RFFA - ECOLI - GREMLIN Contacts

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RFFA - dTDP-4-amino-4,6-dideoxygalactose transaminase

UniProt:	P27833	Sequences: MIPFNAPPVVGTELDYMQSAMGSGKLCGDGGFTRRCQQWLEQRFGSAKVLLTPSCTASLEMAALLLDIQPGDEVIMPSYTFVSTANAFVLRGAKIVFVDVRPDTMNIDETLIEAAITDKTRVIVPVHYAGVACEMDTIMALAKKHNLFVVEDAAQGVMSTYKGRALGTIGHIGCFSFHETKNYTAGGEGGATLINDKALIERAEIIREKGTNRSQFFRGQVDKYTWRDIGSSYLMSDLQAAYLWAQLEAADRINQQRLALWQNYYDALAPLAKAGRIELPSIPDGCVQNAHMFYIKLRDIDDRSALINFLKEAEIMAVFHYIPLHGCPAGEHFGEFHGEDRYTTKESERLLRLPLFYNLSPVNQRTVIATLLNYFS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11456
Length:	376 (351)
Sequences:	10916 (8282)
Seq/√Len:	442.1

ECOLI - RFFA ARNB
BACSU - NTDA SPSC EPSN

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
265_Y	293_F	3.632	1.00
39_W	244_W	3.024	1.00
113_E	144_K	2.898	1.00
267_A	368_I	2.759	1.00
139_M	143_K	2.622	1.00
19_S	32_F	2.613	1.00
134_E	137_T	2.602	1.00
345_K	349_R	2.563	1.00
14_L	18_Q	2.539	1.00
296_K	349_R	2.497	1.00
263_N	364_Q	2.449	1.00
43_R	251_D	2.397	1.00
313_A	370_T	2.394	1.00
160_T	165_A	2.393	1.00
139_M	149_V	2.378	1.00
136_D	162_K	2.376	1.00
263_N	365_R	2.231	1.00
111_L	114_A	2.225	1.00
132_A	166_L	2.148	1.00
112_I	138_I	2.117	1.00
48_K	197_K	2.103	1.00
47_A	195_N	2.073	1.00
35_R	39_W	2.050	1.00
39_W	248_E	2.034	1.00
110_T	137_T	2.011	1.00
256_Q	259_A	2.007	1.00
14_L	22_G	1.991	1.00
360_S	363_N	1.979	1.00
160_T	287_V	1.975	1.00
313_A	373_N	1.963	1.00
11_G	15_D	1.928	1.00
366_T	370_T	1.926	1.00
101_R	104_T	1.916	1.00
108_D	111_L	1.899	1.00
302_D	305_A	1.884	1.00
148_F	171_H	1.863	1.00
326_G	344_T	1.854	1.00
12_T	248_E	1.849	1.00
66_L	148_F	1.844	1.00
111_L	115_A	1.836	1.00
308_N	312_E	1.831	1.00
98_V	115_A	1.812	1.00
192_T	203_A	1.787	1.00
236_S	239_Q	1.780	1.00
140_A	144_K	1.776	1.00
197_K	201_E	1.771	1.00
40_L	191_A	1.760	1.00
267_A	365_R	1.747	1.00
62_A	172_I	1.738	1.00
58_S	174_C	1.735	1.00
47_A	197_K	1.733	1.00
185_A	243_L	1.728	1.00
32_F	244_W	1.717	1.00
177_F	191_A	1.715	1.00
175_F	193_L	1.711	1.00
263_N	361_P	1.710	1.00
263_N	267_A	1.709	1.00
18_Q	22_G	1.706	1.00
194_I	200_I	1.693	1.00
309_F	313_A	1.691	1.00
309_F	312_E	1.675	1.00
202_R	228_D	1.666	1.00
73_E	120_T	1.637	1.00
