MFNA - HALSA - GREMLIN Contacts

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MFNA - L-tyrosine decarboxylase

UniProt:	Q9HSA3	Sequences: MTRGEARRPPQEFDRVLSSMCTTPHPAAREAAQAFLATNPGDPETYPAVAERERDAVALLGEIVGLSSPHGYIAAGGTEANLQAVRAARNRADADAVNVVAPASAHFSFQKAADVLGVELRLAPTDGDHRADVAAVADLVDGDTAVVVGVAGTTEYGRVDPIPALADIAAGVDANLHVDAAWGGFVLPFTDHDWSFADAPVNTMAIDPHKMGQAPVPAGGFLARDPETLDALAIETPYLESDTQPTLGGTRSGAGVAGALASLRALWPDGYREQYERTQGNAEYLAAELAARGYDVVDPELPLVAADMPDAEFQALREEGWRISRTASDALRVVCMPHVTREMLAAFLDDVDALA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	355 (316)
Sequences:	35395 (23723)
Seq/√Len:	1334.5

ECOLI - CSDA SUFS ISCS DCEB DCEA SERC LTAE
BACSU - YCBU ISCS SUFS ISCS2 PUCG ISCS1 SERC
HALSA - MFNA CSD Q9HR11 Q9HMR6 Q9HHV3
SULSO - Q97WK1 Q97ZK0 Q97VM5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
98_N	121_R	3.331	1.00
284_Y	345_A	3.306	1.00
166_A	176_L	3.284	1.00
284_Y	341_R	3.252	1.00
288_E	348_L	3.217	1.00
151_A	183_G	2.929	1.00
161_P	164_A	2.902	1.00
137_A	168_I	2.725	1.00
59_L	264_R	2.694	1.00
180_A	204_M	2.543	1.00
103_A	124_P	2.516	1.00
98_N	119_E	2.463	1.00
98_N	141_D	2.380	1.00
206_I	220_G	2.370	1.00
137_A	171_G	2.360	1.00
261_A	264_R	2.326	1.00
169_A	174_A	2.322	1.00
284_Y	288_E	2.225	1.00
252_S	255_G	2.210	1.00
147_V	169_A	2.182	1.00
166_A	170_A	2.137	1.00
295_D	307_D	2.113	1.00
135_A	138_D	2.096	1.00
26_P	30_E	2.083	1.00
288_E	345_A	2.003	1.00
288_E	291_A	1.988	1.00
190_T	193_D	1.964	1.00
163_P	193_D	1.949	1.00
124_P	135_A	1.893	1.00
109_F	113_A	1.890	1.00
277_R	281_N	1.880	1.00
346_A	350_D	1.871	1.00
319_E	350_D	1.853	1.00
280_G	341_R	1.844	1.00
135_A	139_L	1.842	1.00
333_V	347_F	1.840	1.00
132_D	135_A	1.840	1.00
33_Q	37_A	1.828	1.00
163_P	167_D	1.821	1.00
98_N	143_D	1.807	1.00
65_G	190_T	1.798	1.00
98_N	144_T	1.792	1.00
149_G	165_L	1.774	1.00
295_D	309_P	1.720	1.00
126_D	130_R	1.707	1.00
121_R	139_L	1.706	1.00
75_A	79_E	1.705	1.00
97_V	143_D	1.693	1.00
178_V	201_V	1.679	1.00
97_V	145_A	1.677	1.00
297_V	307_D	1.640	1.00
81_N	108_S	1.638	1.00
133_V	164_A	1.627	1.00
169_A	176_L	1.623	1.00
59_L	260_L	1.601	1.00
30_E	34_A	1.583	1.00
285_L	335_C	1.566	1.00
84_A	203_T	1.558	1.00
168_I	172_V	1.543	1.00
167_D	171_G	1.542	1.00
283_E	287_A	1.519	1.00
164_A	167_D	1.519	1.00
29_R	33_Q	1.519	1.00
170_A	202_N	1.509	1.00
276_E	280_G	1.500	1.00
34_A	38_T	1.499	1.00
62_E	267_W	1.473	1.00
133_V	168_I	1.471	1.00
170_A	200_P	1.455	1.00
315_A	318_E	1.452	1.00
