ALR1 - BACSU - GREMLIN Contacts

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ALR1 - Alanine racemase 1

UniProt:	P10725	Sequences: MSTKPFYRDTWAEIDLSAIKENVSNMKKHIGEHVHLMAVVKANAYGHGDAETAKAALDAGASCLAVAILDEAISLRKKGLKAPILVLGAVPPEYVAIAAEYDVTLTGYSVEWLQEAARHTKKGSLHFHLKVDTGMNRLGVKTEEEVQNVMAILDRNPRLKCKGVFTHFATADEKERGYFLMQFERFKELIAPLPLKNLMVHCANSAAGLRLKKGFFNAVRFGIGMYGLRPSADMSDEIPFQLRPAFTLHSTLSHVKLIRKGESVSYGAEYTAEKDTWIGTVPVGYADGWLRKLKGTDILVKGKRLKIAGRICMDQFMVELDQEYPPGTKVTLIGRQGDEYISMDEIAGRLETINYEVACTISSRVPRMFLENGSIMEVRNPLLQVNISN	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	389 (353)
Sequences:	4919 (3649)
Seq/√Len:	194.2

ECOLI - ALR1 ALR2
BACSU - ALR1 ALR2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
19_I	245_A	3.657	1.00
166_T	202_C	3.421	1.00
279_G	320_L	2.954	1.00
297_D	304_R	2.934	1.00
252_L	279_G	2.826	1.00
263_S	268_A	2.778	1.00
257_L	277_W	2.766	1.00
205_S	224_G	2.744	1.00
187_K	216_F	2.740	1.00
21_E	243_R	2.718	1.00
73_I	101_Y	2.684	1.00
259_R	275_D	2.679	1.00
304_R	345_E	2.673	1.00
263_S	271_T	2.620	1.00
72_A	103_V	2.535	1.00
249_H	329_K	2.523	1.00
278_I	308_A	2.491	1.00
26_M	224_G	2.400	1.00
57_L	82_A	2.360	1.00
257_L	275_D	2.356	1.00
15_D	18_A	2.284	1.00
98_A	105_L	2.273	1.00
269_E	310_R	2.252	1.00
13_E	249_H	2.204	1.00
35_H	62_S	2.198	1.00
270_Y	276_T	2.187	1.00
136_N	262_E	2.169	1.00
250_S	281_V	2.146	1.00
298_I	318_V	2.134	1.00
252_L	324_Y	2.110	1.00
248_L	283_V	2.103	1.00
39_V	65_A	2.094	1.00
132_D	136_N	2.085	1.00
258_I	272_A	2.079	1.00
265_S	312_C	2.067	1.00
37_M	218_A	2.058	1.00
274_K	322_Q	2.047	1.00
335_R	340_Y	2.029	1.00
183_F	214_G	2.019	1.00
361_I	365_V	1.986	1.00
260_K	275_D	1.960	1.00
228_L	354_N	1.959	1.00
228_L	358_A	1.945	1.00
181_M	185_R	1.932	1.00
190_I	200_V	1.892	1.00
126_H	160_K	1.867	1.00
343_M	358_A	1.862	1.00
289_W	332_L	1.857	1.00
178_Y	268_A	1.814	1.00
50_A	78_K	1.805	1.00
25_N	28_K	1.798	1.00
43_N	363_S	1.794	1.00
301_K	328_T	1.793	1.00
21_E	25_N	1.755	1.00
20_K	55_A	1.737	1.00
106_T	165_F	1.733	1.00
325_P	328_T	1.714	1.00
11_W	249_H	1.708	1.00
170_T	268_A	1.702	1.00
38_A	225_M	1.698	1.00
331_T	340_Y	1.676	1.00
140_V	149_V	1.675	1.00
300_V	318_V	1.624	1.00
259_R	272_A	1.615	1.00
259_R	262_E	1.598	1.00