123_I	142_A	1.605	1.00
38_Q	42_Q	1.603	1.00
41_E	49_V	1.602	1.00
53_P	57_A	1.588	1.00
172_I	199_L	1.568	1.00
50_L	200_I	1.549	1.00
73_E	94_K	1.544	1.00
142_A	149_V	1.542	1.00
364_Q	368_I	1.534	1.00
72_D	121_R	1.527	1.00
310_L	317_A	1.525	1.00
80_T	324_L	1.512	1.00
68_I	93_A	1.500	1.00
102_P	342_Y	1.494	1.00
258_L	287_V	1.491	1.00
35_R	244_W	1.484	1.00
156_G	166_L	1.483	1.00
116_I	141_L	1.461	1.00
270_P	372_L	1.460	1.00
73_E	117_T	1.459	1.00
43_R	165_A	1.455	1.00
49_V	191_A	1.453	1.00
171_H	196_D	1.451	1.00
200_I	204_E	1.446	1.00
73_E	119_K	1.431	1.00
164_R	168_T	1.423	1.00
40_L	157_V	1.395	1.00
271_L	276_R	1.395	1.00
278_E	296_K	1.394	1.00
196_D	199_L	1.371	1.00
267_A	372_L	1.359	1.00
262_Q	266_D	1.356	1.00
143_K	171_H	1.346	1.00
105_M	346_E	1.346	1.00
137_T	140_A	1.342	1.00
117_T	120_T	1.338	1.00
136_D	161_Y	1.337	1.00
307_I	317_A	1.331	1.00
78_S	343_T	1.330	1.00
127_H	135_M	1.326	1.00
76_M	88_F	1.325	1.00
32_F	35_R	1.323	1.00
256_Q	260_L	1.313	1.00
102_P	345_K	1.312	1.00
255_Q	259_A	1.305	1.00
98_V	111_L	1.297	1.00
13_E	245_A	1.293	1.00
131_V	283_P	1.281	1.00
306_L	351_L	1.278	1.00
245_A	248_E	1.266	1.00
315_I	370_T	1.250	1.00
306_L	371_L	1.250	1.00
62_A	150_V	1.249	1.00
268_L	371_L	1.246	1.00
271_L	372_L	1.244	1.00
39_W	42_Q	1.244	1.00
44_F	193_L	1.240	1.00
297_L	306_L	1.240	1.00
139_M	169_I	1.236	1.00
256_Q	361_P	1.234	1.00
36_C	243_L	1.232	1.00
162_K	285_G	1.232	1.00
69_Q	72_D	1.227	1.00
75_I	98_V	1.220	1.00
212_N	227_R	1.217	1.00
103_D	281_S	1.214	1.00
100_V	346_E	1.213	1.00
12_T	15_D	1.207	1.00
138_I	149_V	1.201	1.00
15_D	18_Q	1.199	1.00
15_D	19_S	1.198	1.00
105_M	296_K	1.195	1.00
60_E	90_L	1.185	1.00
12_T	249_A	1.181	1.00
365_R	369_A	1.178	1.00
16_Y	245_A	1.178	1.00
307_I	351_L	1.177	1.00
66_L	150_V	1.167	1.00
66_L	172_I	1.160	1.00
342_Y	345_K	1.149	1.00
125_P	149_V	1.149	1.00
34_R	38_Q	1.145	1.00
205_I	228_D	1.145	1.00
279_L	293_F	1.145	1.00
60_E	233_Y	1.138	1.00
107_I	112_I	1.134	1.00
263_N	368_I	1.130	1.00
61_M	203_A	1.127	1.00
294_Y	350_L	1.126	1.00
305_A	309_F	1.123	1.00
278_E	298_R	1.118	1.00
259_A	361_P	1.115	1.00
112_I	141_L	1.114	1.00
61_M	206_I	1.111	1.00
78_S	325_H	1.109	1.00
48_K	200_I	1.103	1.00
127_H	170_G	1.099	1.00
