Q9HSD9 - HALSA - GREMLIN Contacts

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Q9HSD9 - Sarcosine oxidase

UniProt:	Q9HSD9	Sequences: MTRTDAASDRRVAVIGAGAVGLTAAHDLAERGVDVTVYERDTVAAASTGRAAGICYDAFADAVDARVAARAIERFRELSGHGAFTVAETPYVWFATEPGATADAIREQVAAMQRHGRAVEHADADALAAAVPALHTTDIVAAAIARDAAVVDTTAYARLIADRARDRGVEIRTHEPASVATDPVRVNGTAYDDVVVAAGAHTARVLADAGVPVPLKPYRVQALTADAPAAELPTVYDATAGYYVRPHPEGVLAGDGTEPVEADPDDYGRDGDDWFVDAMDDRLRDRFPGYEPAVERSWAGLCTATPDRDPLLGELRDGLYVAAGWQGHGFMRAPATGAALADDVLGGDGVPAFDPTRFDGTEQFAIAEGMIVE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	373 (334)
Sequences:	26037 (18497)
Seq/√Len:	1012.1

ECOLI - PUUB LHGO MTOX GLPA MNMC GLPD DADA MQO
BACSU - YURR GLOX YHFW GLPD
HALSA - Q9HSD9 Q9HNS4
SULSO - Q980U0 Q97VT4 Q97ZD5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
164_A	169_V	5.136	1.00
10_R	36_T	4.060	1.00
11_R	192_D	3.232	1.00
13_A	191_Y	2.973	1.00
11_R	34_D	2.858	1.00
40_R	176_P	2.854	1.00
76_R	88_E	2.833	1.00
226_D	293_A	2.808	1.00
36_T	172_R	2.789	1.00
127_L	142_A	2.673	1.00
13_A	38_Y	2.655	1.00
123_D	126_A	2.580	1.00
12_V	28_L	2.535	1.00
30_E	81_H	2.511	1.00
70_R	338_A	2.504	1.00
29_A	167_R	2.426	1.00
33_V	345_L	2.426	1.00
34_D	170_E	2.353	1.00
120_E	126_A	2.235	1.00
102_A	141_A	2.209	1.00
29_A	169_V	2.179	1.00
12_V	33_V	2.092	1.00
24_A	195_V	2.082	1.00
220_V	302_C	2.077	1.00
27_D	338_A	2.072	1.00
77_E	81_H	2.040	1.00
126_A	129_A	2.014	1.00
9_D	190_A	1.972	1.00
22_L	157_A	1.948	1.00
322_A	336_T	1.932	1.00
193_D	320_Y	1.910	1.00
22_L	161_A	1.897	1.00
342_D	347_G	1.892	1.00
31_R	345_L	1.873	1.00
26_H	163_R	1.871	1.00
325_W	336_T	1.860	1.00
9_D	192_D	1.843	1.00
31_R	347_G	1.833	1.00
118_A	147_D	1.803	1.00
43_V	173_T	1.788	1.00
277_D	281_D	1.782	1.00
29_A	164_A	1.773	1.00
120_E	146_R	1.771	1.00
110_A	114_R	1.761	1.00
26_H	30_E	1.753	1.00
320_Y	340_L	1.745	1.00
322_A	340_L	1.744	1.00
27_D	337_G	1.741	1.00
106_R	121_H	1.735	1.00
17_A	43_V	1.731	1.00
202_T	323_A	1.717	1.00
74_R	338_A	1.708	1.00
30_E	167_R	1.697	1.00
124_A	128_A	1.693	1.00
195_V	344_V	1.688	1.00
233_P	236_Y	1.679	1.00
320_Y	344_V	1.674	1.00
85_T	155_A	1.666	1.00
10_R	170_E	1.665	1.00
109_V	113_Q	1.656	1.00
10_R	13_A	1.654	1.00
163_R	166_D	1.631	1.00
43_V	161_A	1.617	1.00
163_R	167_R	1.603	1.00
196_V	202_T	1.595	1.00
225_A	228_P	1.590	1.00
90_P	144_I	1.584	1.00
110_A	113_Q	1.553	1.00
27_D	31_R	1.546	1.00
74_R	77_E	1.546	1.00
120_E	144_I	1.539	1.00
20_V	322_A	1.521	1.00
75_F	156_Y	1.520	1.00