255_V	320_L	1.597	1.00
114_Q	152_I	1.592	1.00
183_F	216_F	1.591	1.00
184_E	188_E	1.552	1.00
104_T	162_K	1.547	1.00
23_V	225_M	1.530	1.00
57_L	64_L	1.529	1.00
290_L	360_T	1.528	1.00
344_D	354_N	1.520	1.00
37_M	65_A	1.509	1.00
131_V	189_L	1.505	1.00
102_D	123_G	1.502	1.00
49_D	74_S	1.496	1.00
280_T	317_M	1.486	1.00
208_G	221_F	1.479	1.00
300_V	305_L	1.472	1.00
299_L	341_I	1.456	1.00
12_A	365_V	1.451	1.00
128_H	201_H	1.446	1.00
170_T	179_F	1.444	1.00
30_I	34_V	1.443	1.00
19_I	52_T	1.443	1.00
40_V	53_A	1.433	1.00
281_V	316_F	1.418	1.00
200_V	217_N	1.414	1.00
18_A	243_R	1.411	1.00
276_T	319_E	1.403	1.00
299_L	331_T	1.395	1.00
246_F	333_I	1.384	1.00
276_T	321_D	1.384	1.00
53_A	75_L	1.382	1.00
314_D	364_R	1.380	1.00
170_T	173_E	1.374	1.00
51_E	369_F	1.361	1.00
50_A	74_S	1.361	1.00
281_V	330_V	1.361	1.00
203_A	214_G	1.352	1.00
20_K	59_A	1.339	1.00
312_C	317_M	1.328	1.00
30_I	219_V	1.313	1.00
171_A	206_A	1.291	1.00
35_H	63_C	1.287	1.00
183_F	187_K	1.277	1.00
16_L	369_F	1.268	1.00
272_A	276_T	1.265	1.00
124_S	160_K	1.262	1.00
10_T	283_V	1.246	1.00
203_A	215_F	1.245	1.00
262_E	272_A	1.228	1.00
110_V	114_Q	1.225	1.00
180_L	213_K	1.224	1.00
51_E	54_K	1.220	1.00
21_E	241_Q	1.216	1.00
47_H	246_F	1.212	1.00
55_A	59_A	1.208	1.00
252_L	255_V	1.208	1.00
12_A	248_L	1.195	1.00
37_M	63_C	1.195	1.00
255_V	326_P	1.190	1.00
117_A	156_N	1.189	1.00
23_V	61_A	1.188	1.00
64_L	82_A	1.187	1.00
110_V	152_I	1.183	1.00
269_E	295_G	1.183	1.00
126_H	162_K	1.177	1.00
180_L	184_E	1.176	1.00
38_A	61_A	1.171	1.00
147_Q	192_P	1.171	1.00
142_T	188_E	1.168	1.00
117_A	152_I	1.168	1.00
23_V	36_L	1.162	1.00
183_F	202_C	1.162	1.00
178_Y	263_S	1.157	1.00
258_I	264_V	1.152	1.00
289_W	346_I	1.144	1.00
278_I	317_M	1.138	1.00
10_T	250_S	1.129	1.00
273_E	276_T	1.117	1.00
114_Q	118_R	1.111	1.00
203_A	207_A	1.110	1.00
185_R	188_E	1.109	1.00
176_R	210_R	1.103	1.00
77_K	101_Y	1.102	1.00
252_L	320_L	1.099	1.00
42_A	286_A	1.094	1.00
333_I	343_M	1.094	1.00
269_E	294_K	1.094	1.00
26_M	221_F	1.093	1.00
25_N	29_H	1.093	1.00
320_L	324_Y	1.092	1.00
299_L	304_R	1.090	1.00
75_L	80_L	1.089	1.00
19_I	56_A	1.089	1.00
56_A	225_M	1.085	1.00
181_M	184_E	1.079	1.00
31_G	34_V	1.077	1.00
27_K	62_S	1.074	1.00
97_I	101_Y	1.073	1.00