282_A	286_A	1.443	1.00
279_Q	283_E	1.441	1.00
74_A	80_A	1.440	1.00
70_H	225_D	1.439	1.00
137_A	172_V	1.435	1.00
146_V	177_H	1.408	1.00
109_F	112_A	1.403	1.00
26_P	37_A	1.386	1.00
201_V	204_M	1.369	1.00
55_D	260_L	1.363	1.00
149_G	176_L	1.360	1.00
272_R	276_E	1.354	1.00
286_A	290_A	1.350	1.00
275_Y	279_Q	1.349	1.00
81_N	177_H	1.344	1.00
103_A	122_L	1.340	1.00
112_A	116_L	1.335	1.00
224_R	227_E	1.333	1.00
208_P	259_A	1.330	1.00
30_E	33_Q	1.328	1.00
285_L	344_L	1.324	1.00
55_D	59_L	1.316	1.00
167_D	200_P	1.316	1.00
341_R	345_A	1.311	1.00
166_A	200_P	1.310	1.00
140_V	168_I	1.306	1.00
281_N	341_R	1.303	1.00
237_P	240_E	1.297	1.00
60_L	220_G	1.285	1.00
305_A	330_A	1.284	1.00
134_A	138_D	1.278	1.00
111_K	114_D	1.270	1.00
126_D	132_D	1.265	1.00
184_G	206_I	1.263	1.00
77_G	181_A	1.256	1.00
315_A	319_E	1.255	1.00
110_Q	114_D	1.253	1.00
340_T	343_M	1.250	1.00
168_I	171_G	1.239	1.00
58_A	68_S	1.216	1.00
288_E	352_D	1.214	1.00
96_A	145_A	1.204	1.00
213_Q	336_M	1.204	1.00
56_A	260_L	1.201	1.00
58_A	62_E	1.200	1.00
203_T	223_A	1.196	1.00
177_H	205_A	1.190	1.00
287_A	291_A	1.185	1.00
58_A	61_G	1.183	1.00
346_A	349_D	1.180	1.00
123_A	139_L	1.180	1.00
287_A	290_A	1.178	1.00
134_A	137_A	1.176	1.00
260_L	264_R	1.173	1.00
141_D	172_V	1.162	1.00
69_P	225_D	1.162	1.00
86_R	239_L	1.158	1.00
31_A	261_A	1.151	1.00
67_S	225_D	1.150	1.00
215_P	258_G	1.150	1.00
59_L	267_W	1.138	1.00
100_V	139_L	1.134	1.00
162_I	178_V	1.129	1.00
321_W	346_A	1.128	1.00
29_R	37_A	1.128	1.00
88_A	175_N	1.118	1.00
80_A	205_A	1.115	1.00
149_G	162_I	1.115	1.00
101_A	122_L	1.109	1.00
286_A	304_V	1.107	1.00
236_T	240_E	1.107	1.00
270_G	273_E	1.104	1.00
137_A	141_D	1.103	1.00
51_E	55_D	1.098	1.00
321_W	347_F	1.095	1.00
32_A	258_G	1.091	1.00
136_V	165_L	1.087	1.00
152_G	300_E	1.084	1.00
238_Y	241_S	1.082	1.00
39_N	48_A	1.080	1.00
137_A	164_A	1.077	1.00
277_R	280_G	1.076	1.00
59_L	62_E	1.075	1.00
152_G	183_G	1.072	1.00
24_P	29_R	1.070	1.00
111_K	115_V	1.063	1.00
202_N	224_R	1.056	1.00
110_Q	113_A	1.049	1.00
112_A	115_V	1.049	1.00
31_A	34_A	1.049	1.00
67_S	192_H	1.041	1.00
300_E	303_L	1.038	1.00
323_I	333_V	1.036	1.00
136_V	147_V	1.035	1.00
286_A	296_V	1.030	1.00
147_V	174_A	1.029	1.00
133_V	137_A	1.029	1.00
273_E	276_E	1.027	1.00
99_V	113_A	1.025	1.00
281_N	344_L	1.025	1.00
63_I	184_G	1.013	1.00
323_I	331_L	1.007	1.00
175_N	203_T	1.005	1.00
52_R	257_A	1.003	1.00
163_P	199_A	1.001	1.00
314_Q	318_E	1.000	1.00
270_G	274_Q	0.998	1.00
