	157_A	0.943	1.00
77_A	94_I	0.937	1.00
93_D	255_S	0.937	1.00
118_V	166_L	0.937	1.00
106_A	262_H	0.935	1.00
154_Q	158_A	0.930	1.00
142_M	159_L	0.922	1.00
193_A	227_R	0.921	1.00
255_S	259_R	0.918	1.00
50_E	57_A	0.915	1.00
124_S	170_N	0.911	1.00
287_H	290_A	0.909	1.00
94_I	249_V	0.908	1.00
112_V	166_L	0.906	1.00
229_V	254_I	0.902	1.00
111_L	198_F	0.898	1.00
198_F	254_I	0.894	1.00
209_N	215_H	0.893	1.00
128_Y	168_I	0.893	1.00
78_Q	81_E	0.892	1.00
153_W	188_L	0.891	1.00
133_A	139_V	0.891	1.00
77_A	89_D	0.889	1.00
103_A	231_V	0.889	1.00
111_L	166_L	0.888	1.00
290_A	293_D	0.886	1.00
250_A	258_I	0.885	1.00
299_R	316_C	0.884	1.00
286_E	289_L	0.871	1.00
49_Q	56_V	0.870	1.00
231_V	248_C	0.868	1.00
252_A	256_A	0.864	1.00
121_F	151_V	0.862	1.00
95_T	258_I	0.861	1.00
98_A	270_N	0.861	1.00
119_I	159_L	0.859	1.00
326_Y	365_I	0.859	1.00
193_A	224_L	0.851	1.00
70_Q	73_R	0.850	1.00
304_N	377_L	0.849	1.00
302_L	305_A	0.848	1.00
69_V	278_A	0.848	1.00
164_T	197_I	0.843	1.00
100_A	233_S	0.843	1.00
337_F	341_L	0.843	1.00
29_Q	346_G	0.842	1.00
199_V	218_V	0.840	1.00
297_Q	301_I	0.837	1.00
31_Q	375_T	0.835	1.00
347_V	383_L	0.835	1.00
245_V	269_V	0.833	1.00
245_V	273_A	0.833	1.00
335_V	351_P	0.831	1.00
130_P	133_A	0.831	1.00
337_F	365_I	0.830	1.00
287_H	291_L	0.826	1.00
298_K	373_E	0.824	1.00
154_Q	157_A	0.823	1.00
121_F	142_M	0.823	1.00
309_S	380_A	0.818	1.00
102_E	266_T	0.815	1.00
334_D	351_P	0.812	1.00
93_D	225_R	0.811	1.00
79_K	207_H	0.810	1.00
69_V	274_Q	0.807	1.00
47_Y	279_D	0.806	1.00
122_D	358_D	0.802	1.00
100_A	204_V	0.802	1.00
209_N	212_Q	0.802	1.00
110_A	258_I	0.800	1.00
300_D	303_V	0.798	1.00
60_A	275_L	0.796	1.00
311_L	324_V	0.787	1.00
216_A	220_A	0.786	1.00
332_L	336_E	0.781	1.00
106_A	258_I	0.780	1.00
153_W	184_D	0.778	1.00
349_A	367_L	0.775	1.00
338_C	351_P	0.772	1.00
207_H	237_T	0.765	1.00
107_A	258_I	0.764	1.00
102_E	106_A	0.757	1.00
339_Q	344_E	0.756	1.00
189_W	199_V	0.756	1.00
147_P	184_D	0.755	1.00
86_Y	219_L	0.753	1.00
51_R	55_H	0.752	1.00
302_L	369_F	0.751	1.00
101_T	127_S	0.751	1.00
140_K	159_L	0.748	1.00
95_T	248_C	0.745	1.00
47_Y	287_H	0.745	1.00
218_V	228_A	0.745	1.00
142_M	155_E	0.744	1.00
323_L	364_L	0.743	1.00
374_S	377_L	0.743	1.00
43_D	49_Q	0.742	1.00
144_L	173_H	0.742	1.00
160_L	164_T	0.741	1.00
52_L	272_P	0.740	1.00
218_V	221_H	0.737	1.00
40_P	295_Y	0.737	1.00
109_T	261_V	0.736	1.00
297_Q	300_D	0.734	1.00
219_L	230_A	0.733	1.00
122_D	356_C	0.732	1.00
201_S	218_V	0.730	1.00