311_I	316_F	1.073	1.00
11_W	368_M	1.070	1.00
283_V	332_L	1.070	1.00
132_D	256_K	1.067	1.00
117_A	158_R	1.065	1.00
251_T	329_K	1.061	1.00
248_L	365_V	1.061	1.00
274_K	321_D	1.056	1.00
187_K	191_A	1.051	1.00
96_A	100_E	1.050	1.00
350_L	357_V	1.040	1.00
111_E	326_P	1.040	1.00
104_T	126_H	1.038	1.00
289_W	307_I	1.036	1.00
224_G	242_L	1.035	1.00
57_L	81_K	1.028	1.00
298_I	316_F	1.027	1.00
73_I	77_K	1.026	1.00
86_V	103_V	1.025	1.00
36_L	221_F	1.022	1.00
305_L	321_D	1.019	1.00
297_D	306_K	1.017	1.00
299_L	340_Y	1.014	1.00
63_C	104_T	1.000	1.00
141_K	262_E	1.000	1.00
83_P	104_T	0.993	1.00
334_G	341_I	0.992	1.00
342_S	345_E	0.983	0.99
130_K	138_L	0.976	0.99
261_G	272_A	0.975	0.99
276_T	308_A	0.975	0.99
31_G	215_F	0.974	0.99
96_A	122_K	0.969	0.99
297_D	349_R	0.968	0.99
121_K	158_R	0.968	0.99
12_A	246_F	0.967	0.99
16_L	55_A	0.958	0.99
194_P	200_V	0.956	0.99
146_V	189_L	0.950	0.99
97_I	100_E	0.948	0.99
179_F	211_L	0.947	0.99
208_G	219_V	0.947	0.99
187_K	213_K	0.943	0.99
30_I	36_L	0.943	0.99
212_K	215_F	0.941	0.99
107_G	127_F	0.938	0.99
347_A	352_T	0.933	0.99
249_H	331_T	0.932	0.99
107_G	113_L	0.926	0.99
50_A	54_K	0.923	0.99
254_H	326_P	0.919	0.99
138_L	280_T	0.912	0.99
223_I	355_Y	0.910	0.99
23_V	56_A	0.907	0.99
24_S	59_A	0.906	0.99
281_V	318_V	0.905	0.99
200_V	216_F	0.899	0.99
15_D	370_L	0.895	0.99
246_F	361_I	0.889	0.99
170_T	178_Y	0.884	0.99
76_R	84_I	0.882	0.99
199_M	217_N	0.877	0.99
250_S	282_P	0.875	0.99
290_L	350_L	0.874	0.99
300_V	330_V	0.872	0.99
138_L	315_Q	0.871	0.99
305_L	318_V	0.868	0.99
99_A	125_L	0.868	0.99
11_W	251_T	0.867	0.99
168_F	207_A	0.867	0.99
38_A	56_A	0.865	0.99
113_L	156_N	0.865	0.99
252_L	300_V	0.863	0.99
60_G	82_A	0.858	0.99
131_V	146_V	0.857	0.99
13_E	368_M	0.857	0.99
341_I	345_E	0.853	0.99
142_T	185_R	0.852	0.98
173_E	176_R	0.852	0.98
151_A	196_K	0.847	0.98
54_K	78_K	0.846	0.98
48_G	369_F	0.841	0.98
10_T	365_V	0.840	0.98
305_L	322_Q	0.839	0.98
20_K	24_S	0.838	0.98
168_F	202_C	0.837	0.98
265_S	317_M	0.836	0.98
258_I	262_E	0.834	0.98
102_D	126_H	0.834	0.98
318_V	330_V	0.833	0.98
292_K	351_E	0.832	0.98
264_V	276_T	0.832	0.98
170_T	267_G	0.829	0.98
208_G	215_F	0.828	0.98
26_M	36_L	0.826	0.98
20_K	58_D	0.824	0.98
293_L	349_R	0.823	0.98