162_D	166_D	1.520	1.00
106_R	110_A	1.502	1.00
162_D	165_R	1.498	1.00
31_R	341_A	1.496	1.00
20_V	325_W	1.495	1.00
193_D	344_V	1.493	1.00
31_R	342_D	1.478	1.00
24_A	322_A	1.468	1.00
152_D	155_A	1.463	1.00
38_Y	191_Y	1.457	1.00
161_A	171_I	1.453	1.00
42_T	173_T	1.450	1.00
17_A	37_V	1.439	1.00
226_D	295_E	1.434	1.00
161_A	165_R	1.415	1.00
70_R	73_E	1.411	1.00
27_D	30_E	1.411	1.00
122_A	126_A	1.408	1.00
13_A	36_T	1.407	1.00
11_R	33_V	1.400	1.00
276_V	297_S	1.400	1.00
280_D	284_R	1.383	1.00
196_V	319_L	1.379	1.00
232_L	235_V	1.374	1.00
28_L	341_A	1.364	1.00
23_T	27_D	1.351	1.00
196_V	321_V	1.344	1.00
41_D	45_A	1.326	1.00
273_D	277_D	1.321	1.00
11_R	36_T	1.312	1.00
103_D	106_R	1.311	1.00
172_R	175_E	1.309	1.00
15_I	198_A	1.307	1.00
86_V	149_A	1.304	1.00
41_D	46_A	1.298	1.00
98_P	140_V	1.291	1.00
19_A	333_A	1.289	1.00
130_A	144_I	1.285	1.00
73_E	77_E	1.283	1.00
12_V	193_D	1.280	1.00
102_A	106_R	1.274	1.00
191_Y	194_V	1.265	1.00
233_P	237_D	1.257	1.00
338_A	342_D	1.254	1.00
322_A	325_W	1.249	1.00
125_D	129_A	1.242	1.00
50_R	298_W	1.239	1.00
337_G	341_A	1.237	1.00
315_L	321_V	1.223	1.00
320_Y	343_D	1.218	1.00
185_R	190_A	1.218	1.00
77_E	80_G	1.211	1.00
25_A	35_V	1.208	1.00
22_L	37_V	1.206	1.00
126_A	130_A	1.206	1.00
22_L	164_A	1.198	1.00
14_V	25_A	1.193	1.00
95_A	105_I	1.184	1.00
122_A	130_A	1.180	1.00
232_L	236_Y	1.178	1.00
339_A	342_D	1.167	1.00
10_R	34_D	1.161	1.00
15_I	194_V	1.160	1.00
97_E	100_A	1.157	1.00
17_A	39_E	1.155	1.00
38_Y	172_R	1.149	1.00
76_R	80_G	1.146	1.00
24_A	197_A	1.142	1.00
82_G	163_R	1.138	1.00
37_V	171_I	1.126	1.00
198_A	202_T	1.124	1.00
198_A	205_V	1.123	1.00
26_H	167_R	1.119	1.00
36_T	170_E	1.108	1.00
107_E	110_A	1.097	1.00
44_A	157_A	1.090	1.00
120_E	130_A	1.083	1.00
196_V	206_L	1.081	1.00
109_V	143_A	1.080	1.00
193_D	314_E	1.076	1.00
102_A	121_H	1.074	1.00
154_T	158_R	1.061	1.00
14_V	24_A	1.057	1.00
98_P	103_D	1.048	1.00
23_T	160_I	1.048	1.00
43_V	171_I	1.043	1.00
23_T	337_G	1.043	1.00
109_V	121_H	1.038	1.00
79_S	84_F	1.037	1.00
151_V	156_Y	1.035	1.00
179_V	194_V	1.035	1.00
25_A	37_V	1.034	1.00
204_R	207_A	1.030	1.00
40_R	175_E	1.030	1.00
75_F	333_A	1.028	1.00
24_A	337_G	1.026	1.00
312_L	336_T	1.025	1.00
151_V	330_F	1.023	1.00
182_D	190_A	1.021	1.00
90_P	146_R	1.018	1.00
102_A	140_V	1.014	1.00
71_A	75_F	1.013	1.00
27_D	74_R	1.012	1.00
156_Y	334_P	1.012	1.00
159_L	163_R	1.011	1.00
253_A	283_L	1.008	1.00
243_Y	254_G	1.007	1.00
72_I	76_R	1.001	1.00
194_V	318_G	0.989	1.00