288_Y	292_P	0.728	1.00
237_T	288_Y	0.726	1.00
73_R	90_A	0.725	1.00
173_H	176_S	0.723	1.00
105_Y	135_S	0.720	1.00
189_W	224_L	0.718	1.00
119_I	156_F	0.717	1.00
79_K	84_Y	0.714	1.00
55_H	58_Q	0.710	1.00
371_K	375_T	0.710	1.00
352_L	355_F	0.709	1.00
117_E	165_R	0.708	1.00
79_K	238_Y	0.707	1.00
211_S	296_R	0.704	1.00
120_C	132_I	0.699	1.00
118_V	137_G	0.693	1.00
308_E	377_L	0.686	1.00
271_T	275_L	0.684	1.00
77_A	88_P	0.682	1.00
203_E	230_A	0.678	1.00
332_L	340_W	0.676	1.00
55_H	276_A	0.675	1.00
119_I	167_V	0.674	1.00
334_D	338_C	0.673	1.00
75_A	281_L	0.673	1.00
275_L	279_D	0.672	1.00
140_K	164_T	0.671	1.00
112_V	116_D	0.670	1.00
160_L	195_H	0.669	1.00
250_A	254_I	0.668	1.00
296_R	299_R	0.667	1.00
291_L	295_Y	0.665	1.00
193_A	223_Q	0.660	1.00
299_R	315_P	0.660	1.00
35_L	376_L	0.657	1.00
97_T	248_C	0.657	1.00
150_R	181_Q	0.657	1.00
253_P	256_A	0.656	1.00
151_V	184_D	0.655	1.00
84_Y	206_E	0.651	1.00
292_P	296_R	0.650	1.00
121_F	173_H	0.650	1.00
145_Q	150_R	0.649	1.00
44_G	47_Y	0.648	1.00
324_V	364_L	0.641	1.00
224_L	227_R	0.639	1.00
180_W	184_D	0.638	1.00
156_F	191_A	0.637	1.00
234_F	247_Y	0.637	1.00
128_Y	132_I	0.636	1.00
169_L	185_F	0.633	1.00
105_Y	265_L	0.633	1.00
178_T	317_E	0.630	1.00
95_T	259_R	0.629	1.00
206_E	232_S	0.628	1.00
99_G	244_K	0.627	1.00
313_I	322_L	0.624	1.00
259_R	262_H	0.624	1.00
108_I	166_L	0.619	1.00
306_L	324_V	0.618	1.00
115_G	138_I	0.615	1.00
58_Q	279_D	0.614	1.00
68_G	73_R	0.613	1.00
105_Y	131_A	0.612	1.00
44_G	48_L	0.612	1.00
145_Q	148_H	0.612	1.00
140_K	161_S	0.609	1.00
210_F	299_R	0.608	1.00
158_A	161_S	0.605	1.00
65_P	70_Q	0.604	1.00
146_P	312_E	0.604	1.00
205_Y	321_F	0.603	1.00
347_V	382_R	0.600	1.00
120_C	141_R	0.600	1.00
302_L	376_L	0.600	1.00
156_F	167_V	0.599	1.00
95_T	250_A	0.598	1.00
332_L	337_F	0.595	1.00
146_P	325_D	0.595	1.00
96_V	245_V	0.595	1.00
256_A	259_R	0.595	1.00
274_Q	278_A	0.593	1.00
74_E	77_A	0.593	1.00
147_P	155_E	0.593	1.00
116_D	163_R	0.590	1.00
73_R	259_R	0.589	1.00
180_W	185_F	0.589	1.00
171_T	203_E	0.587	1.00
143_A	159_L	0.586	1.00
101_T	125_Y	0.586	1.00
34_N	39_F	0.585	1.00
234_F	281_L	0.585	1.00
374_S	378_A	0.585	1.00
216_A	221_H	0.585	1.00
203_E	206_E	0.583	1.00
187_A	191_A	0.582	1.00
291_L	294_F	0.581	1.00
179_V	209_N	0.581	1.00
104_L	131_A	0.580	1.00
276_A	279_D	0.578	1.00
72_L	76_I	0.578	1.00
53_A	56_V	0.576	1.00
168_I	200_I	0.575	1.00
342_T	348_A	0.575	1.00
55_H	275_L	0.574	1.00
238_Y	285_P	0.574	1.00
172_P	318_G	0.574	1.00