39_N	42_D	0.995	1.00
71_G	222_L	0.994	1.00
183_G	204_M	0.993	1.00
148_V	177_H	0.991	1.00
239_L	243_T	0.989	1.00
302_P	305_A	0.987	1.00
100_V	144_T	0.980	1.00
88_A	203_T	0.975	1.00
191_D	222_L	0.970	1.00
151_A	204_M	0.968	1.00
342_E	345_A	0.962	1.00
64_V	206_I	0.960	1.00
159_V	187_L	0.957	1.00
150_V	154_T	0.955	1.00
65_G	192_H	0.954	1.00
293_G	309_P	0.951	1.00
211_M	259_A	0.951	1.00
274_Q	277_R	0.947	1.00
345_A	349_D	0.945	1.00
141_D	144_T	0.945	1.00
104_S	160_D	0.933	1.00
188_P	272_R	0.931	1.00
306_A	333_V	0.931	1.00
310_D	313_F	0.918	1.00
285_L	347_F	0.918	1.00
273_E	277_R	0.914	1.00
177_H	203_T	0.914	1.00
282_A	304_V	0.913	1.00
321_W	350_D	0.906	1.00
126_D	135_A	0.904	1.00
97_V	119_E	0.903	1.00
32_A	36_L	0.903	1.00
288_E	349_D	0.901	1.00
274_Q	337_P	0.899	1.00
119_E	141_D	0.899	1.00
86_R	115_V	0.896	1.00
225_D	228_T	0.894	1.00
314_Q	317_R	0.893	1.00
291_A	352_D	0.890	1.00
244_Q	248_G	0.888	1.00
274_Q	278_T	0.887	1.00
170_A	176_L	0.880	1.00
151_A	199_A	0.876	1.00
335_C	344_L	0.875	1.00
203_T	227_E	0.875	1.00
67_S	70_H	0.874	1.00
40_P	43_P	0.873	1.00
166_A	199_A	0.871	1.00
103_A	125_T	0.864	1.00
339_V	344_L	0.863	1.00
238_Y	243_T	0.858	1.00
140_V	172_V	0.856	1.00
307_D	329_D	0.852	1.00
133_V	136_V	0.846	1.00
289_L	306_A	0.845	1.00
152_G	301_L	0.844	1.00
53_E	256_V	0.843	1.00
339_V	343_M	0.843	1.00
110_Q	122_L	0.840	1.00
48_A	51_E	0.834	1.00
348_L	352_D	0.834	1.00
297_V	330_A	0.834	1.00
101_A	113_A	0.833	1.00
342_E	346_A	0.833	1.00
109_F	116_L	0.823	1.00
54_R	58_A	0.822	1.00
175_N	227_E	0.818	1.00
81_N	205_A	0.815	1.00
54_R	57_V	0.814	1.00
316_L	323_I	0.813	1.00
238_Y	242_D	0.812	1.00
147_V	165_L	0.810	1.00
286_A	300_E	0.808	1.00
169_A	173_D	0.806	1.00
208_P	218_A	0.806	1.00
140_V	144_T	0.801	1.00
59_L	63_I	0.801	1.00
104_S	108_S	0.798	1.00
44_E	48_A	0.795	1.00
109_F	115_V	0.793	1.00
64_V	222_L	0.791	1.00
140_V	174_A	0.790	1.00
164_A	168_I	0.784	1.00
55_D	264_R	0.782	1.00
89_R	118_V	0.781	1.00
121_R	141_D	0.780	1.00
189_F	192_H	0.780	1.00
88_A	92_A	0.778	1.00
115_V	239_L	0.778	1.00
56_A	59_L	0.777	1.00
223_A	228_T	0.776	1.00
25_H	265_A	0.769	1.00
237_P	241_S	0.764	1.00
221_F	224_R	0.764	1.00
109_F	148_V	0.764	1.00
150_V	153_T	0.761	1.00
184_G	211_M	0.759	1.00
239_L	242_D	0.759	1.00
285_L	333_V	0.758	1.00
27_A	265_A	0.757	1.00
124_P	139_L	0.756	1.00
280_G	284_Y	0.756	1.00
29_R	36_L	0.753	1.00
240_E	243_T	0.751	1.00
61_G	66_L	0.751	1.00
285_L	304_V	0.740	1.00
