YUGH - BACSU - GREMLIN Contacts

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YUGH - Putative aminotransferase YugH

UniProt:	Q795M6	Sequences: MTSYLSDYVQQIKPSGIRKFFDLAATMEGVISLGVGEPDFVTAWNVREASILSLEQGYTSYTANAGLYSLREEISRYLSNRFDLSYSPDNELIVTVGASQALDIAIRAIVNPGEEVIIPEPCFVAYDALVSLAGGIPVHVHTTADKGFKATAADFEAAVTEKTKAILICSPSNPTGSVYSKEELNEIAEFAKKHDVIVLADEIYAELTYDEEFTSIAALPGMKERTVVISGFSKAFAMTGWRLGFAAAPSLLRDAMLKIHQYAMMCAPAMAQFAALEGLKNGMEDVEKMKKSYRRRRNLFVESLNEIGLSCHHPGGAFYAFPSIKSMGMSSEQFAEELLTQEKVAVVPGSVFGPSGEGYIRCSYATSIEQLQEALVRMKRFLHKTT	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	386 (348)
Sequences:	43511 (29739)
Seq/√Len:	1594.2

ECOLI - YBDL ALAC ALAA AVTA YJIR MALY YDCR HIS8
BACSU - YUGH PATA AAT1 AAT2 MTNE YDFD YISV AAT3 CBL YDEF YCXD YHDI GABR YDEL 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
51_I	55_E	3.181	1.00
115_E	136_I	2.964	1.00
95_T	101_A	2.863	1.00
73_E	280_K	2.797	1.00
299_L	372_Q	2.741	1.00
342_E	380_R	2.711	1.00
294_R	298_N	2.700	1.00
110_V	135_G	2.641	1.00
310_S	323_S	2.634	1.00
181_K	185_N	2.571	1.00
79_S	85_S	2.514	1.00
156_E	193_K	2.444	1.00
295_R	368_I	2.433	1.00
114_E	164_K	2.421	1.00
248_A	253_R	2.358	1.00
69_S	276_L	2.328	1.00
373_E	377_R	2.272	1.00
337_E	341_Q	2.245	1.00
44_W	48_E	2.227	1.00
103_D	107_R	2.091	1.00
115_E	138_V	2.084	1.00
180_S	183_E	2.077	1.00
301_V	305_N	1.992	1.00
303_S	306_E	1.978	1.00
303_S	375_L	1.920	1.00
72_E	88_P	1.912	1.00
243_L	275_A	1.888	1.00
120_E	139_H	1.867	1.00
185_N	189_E	1.864	1.00
80_N	283_M	1.848	1.00
301_V	313_H	1.830	1.00
73_E	76_R	1.807	1.00
76_R	280_K	1.794	1.00
149_K	183_E	1.770	1.00
48_E	52_L	1.767	1.00
154_D	158_A	1.757	1.00
330_S	333_Q	1.742	1.00
68_Y	72_E	1.728	1.00
299_L	303_S	1.725	1.00
130_V	135_G	1.719	1.00
303_S	379_K	1.714	1.00
75_S	88_P	1.714	1.00
303_S	307_I	1.711	1.00
373_E	376_V	1.710	1.00
199_L	229_I	1.707	1.00
156_E	186_E	1.707	1.00
47_R	51_I	1.684	1.00
154_D	157_A	1.684	1.00
151_T	154_D	1.665	1.00
91_E	250_S	1.657	1.00
191_A	198_V	1.645	1.00
127_D	131_S	1.645	1.00
367_S	370_Q	1.629	1.00
52_L	277_E	1.623	1.00
72_E	76_R	1.611	1.00
337_E	381_F	1.609	1.00
302_E	306_E	1.607	1.00
303_S	376_V	1.601	1.00
305_N	311_C	1.596	1.00
195_D	225_R	1.592	1.00
203_I	231_G	1.592	1.00
105_A	227_V	1.587	1.00
298_N	302_E	1.581	1.00
342_E	377_R	1.576	1.00
299_L	368_I	1.568	1.00
115_E	162_K	1.561	1.00
268_P	271_A	1.557	1.00
116_V	130_V	1.529	1.00
73_E	276_L	1.528	1.00
336_E	340_T	1.521	1.00
33_L	374_A	1.514	1.00
153_A	186_E	1.511	1.00
106_I	130_V	1.505	1.00
74_I	245_F	1.497	1.00
105_A	199_L	1.495	1.00
333_Q	337_E	1.483	1.00
115_E	160_T	1.473	1.00
143_T	183_E	1.469	1.00
186_E	189_E	1.466	1.00
246_A	256_M	1.461	1.00