325_H	344_T	1.094	1.00
31_G	35_R	1.082	1.00
60_E	231_S	1.082	1.00
113_E	145_H	1.080	1.00
260_L	364_Q	1.073	1.00
113_E	137_T	1.073	1.00
60_E	64_L	1.073	1.00
16_Y	248_E	1.069	1.00
13_E	242_Y	1.067	1.00
225_T	328_P	1.065	1.00
70_P	92_G	1.063	1.00
29_D	207_R	1.060	1.00
113_E	117_T	1.057	1.00
64_L	91_R	1.051	1.00
52_T	61_M	1.049	1.00
325_H	340_D	1.048	1.00
109_E	141_L	1.046	1.00
101_R	108_D	1.045	1.00
69_Q	93_A	1.034	1.00
16_Y	32_F	1.030	1.00
10_V	14_L	1.026	1.00
135_M	169_I	1.020	1.00
51_L	235_M	1.018	1.00
260_L	355_L	1.011	1.00
16_Y	19_S	1.007	1.00
39_W	247_L	1.004	1.00
157_V	250_A	1.004	1.00
122_V	148_F	1.003	1.00
249_A	252_R	1.002	1.00
75_I	112_I	0.997	1.00
10_V	13_E	0.996	1.00
265_Y	282_I	0.984	1.00
142_A	147_L	0.983	1.00
370_T	373_N	0.983	1.00
78_S	340_D	0.981	1.00
63_A	124_V	0.980	1.00
265_Y	279_L	0.971	1.00
65_L	203_A	0.968	1.00
98_V	107_I	0.968	1.00
55_C	58_S	0.967	1.00
48_K	194_I	0.964	1.00
369_A	373_N	0.962	1.00
89_V	330_G	0.962	1.00
10_V	249_A	0.960	1.00
105_M	280_P	0.958	1.00
227_R	328_P	0.958	1.00
182_N	291_H	0.951	1.00
139_M	171_H	0.947	1.00
86_N	209_K	0.944	1.00
63_A	88_F	0.944	1.00
255_Q	258_L	0.941	1.00
260_L	359_L	0.938	1.00
361_P	364_Q	0.937	1.00
85_A	97_F	0.937	1.00
62_A	174_C	0.936	1.00
235_M	240_A	0.935	1.00
261_W	290_A	0.932	1.00
304_S	308_N	0.932	1.00
85_A	324_L	0.932	1.00
67_D	202_R	0.928	1.00
307_I	311_K	0.926	1.00
298_R	349_R	0.923	1.00
361_P	365_R	0.919	1.00
141_L	145_H	0.919	1.00
309_F	370_T	0.916	1.00
46_S	195_N	0.916	1.00
276_R	298_R	0.916	1.00
110_T	113_E	0.915	1.00
113_E	141_L	0.914	1.00
258_L	282_I	0.910	1.00
222_D	225_T	0.904	1.00
294_Y	352_R	0.903	1.00
153_A	166_L	0.903	1.00
53_P	233_Y	0.901	1.00
185_A	189_G	0.900	1.00
305_A	308_N	0.899	1.00
46_S	168_T	0.893	1.00
49_V	193_L	0.888	1.00
306_L	309_F	0.884	1.00
73_E	96_V	0.882	1.00
68_I	74_V	0.882	1.00
40_L	175_F	0.878	1.00
338_G	344_T	0.878	1.00
33_T	240_A	0.877	1.00
131_V	286_C	0.874	1.00
308_N	311_K	0.874	1.00
38_Q	41_E	0.871	1.00
50_L	204_E	0.870	1.00
362_V	365_R	0.869	1.00
194_I	199_L	0.868	1.00
57_A	233_Y	0.864	1.00
262_Q	265_Y	0.862	1.00
122_V	150_V	0.857	1.00
225_T	322_I	0.855	1.00
313_A	366_T	0.854	1.00
323_P	343_T	0.854	1.00
340_D	343_T	0.853	1.00