38_Y	177_A	0.988	1.00
28_L	33_V	0.987	1.00
314_E	317_D	0.981	1.00
281_D	285_D	0.980	1.00
70_R	74_R	0.979	1.00
13_A	186_V	0.974	1.00
281_D	284_R	0.966	1.00
310_P	313_G	0.965	1.00
272_D	275_F	0.950	1.00
103_D	107_E	0.948	1.00
22_L	171_I	0.946	1.00
25_A	169_V	0.945	1.00
23_T	333_A	0.945	1.00
35_V	169_V	0.938	1.00
70_R	335_A	0.938	1.00
234_T	237_D	0.937	1.00
205_V	208_D	0.937	1.00
197_A	322_A	0.937	1.00
310_P	314_E	0.923	1.00
314_E	343_D	0.922	1.00
156_Y	330_F	0.918	1.00
314_E	318_G	0.917	1.00
33_V	193_D	0.916	1.00
121_H	141_A	0.912	1.00
282_R	285_D	0.911	1.00
314_E	320_Y	0.909	1.00
92_V	127_L	0.907	1.00
31_R	338_A	0.905	1.00
69_A	73_E	0.900	1.00
10_R	192_D	0.898	1.00
193_D	318_G	0.895	1.00
193_D	196_V	0.895	1.00
341_A	344_V	0.894	1.00
92_V	142_A	0.893	1.00
224_T	252_L	0.892	1.00
78_L	82_G	0.890	1.00
19_A	48_T	0.885	1.00
53_G	153_T	0.883	1.00
87_A	150_V	0.882	1.00
218_Y	304_A	0.879	1.00
71_A	335_A	0.878	1.00
118_A	146_R	0.866	1.00
39_E	42_T	0.863	1.00
224_T	296_R	0.861	1.00
182_D	185_R	0.861	1.00
181_T	184_V	0.857	1.00
75_F	79_S	0.848	1.00
231_E	235_V	0.843	1.00
164_A	171_I	0.842	1.00
31_R	346_G	0.840	1.00
276_V	280_D	0.839	1.00
56_Y	328_H	0.834	1.00
92_V	144_I	0.831	1.00
50_R	300_G	0.830	1.00
225_A	253_A	0.828	1.00
97_E	101_T	0.827	1.00
9_D	34_D	0.826	1.00
124_A	127_L	0.826	1.00
305_T	324_G	0.826	1.00
221_Q	258_E	0.825	1.00
12_V	195_V	0.822	1.00
25_A	164_A	0.819	1.00
113_Q	119_V	0.819	1.00
225_A	294_V	0.818	1.00
113_Q	118_A	0.817	1.00
219_R	258_E	0.812	1.00
75_F	334_P	0.812	1.00
23_T	156_Y	0.808	1.00
159_L	162_D	0.806	1.00
223_L	294_V	0.803	1.00
215_L	303_T	0.803	1.00
85_T	152_D	0.802	1.00
308_R	312_L	0.800	1.00
42_T	174_H	0.797	1.00
328_H	331_M	0.796	1.00
122_A	127_L	0.793	1.00
47_S	200_A	0.790	1.00
155_A	158_R	0.789	1.00
28_L	344_V	0.788	1.00
342_D	349_G	0.786	1.00
284_R	291_E	0.785	1.00
156_Y	160_I	0.783	1.00
26_H	160_I	0.781	1.00
88_E	147_D	0.781	1.00
66_R	70_R	0.775	1.00
278_A	281_D	0.772	1.00
258_E	275_F	0.770	1.00
180_A	185_R	0.770	1.00
309_D	312_L	0.769	1.00
312_L	340_L	0.766	1.00
219_R	299_A	0.765	1.00
310_P	315_L	0.763	1.00
52_A	243_Y	0.760	1.00
19_A	157_A	0.760	1.00
121_H	143_A	0.757	1.00
13_A	194_V	0.757	1.00
128_A	135_H	0.755	1.00
37_V	169_V	0.755	1.00
125_D	128_A	0.753	1.00
24_A	344_V	0.753	1.00
48_T	51_A	0.752	1.00
165_R	171_I	0.752	1.00
42_T	45_A	0.751	1.00
284_R	290_Y	0.746	1.00
127_L	130_A	0.745	1.00
280_D	297_S	0.744	1.00
34_D	192_D	0.744	1.00
217_P	301_L	0.742	1.00