127_D	139_H	1.460	1.00
300_F	320_A	1.456	1.00
181_K	214_T	1.456	1.00
152_A	186_E	1.455	1.00
120_E	141_H	1.451	1.00
115_E	163_T	1.445	1.00
307_I	379_K	1.431	1.00
48_E	51_I	1.424	1.00
98_A	229_I	1.422	1.00
165_A	199_L	1.414	1.00
117_I	163_T	1.404	1.00
301_V	311_C	1.399	1.00
287_E	291_K	1.394	1.00
67_L	273_F	1.390	1.00
86_Y	247_A	1.385	1.00
346_V	360_I	1.382	1.00
306_E	379_K	1.380	1.00
65_A	257_L	1.376	1.00
183_E	186_E	1.372	1.00
49_A	277_E	1.356	1.00
331_S	350_S	1.352	1.00
301_V	320_A	1.350	1.00
292_S	295_R	1.348	1.00
321_F	349_G	1.343	1.00
78_L	247_A	1.337	1.00
232_F	275_A	1.325	1.00
118_I	137_P	1.325	1.00
159_V	190_F	1.324	1.00
333_Q	336_E	1.301	1.00
47_R	55_E	1.299	1.00
76_R	80_N	1.296	1.00
152_A	190_F	1.290	1.00
191_A	196_V	1.289	1.00
276_L	280_K	1.288	1.00
300_F	375_L	1.286	1.00
89_D	250_S	1.283	1.00
112_P	134_G	1.282	1.00
68_Y	88_P	1.279	1.00
292_S	368_I	1.277	1.00
303_S	372_Q	1.272	1.00
156_E	194_H	1.267	1.00
332_E	350_S	1.267	1.00
69_S	280_K	1.265	1.00
189_E	193_K	1.259	1.00
28_E	343_K	1.254	1.00
323_S	359_Y	1.249	1.00
49_A	52_L	1.248	1.00
181_K	218_A	1.245	1.00
141_H	154_D	1.242	1.00
182_E	185_N	1.235	1.00
230_S	245_F	1.230	1.00
50_S	274_A	1.228	1.00
255_A	258_K	1.226	1.00
52_L	56_Q	1.225	1.00
87_S	91_E	1.221	1.00
323_S	358_G	1.209	1.00
322_P	362_C	1.203	1.00
156_E	190_F	1.195	1.00
190_F	196_V	1.193	1.00
190_F	194_H	1.192	1.00
189_E	192_K	1.192	1.00
305_N	313_H	1.190	1.00
156_E	160_T	1.188	1.00
372_Q	376_V	1.185	1.00
50_S	54_L	1.182	1.00
107_R	133_A	1.180	1.00
106_I	110_V	1.178	1.00
117_I	140_V	1.165	1.00
224_E	249_P	1.164	1.00
292_S	296_R	1.164	1.00
376_V	380_R	1.163	1.00
65_A	71_R	1.161	1.00
93_I	253_R	1.161	1.00
101_A	246_A	1.158	1.00
185_N	219_L	1.155	1.00
368_I	372_Q	1.152	1.00
106_I	167_L	1.147	1.00
96_V	100_Q	1.143	1.00
69_S	273_F	1.142	1.00
111_N	114_E	1.137	1.00
291_K	294_R	1.131	1.00
71_R	75_S	1.131	1.00
297_R	364_Y	1.129	1.00
287_E	290_K	1.126	1.00
370_Q	373_E	1.126	1.00
227_V	248_A	1.123	1.00
77_Y	283_M	1.122	1.00
254_D	258_K	1.122	1.00
283_M	287_E	1.120	1.00
182_E	186_E	1.118	1.00
185_N	222_M	1.113	1.00
277_E	280_K	1.108	1.00
100_Q	260_H	1.107	1.00
192_K	223_K	1.097	1.00
260_H	264_M	1.093	1.00
297_R	301_V	1.086	1.00
108_A	259_I	1.079	1.00
160_T	163_T	1.077	1.00
307_I	376_V	1.077	1.00
74_I	94_V	1.076	1.00
143_T	154_D	1.073	1.00
143_T	151_T	1.066	1.00
52_L	55_E	1.066	1.00
296_R	299_L	1.065	1.00
181_K	219_L	1.065	1.00
197_I	227_V	1.063	1.00
157_A	161_E	1.063	1.00
110_V	116_V	1.061	1.00
210_D	315_G	1.053	1.00
277_E	281_N	1.044	1.00
166_I	196_V	1.043	1.00
78_L	245_F	1.041	1.00
330_S	357_E	1.036	1.00
299_L	302_E	1.032	1.00
45_N	281_N	1.030	1.00
335_A	346_V	1.028	1.00