63_C	218_A	0.818	0.98
63_C	83_P	0.818	0.98
16_L	51_E	0.818	0.98
277_W	323_E	0.812	0.98
164_V	190_I	0.808	0.98
301_K	324_Y	0.804	0.98
264_V	278_I	0.804	0.98
76_R	102_D	0.804	0.98
23_V	59_A	0.803	0.98
292_K	350_L	0.803	0.98
228_L	343_M	0.802	0.98
146_V	150_M	0.800	0.98
163_G	201_H	0.799	0.98
281_V	298_I	0.796	0.98
172_D	267_G	0.787	0.97
274_K	319_E	0.786	0.97
301_K	325_P	0.786	0.97
186_F	200_V	0.786	0.97
113_L	153_L	0.784	0.97
261_G	275_D	0.780	0.97
12_A	47_H	0.780	0.97
263_S	272_A	0.779	0.97
128_H	163_G	0.777	0.97
111_E	114_Q	0.777	0.97
206_A	230_P	0.775	0.97
136_N	141_K	0.774	0.97
180_L	211_L	0.774	0.97
14_I	369_F	0.774	0.97
221_F	224_G	0.772	0.97
303_K	322_Q	0.771	0.97
296_T	349_R	0.770	0.97
223_I	228_L	0.769	0.97
52_T	56_A	0.767	0.97
127_F	159_L	0.765	0.97
151_A	155_R	0.763	0.97
75_L	84_I	0.761	0.97
264_V	317_M	0.756	0.97
324_Y	328_T	0.755	0.97
107_G	116_A	0.755	0.97
12_A	361_I	0.753	0.97
166_T	216_F	0.749	0.97
150_M	193_L	0.747	0.97
113_L	149_V	0.746	0.97
223_I	354_N	0.746	0.97
290_L	357_V	0.746	0.97
250_S	316_F	0.745	0.97
291_R	356_E	0.744	0.96
52_T	245_A	0.741	0.96
99_A	119_H	0.739	0.96
39_V	87_L	0.739	0.96
272_A	275_D	0.735	0.96
253_S	282_P	0.734	0.96
85_L	128_H	0.733	0.96
131_V	164_V	0.732	0.96
298_I	332_L	0.732	0.96
35_H	199_M	0.727	0.96
91_P	94_Y	0.727	0.96
15_D	335_R	0.719	0.96
209_L	240_F	0.718	0.96
110_V	145_E	0.714	0.96
52_T	59_A	0.713	0.96
136_N	258_I	0.713	0.96
169_A	178_Y	0.713	0.96
15_D	247_T	0.712	0.95
301_K	323_E	0.712	0.95
65_A	218_A	0.712	0.95
147_Q	151_A	0.711	0.95
40_V	64_L	0.710	0.95
16_L	52_T	0.709	0.95
92_P	115_E	0.709	0.95
283_V	316_F	0.707	0.95
86_V	98_A	0.707	0.95
53_A	80_L	0.705	0.95
183_F	203_A	0.705	0.95
291_R	353_I	0.704	0.95
260_K	273_E	0.704	0.95
25_N	241_Q	0.703	0.95
343_M	354_N	0.702	0.95
145_E	148_N	0.701	0.95
43_N	49_D	0.698	0.95
293_L	350_L	0.698	0.95
247_T	331_T	0.696	0.95
258_I	278_I	0.694	0.95
56_A	64_L	0.693	0.95
18_A	21_E	0.693	0.95
186_F	202_C	0.693	0.95
300_V	324_Y	0.692	0.95
170_T	176_R	0.692	0.95
14_I	245_A	0.690	0.95
345_E	348_G	0.689	0.95
316_F	332_L	0.687	0.95
85_L	104_T	0.687	0.95
289_W	316_F	0.686	0.94
133_T	182_Q	0.685	0.94
72_A	101_Y	0.678	0.94
24_S	60_G	0.677	0.94
148_N	151_A	0.676	0.94