345_K	348_E	0.851	1.00
76_M	85_A	0.847	1.00
258_L	262_Q	0.845	1.00
256_Q	358_N	0.840	1.00
252_R	255_Q	0.836	1.00
68_I	122_V	0.834	1.00
31_G	34_R	0.833	1.00
35_R	38_Q	0.833	1.00
359_L	367_V	0.832	1.00
125_P	138_I	0.830	1.00
10_V	22_G	0.825	1.00
159_S	289_N	0.825	1.00
264_Y	367_V	0.823	1.00
254_N	289_N	0.822	1.00
140_A	143_K	0.821	1.00
252_R	256_Q	0.819	1.00
37_Q	51_L	0.817	1.00
165_A	168_T	0.812	1.00
133_C	138_I	0.811	1.00
44_F	165_A	0.811	1.00
41_E	44_F	0.810	1.00
17_M	238_L	0.809	1.00
164_R	169_I	0.807	1.00
298_R	301_D	0.807	1.00
32_F	237_D	0.806	1.00
77_P	88_F	0.806	1.00
125_P	133_C	0.803	1.00
320_H	352_R	0.800	1.00
88_F	95_I	0.799	1.00
263_N	266_D	0.798	1.00
366_T	369_A	0.797	1.00
127_H	151_E	0.794	1.00
88_F	93_A	0.793	1.00
303_R	319_F	0.791	1.00
337_H	348_E	0.788	1.00
259_A	262_Q	0.782	1.00
306_L	310_L	0.782	1.00
43_R	158_M	0.780	1.00
135_M	139_M	0.780	1.00
17_M	21_M	0.776	1.00
52_T	192_T	0.773	1.00
11_G	14_L	0.773	1.00
101_R	109_E	0.773	1.00
251_D	255_Q	0.771	1.00
61_M	207_R	0.771	1.00
72_D	93_A	0.766	1.00
205_I	227_R	0.766	1.00
265_Y	290_A	0.765	1.00
198_A	201_E	0.762	1.00
69_Q	121_R	0.762	1.00
11_G	22_G	0.761	1.00
29_D	33_T	0.759	1.00
75_I	115_A	0.753	1.00
136_D	140_A	0.753	1.00
17_M	242_Y	0.752	1.00
259_A	263_N	0.751	1.00
283_P	286_C	0.750	1.00
89_V	95_I	0.748	1.00
63_A	150_V	0.747	1.00
158_M	254_N	0.747	1.00
267_A	270_P	0.747	1.00
20_A	241_A	0.745	1.00
201_E	212_N	0.741	1.00
169_I	173_G	0.738	1.00
109_E	133_C	0.737	1.00
64_L	90_L	0.735	1.00
261_W	293_F	0.734	1.00
142_A	145_H	0.732	1.00
323_P	326_G	0.731	1.00
265_Y	281_S	0.728	1.00
74_V	88_F	0.727	1.00
62_A	192_T	0.727	1.00
266_D	269_A	0.726	1.00
363_N	366_T	0.726	1.00
68_I	121_R	0.725	1.00
65_L	172_I	0.722	1.00
19_S	23_S	0.722	1.00
87_A	91_R	0.720	1.00
166_L	173_G	0.719	1.00
365_R	368_I	0.716	1.00
84_T	87_A	0.716	1.00
267_A	369_A	0.715	1.00
182_N	254_N	0.714	1.00
40_L	247_L	0.713	1.00
101_R	134_E	0.713	1.00
86_N	330_G	0.712	1.00
336_F	339_E	0.711	1.00
33_T	235_M	0.710	1.00
123_I	147_L	0.709	1.00
33_T	51_L	0.708	1.00
160_T	163_G	0.707	1.00
81_F	224_Y	0.706	1.00
170_G	173_G	0.706	1.00
342_Y	346_E	0.705	1.00
8_P	358_N	0.703	1.00
74_V	122_V	0.702	1.00
268_L	372_L	0.702	1.00
63_A	68_I	0.698	1.00