291_K	295_R	1.021	1.00
45_N	48_E	1.018	1.00
227_V	246_A	1.014	1.00
44_W	47_R	1.009	1.00
87_S	250_S	1.008	1.00
159_V	196_V	1.005	1.00
130_V	137_P	1.003	1.00
338_L	346_V	1.002	1.00
69_S	72_E	0.997	1.00
192_K	224_E	0.994	1.00
273_F	276_L	0.989	1.00
70_L	94_V	0.988	1.00
215_S	218_A	0.982	1.00
325_K	358_G	0.972	1.00
29_G	343_K	0.970	1.00
140_V	158_A	0.964	1.00
331_S	358_G	0.961	1.00
302_E	305_N	0.958	1.00
197_I	225_R	0.957	1.00
298_N	313_H	0.956	1.00
188_A	226_T	0.953	1.00
160_T	194_H	0.953	1.00
109_I	165_A	0.952	1.00
288_K	292_S	0.951	1.00
188_A	222_M	0.943	1.00
116_V	165_A	0.941	1.00
209_Y	294_R	0.938	1.00
91_E	253_R	0.938	1.00
104_I	260_H	0.938	1.00
310_S	325_K	0.937	1.00
74_I	92_L	0.930	1.00
284_E	288_K	0.924	1.00
40_F	292_S	0.919	1.00
332_E	336_E	0.916	1.00
337_E	342_E	0.915	1.00
75_S	92_L	0.915	1.00
192_K	225_R	0.908	1.00
197_I	252_L	0.907	1.00
75_S	87_S	0.906	1.00
216_I	219_L	0.904	1.00
153_A	157_A	0.902	1.00
338_L	378_M	0.902	1.00
152_A	156_E	0.896	1.00
122_C	169_C	0.894	1.00
47_R	54_L	0.891	1.00
101_A	229_I	0.888	1.00
336_E	341_Q	0.886	1.00
309_L	324_I	0.885	1.00
109_I	197_I	0.877	1.00
288_K	291_K	0.876	1.00
285_D	288_K	0.876	1.00
342_E	381_F	0.874	1.00
253_R	257_L	0.868	1.00
48_E	55_E	0.865	1.00
208_T	213_F	0.862	1.00
93_I	256_M	0.861	1.00
227_V	252_L	0.860	1.00
248_A	256_M	0.858	1.00
131_S	137_P	0.858	1.00
108_A	256_M	0.857	1.00
96_V	268_P	0.857	1.00
152_A	187_I	0.855	1.00
229_I	246_A	0.855	1.00
67_L	276_L	0.851	1.00
29_G	373_E	0.851	1.00
92_L	247_A	0.850	1.00
98_A	231_G	0.849	1.00
284_E	287_E	0.842	1.00
68_Y	71_R	0.842	1.00
208_T	211_E	0.841	1.00
110_V	165_A	0.840	1.00
250_S	254_D	0.840	1.00
119_P	150_A	0.839	1.00
163_T	196_V	0.835	1.00
324_I	360_I	0.831	1.00
297_R	314_P	0.830	1.00
117_I	158_A	0.830	1.00
243_L	267_A	0.827	1.00
153_A	156_E	0.826	1.00
332_E	348_P	0.823	1.00
198_V	216_I	0.823	1.00
300_F	303_S	0.822	1.00
91_E	223_K	0.814	1.00
45_N	277_E	0.813	1.00
285_D	289_M	0.809	1.00
243_L	271_A	0.808	1.00
331_S	348_P	0.808	1.00
27_M	343_K	0.806	1.00
334_F	360_I	0.805	1.00
216_I	226_T	0.805	1.00
77_Y	206_E	0.803	1.00
76_R	79_S	0.802	1.00
377_R	380_R	0.800	1.00
98_A	203_I	0.800	1.00
41_V	47_R	0.795	1.00
120_E	355_S	0.794	1.00
58_Y	273_F	0.793	1.00
307_I	375_L	0.791	1.00
362_C	374_A	0.790	1.00
128_A	131_S	0.790	1.00
181_K	212_E	0.788	1.00
119_P	140_V	0.785	1.00
84_L	217_A	0.785	1.00
152_A	183_E	0.784	1.00
100_Q	264_M	0.781	1.00
49_A	53_S	0.777	1.00
126_Y	167_L	0.774	1.00
188_A	198_V	0.773	1.00
192_K	222_M	0.772	1.00
99_S	125_A	0.772	1.00
67_L	272_Q	0.768	1.00
302_E	372_Q	0.768	1.00
117_I	155_F	0.767	1.00
295_R	299_L	0.763	1.00
105_A	256_M	0.760	1.00
159_V	163_T	0.758	1.00