256_G	302_C	0.739	1.00
222_A	298_W	0.738	1.00
127_L	139_I	0.736	1.00
278_A	282_R	0.733	1.00
71_A	74_R	0.733	1.00
181_T	318_G	0.727	1.00
179_V	209_A	0.726	1.00
231_E	237_D	0.724	1.00
56_Y	331_M	0.724	1.00
95_A	102_A	0.722	1.00
48_T	157_A	0.722	1.00
192_D	318_G	0.722	1.00
157_A	161_A	0.718	1.00
30_E	163_R	0.717	1.00
74_R	334_P	0.717	1.00
223_L	279_M	0.716	1.00
122_A	144_I	0.713	1.00
92_V	122_A	0.712	1.00
207_A	212_P	0.710	1.00
174_H	177_A	0.709	1.00
242_Y	245_R	0.706	1.00
23_T	334_P	0.705	1.00
181_T	317_D	0.705	1.00
15_I	196_V	0.704	1.00
238_A	241_G	0.704	1.00
40_R	201_H	0.701	1.00
109_V	119_V	0.701	1.00
24_A	340_L	0.700	1.00
106_R	141_A	0.700	1.00
175_E	187_N	0.699	1.00
37_V	161_A	0.698	1.00
341_A	345_L	0.697	1.00
195_V	340_L	0.694	1.00
135_H	138_D	0.694	1.00
232_L	237_D	0.693	1.00
11_R	191_Y	0.693	1.00
104_A	107_E	0.687	1.00
11_R	190_A	0.686	1.00
220_V	256_G	0.685	1.00
54_I	243_Y	0.684	1.00
206_L	321_V	0.683	1.00
201_H	204_R	0.677	1.00
29_A	34_D	0.675	1.00
74_R	335_A	0.674	1.00
111_A	114_R	0.673	1.00
214_P	306_P	0.673	1.00
161_A	173_T	0.668	1.00
112_M	119_V	0.668	1.00
335_A	338_A	0.668	1.00
19_A	330_F	0.665	1.00
27_D	341_A	0.665	1.00
305_T	311_L	0.662	1.00
40_R	46_A	0.659	1.00
108_Q	112_M	0.658	1.00
322_A	337_G	0.657	1.00
57_D	69_A	0.655	1.00
68_A	332_R	0.654	1.00
155_A	159_L	0.653	1.00
20_V	336_T	0.650	1.00
91_Y	148_A	0.650	1.00
164_A	168_G	0.648	1.00
66_R	69_A	0.648	1.00
240_A	245_R	0.647	1.00
165_R	170_E	0.647	1.00
303_T	325_W	0.646	1.00
38_Y	175_E	0.646	1.00
231_E	234_T	0.644	1.00
73_E	76_R	0.643	1.00
36_T	191_Y	0.642	1.00
59_F	331_M	0.642	1.00
55_C	86_V	0.641	1.00
180_A	183_P	0.637	1.00
105_I	109_V	0.637	1.00
65_A	69_A	0.636	1.00
325_W	333_A	0.634	1.00
37_V	164_A	0.633	1.00
13_A	192_D	0.631	1.00
84_F	159_L	0.629	1.00
315_L	319_L	0.625	1.00
39_E	173_T	0.624	1.00
231_E	236_Y	0.619	1.00
15_I	177_A	0.617	1.00
219_R	268_G	0.616	1.00
138_D	285_D	0.615	1.00
106_R	109_V	0.614	1.00
56_Y	59_F	0.610	1.00
51_A	330_F	0.608	1.00
123_D	127_L	0.605	1.00
339_A	350_V	0.604	1.00
64_D	68_A	0.602	1.00
179_V	186_V	0.602	1.00
274_W	277_D	0.601	1.00
325_W	329_G	0.601	1.00
111_A	115_H	0.600	1.00
333_A	337_G	0.599	1.00
97_E	140_V	0.598	1.00
119_V	145_A	0.597	1.00
67_V	339_A	0.595	1.00
309_D	313_G	0.595	1.00
26_H	164_A	0.595	1.00
123_D	129_A	0.595	1.00
237_D	240_A	0.594	1.00
335_A	339_A	0.594	1.00
160_I	333_A	0.591	1.00
280_D	294_V	0.590	1.00
14_V	35_V	0.590	1.00
145_A	148_A	0.589	1.00
257_T	327_G	0.587	1.00