120_T	125_L	0.676	0.94
176_R	211_L	0.675	0.94
18_A	242_L	0.674	0.94
229_R	240_F	0.672	0.94
305_L	320_L	0.671	0.94
69_L	98_A	0.670	0.94
17_S	20_K	0.669	0.94
50_A	80_L	0.668	0.94
90_V	105_L	0.667	0.94
13_E	247_T	0.666	0.94
298_I	330_V	0.666	0.94
13_E	370_L	0.665	0.94
49_D	286_A	0.665	0.94
206_A	223_I	0.661	0.93
35_H	218_A	0.659	0.93
94_Y	97_I	0.658	0.93
248_L	333_I	0.658	0.93
176_R	180_L	0.655	0.93
333_I	357_V	0.654	0.93
192_P	195_L	0.654	0.93
110_V	148_N	0.654	0.93
149_V	153_L	0.653	0.93
243_R	335_R	0.653	0.93
69_L	72_A	0.652	0.93
199_M	218_A	0.651	0.93
305_L	324_Y	0.651	0.93
264_V	308_A	0.650	0.93
67_A	314_D	0.649	0.93
202_C	216_F	0.649	0.93
27_K	36_L	0.648	0.93
248_L	361_I	0.648	0.93
99_A	120_T	0.648	0.93
141_K	145_E	0.646	0.93
9_D	251_T	0.645	0.92
119_H	122_K	0.645	0.92
232_A	348_G	0.645	0.92
191_A	194_P	0.644	0.92
89_A	108_Y	0.644	0.92
277_W	322_Q	0.642	0.92
108_Y	254_H	0.640	0.92
354_N	358_A	0.639	0.92
74_S	78_K	0.638	0.92
254_H	280_T	0.637	0.92
207_A	211_L	0.633	0.92
188_E	191_A	0.630	0.92
257_L	276_T	0.630	0.92
277_W	320_L	0.624	0.91
8_R	68_I	0.624	0.91
81_K	102_D	0.622	0.91
352_T	357_V	0.620	0.91
290_L	293_L	0.619	0.91
210_R	231_S	0.618	0.91
303_K	323_E	0.617	0.91
111_E	115_E	0.616	0.91
73_I	97_I	0.615	0.91
331_T	341_I	0.614	0.91
21_E	24_S	0.614	0.91
36_L	219_V	0.613	0.90
63_C	85_L	0.613	0.90
141_K	256_K	0.611	0.90
84_I	103_V	0.606	0.90
300_V	320_L	0.606	0.90
74_S	363_S	0.603	0.90
34_V	219_V	0.603	0.90
113_L	117_A	0.603	0.90
172_D	310_R	0.601	0.90
65_A	87_L	0.599	0.89
42_A	364_R	0.599	0.89
38_A	64_L	0.598	0.89
44_A	49_D	0.598	0.89
153_L	161_C	0.598	0.89
148_N	152_I	0.598	0.89
255_V	277_W	0.597	0.89
307_I	311_I	0.597	0.89
344_D	348_G	0.596	0.89
307_I	318_V	0.593	0.89
172_D	291_R	0.592	0.89
147_Q	150_M	0.590	0.89
276_T	322_Q	0.589	0.89
55_A	58_D	0.589	0.89
61_A	64_L	0.589	0.89
253_S	315_Q	0.588	0.89
287_D	364_R	0.588	0.89
264_V	272_A	0.586	0.88
273_E	306_K	0.586	0.88
304_R	341_I	0.583	0.88
250_S	330_V	0.582	0.88
53_A	64_L	0.579	0.88
191_A	195_L	0.576	0.88
24_S	27_K	0.574	0.87
18_A	245_A	0.570	0.87
297_D	345_E	0.570	0.87
24_S	28_K	0.570	0.87
40_V	226_Y	0.569	0.87
183_F	211_L	0.569	0.87
56_A	59_A	0.567	0.87
37_M	85_L	0.565	0.87
223_I	358_A	0.565	0.87