368_I	372_L	0.698	1.00
168_T	195_N	0.698	1.00
60_E	91_R	0.697	1.00
55_C	174_C	0.696	1.00
40_L	49_V	0.696	1.00
79_Y	320_H	0.695	1.00
161_Y	286_C	0.695	1.00
187_G	238_L	0.693	1.00
112_I	123_I	0.693	1.00
131_V	282_I	0.688	1.00
356_F	359_L	0.688	1.00
344_T	348_E	0.686	1.00
172_I	192_T	0.686	1.00
116_I	147_L	0.685	1.00
151_E	170_G	0.685	1.00
139_M	170_G	0.682	1.00
50_L	203_A	0.682	1.00
75_I	120_T	0.681	1.00
44_F	168_T	0.680	1.00
77_P	126_V	0.679	1.00
260_L	264_Y	0.679	1.00
90_L	231_S	0.678	1.00
151_E	173_G	0.672	1.00
189_G	235_M	0.667	1.00
109_E	138_I	0.662	1.00
165_A	251_D	0.662	1.00
272_A	276_R	0.662	1.00
323_P	347_S	0.661	1.00
44_F	49_V	0.660	1.00
46_S	193_L	0.657	1.00
12_T	245_A	0.655	1.00
52_T	58_S	0.653	1.00
13_E	249_A	0.652	1.00
229_I	329_A	0.651	1.00
326_G	338_G	0.650	0.99
128_Y	155_Q	0.649	0.99
258_L	290_A	0.645	0.99
260_L	263_N	0.644	0.99
328_P	331_E	0.644	0.99
261_W	265_Y	0.643	0.99
135_M	149_V	0.642	0.99
339_E	344_T	0.641	0.99
254_N	258_L	0.636	0.99
202_R	206_I	0.634	0.99
58_S	192_T	0.634	0.99
88_F	124_V	0.634	0.99
80_T	84_T	0.633	0.99
125_P	135_M	0.633	0.99
159_S	166_L	0.632	0.99
16_Y	241_A	0.632	0.99
8_P	249_A	0.630	0.99
209_K	234_L	0.629	0.99
277_I	295_I	0.628	0.99
89_V	329_A	0.627	0.99
103_D	278_E	0.627	0.99
249_A	253_I	0.626	0.99
311_K	317_A	0.624	0.99
20_A	32_F	0.624	0.99
9_V	13_E	0.622	0.99
87_A	124_V	0.620	0.99
172_I	194_I	0.617	0.99
251_D	287_V	0.616	0.99
261_W	355_L	0.616	0.99
64_L	231_S	0.614	0.99
173_G	193_L	0.613	0.99
127_H	133_C	0.613	0.99
23_S	31_G	0.613	0.99
161_Y	169_I	0.612	0.99
64_L	206_I	0.611	0.99
153_A	173_G	0.609	0.99
19_S	35_R	0.608	0.99
127_H	166_L	0.608	0.99
296_K	345_K	0.607	0.99
46_S	173_G	0.606	0.99
99_D	342_Y	0.606	0.99
14_L	21_M	0.603	0.99
187_G	239_Q	0.602	0.99
63_A	91_R	0.602	0.99
78_S	97_F	0.600	0.99
79_Y	350_L	0.600	0.99
54_S	232_S	0.599	0.99
84_T	124_V	0.599	0.99
297_L	302_D	0.598	0.99
54_S	57_A	0.597	0.99
12_T	16_Y	0.597	0.99
296_K	350_L	0.594	0.99
81_F	211_T	0.594	0.99
89_V	229_I	0.594	0.99
41_E	48_K	0.592	0.99
137_T	161_Y	0.588	0.99
309_F	373_N	0.588	0.99
201_E	205_I	0.587	0.99
20_A	23_S	0.587	0.99
235_M	239_Q	0.587	0.99
84_T	126_V	0.585	0.99
62_A	66_L	0.585	0.99
69_Q	91_R	0.585	0.99