142_T	172_S	0.758	1.00
192_K	221_G	0.754	1.00
346_V	362_C	0.754	1.00
329_M	333_Q	0.750	1.00
217_A	228_V	0.748	1.00
298_N	301_V	0.746	1.00
206_E	235_A	0.744	1.00
296_R	367_S	0.742	1.00
334_F	338_L	0.736	1.00
295_R	298_N	0.736	1.00
200_A	216_I	0.729	1.00
145_D	149_K	0.726	1.00
77_Y	82_F	0.726	1.00
120_E	353_G	0.726	1.00
50_S	270_M	0.725	1.00
350_S	357_E	0.723	1.00
38_P	293_Y	0.721	1.00
309_L	322_P	0.713	1.00
100_Q	104_I	0.713	1.00
93_I	246_A	0.713	1.00
366_T	370_Q	0.712	1.00
149_K	180_S	0.709	1.00
104_I	256_M	0.706	1.00
138_V	158_A	0.705	1.00
300_F	364_Y	0.704	1.00
172_S	175_T	0.704	1.00
77_Y	236_F	0.704	1.00
71_R	88_P	0.703	1.00
335_A	348_P	0.700	1.00
344_V	378_M	0.699	1.00
286_V	290_K	0.699	1.00
235_A	286_V	0.699	1.00
369_E	372_Q	0.698	1.00
202_E	228_V	0.698	1.00
45_N	285_D	0.695	1.00
103_D	133_A	0.693	1.00
344_V	377_R	0.692	1.00
321_F	359_Y	0.690	1.00
143_T	149_K	0.687	1.00
214_T	218_A	0.687	1.00
334_F	381_F	0.687	1.00
140_V	154_D	0.686	1.00
29_G	370_Q	0.685	1.00
150_A	183_E	0.685	1.00
178_V	316_G	0.684	1.00
297_R	313_H	0.682	1.00
53_S	274_A	0.679	1.00
159_V	194_H	0.674	1.00
110_V	114_E	0.673	1.00
117_I	166_I	0.673	1.00
251_L	254_D	0.673	1.00
222_M	225_R	0.673	1.00
107_R	259_I	0.672	1.00
33_L	371_L	0.671	1.00
75_S	86_Y	0.670	1.00
73_E	279_L	0.667	1.00
116_V	135_G	0.667	1.00
331_S	357_E	0.666	1.00
210_D	294_R	0.663	1.00
257_L	260_H	0.661	1.00
376_V	379_K	0.661	1.00
138_V	163_T	0.659	1.00
138_V	160_T	0.657	1.00
322_P	359_Y	0.657	1.00
300_F	371_L	0.648	1.00
294_R	297_R	0.648	1.00
42_T	45_N	0.645	1.00
269_A	273_F	0.645	1.00
99_S	123_F	0.644	1.00
82_F	205_A	0.643	1.00
232_F	245_F	0.640	1.00
118_I	130_V	0.640	1.00
119_P	172_S	0.640	1.00
248_A	252_L	0.640	1.00
331_S	335_A	0.639	1.00
95_T	246_A	0.636	1.00
204_Y	319_Y	0.631	1.00
97_G	242_R	0.631	1.00
155_F	190_F	0.630	1.00
179_Y	183_E	0.630	1.00
168_I	184_L	0.628	1.00
126_Y	130_V	0.627	1.00
202_E	215_S	0.626	1.00
115_E	164_K	0.626	1.00
299_L	375_L	0.624	1.00
56_Q	277_E	0.624	1.00
155_F	166_I	0.624	1.00
209_Y	316_G	0.624	1.00
149_K	177_S	0.621	1.00
289_M	293_Y	0.619	1.00
254_D	257_L	0.617	1.00
106_I	165_A	0.615	1.00
27_M	30_V	0.615	1.00
157_A	160_T	0.613	1.00
329_M	334_F	0.611	1.00
32_S	37_E	0.611	1.00
113_G	136_I	0.610	1.00
103_D	263_A	0.609	1.00
205_A	230_S	0.609	1.00
273_F	277_E	0.607	1.00
42_T	46_V	0.607	1.00
290_K	294_R	0.606	1.00
296_R	368_I	0.605	1.00
43_A	46_V	0.605	1.00
304_L	322_P	0.604	1.00
329_M	337_E	0.604	1.00
144_A	310_S	0.602	1.00
179_Y	184_L	0.602	1.00
103_D	129_L	0.600	1.00
274_A	277_E	0.600	1.00
221_G	224_E	0.599	1.00
170_S	202_E	0.599	1.00
63_A	68_Y	0.592	1.00
141_H	158_A	0.592	1.00
118_I	139_H	0.591	1.00
93_I	257_L	0.588	1.00