71_A	75_A	0.573	1.00
80_T	230_A	0.573	1.00
64_A	69_V	0.573	1.00
208_I	295_Y	0.573	1.00
262_H	269_V	0.573	1.00
203_E	217_S	0.571	1.00
108_I	137_G	0.570	1.00
353_S	362_H	0.568	1.00
32_A	348_A	0.566	1.00
251_P	254_I	0.565	1.00
113_R	165_R	0.564	1.00
157_A	160_L	0.564	1.00
48_L	280_M	0.563	1.00
213_Q	317_E	0.563	1.00
47_Y	51_R	0.560	1.00
223_Q	226_E	0.560	1.00
108_I	135_S	0.560	1.00
325_D	328_A	0.559	1.00
110_A	257_E	0.558	1.00
45_P	48_L	0.558	1.00
34_N	37_Q	0.557	1.00
72_L	277_L	0.556	1.00
216_A	219_L	0.555	1.00
211_S	299_R	0.554	1.00
29_Q	32_A	0.553	1.00
47_Y	286_E	0.551	1.00
98_A	269_V	0.550	1.00
46_R	57_A	0.550	1.00
159_L	162_E	0.548	1.00
225_R	228_A	0.548	1.00
253_P	257_E	0.548	1.00
316_C	319_T	0.544	1.00
352_L	364_L	0.544	1.00
150_R	178_T	0.544	1.00
108_I	131_A	0.542	1.00
167_V	192_I	0.542	1.00
120_C	129_A	0.538	1.00
302_L	367_L	0.536	1.00
151_V	156_F	0.536	1.00
192_I	196_E	0.535	1.00
161_S	194_G	0.534	1.00
31_Q	378_A	0.534	1.00
33_I	382_R	0.534	1.00
367_L	376_L	0.533	1.00
166_L	198_F	0.533	1.00
347_V	379_A	0.532	1.00
143_A	152_D	0.531	1.00
338_C	341_L	0.531	1.00
147_P	181_Q	0.530	1.00
185_F	218_V	0.530	1.00
103_A	246_G	0.528	1.00
126_D	354_V	0.527	1.00
48_L	240_M	0.526	1.00
226_E	253_P	0.526	1.00
44_G	49_Q	0.526	1.00
79_K	206_E	0.525	1.00
88_P	93_D	0.525	1.00
314_L	325_D	0.524	1.00
36_S	348_A	0.522	1.00
215_H	218_V	0.521	1.00
69_V	271_T	0.520	1.00
171_T	179_V	0.520	1.00
220_A	223_Q	0.520	1.00
301_I	374_S	0.519	1.00
164_T	167_V	0.519	1.00
45_P	49_Q	0.519	1.00
333_D	337_F	0.518	1.00
146_P	314_L	0.517	1.00
75_A	79_K	0.516	1.00
338_C	342_T	0.516	1.00
42_F	45_P	0.516	1.00
312_E	328_A	0.515	1.00
338_C	365_I	0.512	1.00
208_I	292_P	0.510	1.00
217_S	230_A	0.509	1.00
333_D	353_S	0.509	1.00
106_A	261_V	0.507	1.00
109_T	265_L	0.506	1.00
51_R	276_A	0.506	1.00
141_R	357_A	0.505	1.00
191_A	194_G	0.505	1.00
39_F	62_Q	0.505	1.00
201_S	230_A	0.504	1.00
121_F	144_L	0.501	1.00
107_A	231_V	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
1u08A	2	0.987	100	0.256	Contact Map
1yizA	2	0.987	100	0.276	Contact Map
3e2yA	2	0.9793	100	0.277	Contact Map
2o0rA	2	0.9845	100	0.285	Contact Map
4my5A	2	0.9845	100	0.287	Contact Map
2o1bA	2	0.9482	100	0.288	Contact Map
1vp4A	2	0.9793	100	0.288	Contact Map
1gd9A	2	0.9767	100	0.291	Contact Map
2x5dA	3	0.9482	100	0.293	Contact Map
3piuA	2	0.9585	100	0.295	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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