112_W	116_A	0.564	0.86
270_Y	308_A	0.564	0.86
333_I	361_I	0.562	0.86
331_T	334_G	0.561	0.86
346_I	357_V	0.561	0.86
307_I	316_F	0.561	0.86
80_L	83_P	0.560	0.86
118_R	122_K	0.556	0.86
89_A	105_L	0.551	0.85
15_D	243_R	0.551	0.85
52_T	55_A	0.551	0.85
189_L	192_P	0.548	0.85
133_T	185_R	0.547	0.85
168_F	214_G	0.546	0.85
63_C	199_M	0.544	0.84
19_I	225_M	0.540	0.84
42_A	314_D	0.539	0.84
333_I	346_I	0.539	0.84
294_K	351_E	0.534	0.83
221_F	225_M	0.534	0.83
26_M	208_G	0.533	0.83
62_S	83_P	0.533	0.83
146_V	149_V	0.531	0.83
56_A	61_A	0.531	0.83
345_E	349_R	0.531	0.83
264_V	270_Y	0.531	0.83
140_V	146_V	0.529	0.83
25_N	243_R	0.529	0.83
166_T	179_F	0.529	0.83
17_S	21_E	0.529	0.83
229_R	241_Q	0.528	0.83
91_P	251_T	0.527	0.83
57_L	62_S	0.526	0.82
260_K	274_K	0.525	0.82
287_D	314_D	0.524	0.82
186_F	190_I	0.523	0.82
286_A	364_R	0.523	0.82
96_A	119_H	0.522	0.82
298_I	305_L	0.521	0.82
26_M	30_I	0.521	0.82
25_N	240_F	0.521	0.82
188_E	192_P	0.519	0.82
277_W	324_Y	0.519	0.82
83_P	126_H	0.516	0.81
280_T	315_Q	0.516	0.81
128_H	162_K	0.515	0.81
343_M	357_V	0.515	0.81
73_I	103_V	0.515	0.81
165_F	312_C	0.515	0.81
117_A	121_K	0.514	0.81
208_G	224_G	0.514	0.81
44_A	54_K	0.512	0.81
116_A	125_L	0.512	0.81
50_A	53_A	0.509	0.80
169_A	182_Q	0.509	0.80
34_V	215_F	0.509	0.80
133_T	169_A	0.509	0.80
355_Y	359_C	0.508	0.80
286_A	314_D	0.507	0.80
231_S	234_M	0.507	0.80
69_L	73_I	0.506	0.80
90_V	98_A	0.506	0.80
229_R	344_D	0.505	0.80
279_G	324_Y	0.505	0.80
62_S	82_A	0.505	0.80
129_L	140_V	0.505	0.80
135_M	355_Y	0.504	0.80
153_L	159_L	0.504	0.80
141_K	259_R	0.504	0.80
109_S	112_W	0.503	0.80
30_I	215_F	0.502	0.79
152_I	156_N	0.502	0.79
49_D	78_K	0.501	0.79
85_L	106_T	0.500	0.79
302_G	341_I	0.500	0.79

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
1bd0A	2	0.9743	100	0.258	Contact Map
2vd8A	2	0.9383	100	0.262	Contact Map
3hurA	4	0.9614	100	0.27	Contact Map
3e5pA	2	0.9434	100	0.278	Contact Map
4a3qA	2	0.9126	100	0.28	Contact Map
3co8A	2	0.9357	100	0.285	Contact Map
3s46A	2	0.9383	100	0.296	Contact Map
4lusA	2	0.9614	100	0.318	Contact Map
3kw3A	2	0.9075	100	0.321	Contact Map
1vfsA	2	0.9589	100	0.321	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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