144_A	323_S	0.586	1.00
344_V	374_A	0.585	1.00
306_E	372_Q	0.581	1.00
260_H	267_A	0.581	1.00
39_D	296_R	0.579	1.00
66_G	71_R	0.579	1.00
210_D	297_R	0.578	1.00
93_I	248_A	0.577	1.00
312_H	323_S	0.576	1.00
31_I	373_E	0.575	1.00
94_V	243_L	0.573	1.00
70_L	74_I	0.572	1.00
53_S	56_Q	0.572	1.00
42_T	47_R	0.571	1.00
191_A	195_D	0.571	1.00
70_L	275_A	0.569	1.00
102_L	129_L	0.569	1.00
310_S	326_S	0.568	1.00
72_E	75_S	0.567	1.00
224_E	251_L	0.567	1.00
78_L	228_V	0.566	1.00
30_V	345_A	0.566	1.00
202_E	205_A	0.564	1.00
106_I	133_A	0.562	1.00
167_L	199_L	0.560	1.00
186_E	190_F	0.559	1.00
49_A	274_A	0.557	1.00
69_S	73_E	0.557	1.00
209_Y	297_R	0.556	1.00
71_R	257_L	0.555	1.00
104_I	259_I	0.555	1.00
223_K	226_T	0.554	1.00
222_M	226_T	0.554	1.00
207_L	293_Y	0.551	1.00
177_S	315_G	0.551	1.00
236_F	283_M	0.550	1.00
367_S	372_Q	0.549	1.00
62_T	67_L	0.549	1.00
106_I	135_G	0.549	1.00
311_C	320_A	0.548	1.00
46_V	278_G	0.547	1.00
272_Q	276_L	0.545	1.00
178_V	208_T	0.545	1.00
108_A	255_A	0.543	1.00
118_I	127_D	0.542	1.00
106_I	129_L	0.540	1.00
32_S	35_V	0.539	1.00
44_W	55_E	0.539	1.00
373_E	380_R	0.539	1.00
150_A	155_F	0.538	1.00
338_L	381_F	0.536	1.00
67_L	269_A	0.536	1.00
323_S	326_S	0.535	1.00
77_Y	205_A	0.535	1.00
160_T	193_K	0.533	1.00
349_G	359_Y	0.532	1.00
232_F	279_L	0.529	1.00
299_L	371_L	0.528	1.00
96_V	267_A	0.528	1.00
170_S	178_V	0.526	1.00
349_G	352_F	0.526	1.00
371_L	374_A	0.525	1.00
207_L	290_K	0.525	1.00
45_N	49_A	0.521	1.00
124_V	351_V	0.519	1.00
166_I	191_A	0.518	1.00
171_P	316_G	0.518	1.00
214_T	219_L	0.518	1.00
158_A	161_E	0.518	1.00
335_A	360_I	0.517	1.00
141_H	151_T	0.517	1.00
45_N	284_E	0.517	1.00
51_I	54_L	0.517	1.00
377_R	381_F	0.516	1.00
114_E	162_K	0.516	1.00
36_G	204_Y	0.515	1.00
251_L	255_A	0.515	1.00
72_E	280_K	0.514	1.00
86_Y	91_E	0.513	1.00
101_A	244_G	0.512	1.00
53_S	273_F	0.511	1.00
163_T	166_I	0.509	1.00
289_M	292_S	0.505	1.00
99_S	265_M	0.505	1.00
53_S	277_E	0.502	1.00
145_D	183_E	0.502	1.00
184_L	216_I	0.502	1.00
330_S	350_S	0.501	1.00
111_N	164_K	0.501	1.00
300_F	362_C	0.501	1.00
339_L	345_A	0.501	1.00
79_S	84_L	0.500	1.00
34_G	345_A	0.500	1.00
238_M	278_G	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
1gd9A	2	0.9922	100	0.274	Contact Map
4my5A	2	0.9896	100	0.275	Contact Map
1yizA	2	0.9896	100	0.282	Contact Map
3h14A	2	0.943	100	0.283	Contact Map
1u08A	2	0.9767	100	0.286	Contact Map
2o1bA	2	0.9611	100	0.287	Contact Map
1o4sA	2	0.9715	100	0.287	Contact Map
2x5dA	3	0.9611	100	0.288	Contact Map
1b5pA	2	0.9715	100	0.288	Contact Map
3dydA	2	0.9508	100	0.292	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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