129_A	294_Y	0.583	0.99
282_I	290_A	0.582	0.99
74_V	124_V	0.580	0.99
132_A	159_S	0.578	0.99
55_C	154_A	0.577	0.99
168_T	173_G	0.576	0.99
100_V	343_T	0.573	0.99
265_Y	269_A	0.571	0.99
304_S	307_I	0.571	0.99
292_M	352_R	0.570	0.99
132_A	161_Y	0.569	0.99
295_I	351_L	0.569	0.99
67_D	93_A	0.566	0.99
131_V	288_Q	0.563	0.99
129_A	320_H	0.563	0.99
100_V	342_Y	0.562	0.99
85_A	330_G	0.561	0.99
29_D	237_D	0.560	0.99
171_H	195_N	0.560	0.99
74_V	93_A	0.557	0.98
137_T	141_L	0.556	0.98
205_I	212_N	0.554	0.98
178_H	188_E	0.554	0.98
41_E	46_S	0.553	0.98
250_A	254_N	0.549	0.98
116_I	145_H	0.549	0.98
156_G	159_S	0.548	0.98
341_R	344_T	0.546	0.98
264_Y	364_Q	0.546	0.98
13_E	17_M	0.544	0.98
154_A	181_K	0.544	0.98
121_R	148_F	0.543	0.98
16_Y	20_A	0.543	0.98
79_Y	128_Y	0.543	0.98
132_A	286_C	0.542	0.98
151_E	167_G	0.541	0.98
298_R	302_D	0.540	0.98
161_Y	164_R	0.539	0.98
296_K	346_E	0.539	0.98
60_E	87_A	0.539	0.98
326_G	348_E	0.539	0.98
251_D	254_N	0.539	0.98
33_T	237_D	0.539	0.98
177_F	243_L	0.537	0.98
267_A	364_Q	0.537	0.98
68_I	72_D	0.535	0.98
109_E	134_E	0.534	0.98
51_L	191_A	0.533	0.98
282_I	288_Q	0.532	0.98
48_K	204_E	0.530	0.98
158_M	250_A	0.528	0.98
108_D	137_T	0.528	0.98
172_I	203_A	0.528	0.98
204_E	207_R	0.525	0.98
136_D	164_R	0.524	0.98
109_E	137_T	0.524	0.98
14_L	17_M	0.524	0.98
127_H	153_A	0.523	0.98
23_S	32_F	0.521	0.98
71_G	94_K	0.519	0.98
245_A	249_A	0.518	0.98
76_M	84_T	0.516	0.97
18_Q	21_M	0.514	0.97
182_N	289_N	0.513	0.97
295_I	371_L	0.510	0.97
167_G	175_F	0.507	0.97
138_I	141_L	0.506	0.97
310_L	371_L	0.506	0.97
124_V	150_V	0.504	0.97
195_N	199_L	0.504	0.97
161_Y	285_G	0.503	0.97
334_G	338_G	0.502	0.97
107_I	125_P	0.502	0.97
59_L	87_A	0.500	0.97

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
4zwvA	2	0.9628	100	0.409	Contact Map
1o69A	2	0.9309	100	0.448	Contact Map
2fnuA	2	0.9681	100	0.449	Contact Map
3frkA	2	0.9521	100	0.454	Contact Map
4lc3A	2	0.9734	100	0.454	Contact Map
3b8xA	2	0.9707	100	0.464	Contact Map
3bb8A	2	0.9787	100	0.466	Contact Map
2c81A	2	0.9761	100	0.475	Contact Map
4zahA	2	0.9814	100	0.479	Contact Map
3nytA	2	0.9388	100	0.481	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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