294_Y	308_M	0.737	1.00
300_E	305_A	0.734	1.00
200_P	224_R	0.734	1.00
151_A	189_F	0.730	1.00
101_A	105_A	0.729	1.00
72_Y	83_Q	0.728	1.00
26_P	29_R	0.726	1.00
183_G	187_L	0.724	1.00
285_L	348_L	0.720	1.00
86_R	90_N	0.719	1.00
163_P	200_P	0.719	1.00
99_V	146_V	0.717	1.00
113_A	120_L	0.716	1.00
336_M	339_V	0.713	1.00
180_A	183_G	0.713	1.00
55_D	58_A	0.712	1.00
63_I	263_L	0.710	1.00
213_Q	337_P	0.701	1.00
45_T	322_R	0.698	1.00
214_A	217_P	0.692	1.00
180_A	184_G	0.692	1.00
347_F	351_V	0.692	1.00
101_A	120_L	0.691	1.00
102_P	105_A	0.690	1.00
130_R	160_D	0.690	1.00
66_L	70_H	0.689	1.00
208_P	214_A	0.685	1.00
236_T	239_L	0.684	1.00
121_R	144_T	0.681	1.00
269_D	273_E	0.680	1.00
188_P	275_Y	0.679	1.00
169_A	172_V	0.678	1.00
184_G	189_F	0.677	1.00
237_P	243_T	0.676	1.00
300_E	304_V	0.675	1.00
25_H	28_A	0.674	1.00
218_A	255_G	0.674	1.00
175_N	202_N	0.673	1.00
77_G	81_N	0.669	1.00
285_L	289_L	0.669	1.00
285_L	288_E	0.668	1.00
260_L	263_L	0.667	1.00
61_G	68_S	0.665	1.00
52_R	55_D	0.665	1.00
59_L	263_L	0.665	1.00
151_A	162_I	0.661	1.00
84_A	177_H	0.660	1.00
44_E	317_R	0.660	1.00
261_A	265_A	0.660	1.00
176_L	201_V	0.658	1.00
297_V	305_A	0.657	1.00
210_K	332_R	0.656	1.00
39_N	43_P	0.654	1.00
317_R	322_R	0.654	1.00
284_Y	344_L	0.654	1.00
101_A	148_V	0.653	1.00
64_V	191_D	0.652	1.00
284_Y	287_A	0.651	1.00
166_A	201_V	0.651	1.00
27_A	30_E	0.651	1.00
286_A	299_P	0.650	1.00
185_F	188_P	0.649	1.00
278_T	302_P	0.648	1.00
324_S	327_A	0.648	1.00
253_G	257_A	0.646	1.00
62_E	65_G	0.646	1.00
266_L	270_G	0.640	1.00
237_P	242_D	0.634	1.00
262_S	265_A	0.633	1.00
211_M	263_L	0.630	1.00
56_A	256_V	0.627	1.00
167_D	170_A	0.626	1.00
66_L	204_M	0.625	1.00
193_D	199_A	0.622	1.00
88_A	146_V	0.621	1.00
100_V	123_A	0.620	1.00
345_A	348_L	0.618	1.00
34_A	39_N	0.618	1.00
84_A	221_F	0.616	1.00
66_L	222_L	0.615	1.00
244_Q	247_L	0.615	1.00
253_G	256_V	0.615	1.00
347_F	350_D	0.615	1.00
100_V	121_R	0.615	1.00
290_A	296_V	0.615	1.00
114_D	122_L	0.614	1.00
50_A	54_R	0.612	1.00
111_K	116_L	0.610	1.00
142_G	172_V	0.609	1.00
77_G	205_A	0.608	1.00
289_L	294_Y	0.608	1.00
264_R	267_W	0.608	1.00
128_D	298_D	0.607	1.00
74_A	83_Q	0.607	1.00
276_E	279_Q	0.605	1.00
102_P	149_G	0.603	1.00
113_A	116_L	0.602	1.00
119_E	143_D	0.599	1.00
31_A	35_F	0.597	1.00
98_N	142_G	0.597	1.00
136_V	140_V	0.596	1.00
166_A	178_V	0.594	1.00
35_F	52_R	0.593	1.00
82_L	86_R	0.591	1.00
181_A	207_D	0.590	1.00
266_L	271_Y	0.590	1.00
271_Y	275_Y	0.589	1.00
133_V	165_L	0.588	1.00
34_A	37_A	0.586	1.00
190_T	199_A	0.586	1.00
38_T	42_D	0.585	1.00
151_A	178_V	0.585	1.00
64_V	184_G	0.585	1.00
60_L	263_L	0.584	1.00
301_L	305_A	0.584	1.00
27_A	31_A	0.582	1.00
309_P	312_E	0.582	1.00
284_Y	348_L	0.581	1.00
136_V	168_I	0.577	1.00
259_A	262_S	0.576	1.00
301_L	304_V	0.576	1.00
289_L	348_L	0.573	1.00
26_P	33_Q	0.572	1.00
90_N	115_V	0.572	1.00
263_L	267_W	0.572	1.00
109_F	114_D	0.571	1.00
302_P	307_D	0.570	1.00
255_G	258_G	0.569	1.00
272_R	275_Y	0.569	1.00
37_A	40_P	0.568	1.00
83_Q	87_A	0.567	1.00
303_L	334_V	0.566	1.00
292_R	352_D	0.565	1.00
258_G	262_S	0.563	1.00
250_T	253_G	0.561	1.00
92_A	96_A	0.559	1.00
123_A	135_A	0.558	1.00
349_D	352_D	0.558	1.00
280_G	283_E	0.557	1.00
236_T	241_S	0.557	1.00
33_Q	36_L	0.557	1.00
37_A	42_D	0.553	1.00
166_A	169_A	0.551	1.00
264_R	268_P	0.550	1.00
281_N	285_L	0.549	1.00
38_T	43_P	0.548	1.00
277_R	341_R	0.548	1.00
182_W	185_F	0.547	1.00
24_P	28_A	0.547	1.00
149_G	178_V	0.547	1.00
278_T	335_C	0.545	1.00
52_R	260_L	0.543	1.00
262_S	266_L	0.543	1.00
110_Q	116_L	0.542	1.00
203_T	221_F	0.541	1.00
213_Q	216_V	0.541	1.00
259_A	263_L	0.540	1.00
27_A	261_A	0.539	1.00
60_L	73_I	0.538	1.00
275_Y	278_T	0.538	1.00
218_A	256_V	0.537	1.00
151_A	159_V	0.535	1.00
104_S	107_F	0.535	1.00
288_E	344_L	0.535	1.00
32_A	35_F	0.534	1.00
289_L	351_V	0.534	1.00
70_H	192_H	0.531	1.00
220_G	223_A	0.530	1.00
307_D	330_A	0.529	1.00
82_L	115_V	0.529	1.00
189_F	204_M	0.528	1.00
70_H	224_R	0.528	1.00
307_D	311_A	0.526	1.00
85_V	109_F	0.523	1.00
308_M	311_A	0.522	1.00
107_F	111_K	0.520	1.00
130_R	298_D	0.518	1.00
150_V	160_D	0.518	1.00
279_Q	282_A	0.514	1.00
137_A	140_V	0.513	1.00
89_R	146_V	0.513	1.00
302_P	308_M	0.512	1.00
81_N	148_V	0.510	1.00
110_Q	115_V	0.508	1.00
162_I	166_A	0.508	1.00
146_V	175_N	0.503	1.00
104_S	125_T	0.503	1.00
28_A	262_S	0.503	1.00
223_A	226_P	0.502	1.00
165_L	176_L	0.502	1.00
113_A	118_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
3e9kA	2	0.9775	100	0.354	Contact Map
3f9tA	2	0.9972	100	0.367	Contact Map
4ritB	2	0.9775	100	0.367	Contact Map
3vp6A	2	0.9972	100	0.38	Contact Map
2jisA	2	0.9972	100	0.381	Contact Map
1js3A	2	0.9662	100	0.382	Contact Map
4e1oA	2	0.9972	100	0.389	Contact Map
3k40A	2	0.9408	100	0.389	Contact Map
2qmaA	2	0.9465	100	0.39	Contact Map
1kmjA	2	0.9803	100	0.394	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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