176_P	204_R	0.586	1.00
185_R	318_G	0.585	1.00
305_T	326_Q	0.583	1.00
256_G	275_F	0.577	1.00
277_D	280_D	0.576	1.00
313_G	321_V	0.575	1.00
56_Y	60_A	0.575	1.00
206_L	209_A	0.573	1.00
340_L	343_D	0.573	1.00
52_A	245_R	0.572	1.00
72_I	75_F	0.572	1.00
271_G	297_S	0.570	1.00
131_V	232_L	0.568	1.00
334_P	337_G	0.567	1.00
185_R	317_D	0.567	1.00
302_C	325_W	0.567	1.00
12_V	35_V	0.566	1.00
221_Q	272_D	0.564	1.00
303_T	324_G	0.564	1.00
32_G	35_V	0.563	1.00
54_I	148_A	0.563	1.00
62_A	66_R	0.562	1.00
67_V	335_A	0.561	1.00
184_V	319_L	0.561	1.00
44_A	49_G	0.560	1.00
128_A	137_T	0.560	1.00
113_Q	116_G	0.560	1.00
200_A	301_L	0.557	1.00
46_A	50_R	0.556	1.00
33_V	344_V	0.555	1.00
152_D	248_P	0.555	1.00
164_A	167_R	0.554	1.00
59_F	93_W	0.554	1.00
282_R	286_R	0.554	1.00
302_C	327_G	0.554	1.00
17_A	161_A	0.553	1.00
178_S	208_D	0.552	1.00
158_R	162_D	0.552	1.00
202_T	215_L	0.551	1.00
54_I	59_F	0.551	1.00
26_H	81_H	0.549	1.00
195_V	320_Y	0.548	1.00
221_Q	275_F	0.547	1.00
127_L	134_L	0.547	1.00
75_F	78_L	0.547	1.00
29_A	32_G	0.544	1.00
122_A	142_A	0.544	1.00
107_E	111_A	0.542	1.00
29_A	35_V	0.541	1.00
294_V	297_S	0.540	1.00
47_S	53_G	0.540	1.00
179_V	196_V	0.539	1.00
226_D	229_A	0.539	1.00
96_T	138_D	0.537	1.00
235_V	244_V	0.536	1.00
27_D	78_L	0.535	1.00
287_F	290_Y	0.534	1.00
92_V	130_A	0.533	1.00
47_S	303_T	0.533	1.00
98_P	102_A	0.533	1.00
124_A	137_T	0.532	1.00
206_L	319_L	0.531	1.00
271_G	276_V	0.531	1.00
308_R	313_G	0.528	1.00
313_G	316_R	0.528	1.00
211_V	321_V	0.527	1.00
221_Q	299_A	0.525	1.00
342_D	346_G	0.524	1.00
55_C	151_V	0.524	1.00
223_L	276_V	0.524	1.00
196_V	205_V	0.523	1.00
218_Y	257_T	0.523	1.00
55_C	331_M	0.521	1.00
112_M	116_G	0.521	1.00
76_R	86_V	0.519	1.00
17_A	25_A	0.519	1.00
153_T	330_F	0.519	1.00
304_A	327_G	0.518	1.00
108_Q	111_A	0.517	1.00
133_A	289_G	0.517	1.00
55_C	75_F	0.516	1.00
33_V	36_T	0.515	1.00
242_Y	282_R	0.515	1.00
273_D	276_V	0.513	1.00
180_A	189_T	0.513	1.00
154_T	296_R	0.512	1.00
215_L	323_A	0.512	1.00
179_V	319_L	0.511	1.00
120_E	129_A	0.511	1.00
19_A	156_Y	0.511	1.00
308_R	311_L	0.510	1.00
73_E	147_D	0.508	1.00
69_A	147_D	0.508	1.00
69_A	72_I	0.507	1.00
200_A	217_P	0.507	1.00
252_L	298_W	0.506	1.00
77_E	338_A	0.506	1.00
39_E	171_I	0.506	1.00
88_E	149_A	0.506	1.00
194_V	319_L	0.505	1.00
59_F	148_A	0.504	1.00
60_A	328_H	0.503	1.00
179_V	208_D	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
4h1bA	1	0.9437	100	0.319	Contact Map
1y56B	1	0.9491	100	0.351	Contact Map
3axbA	2	0.9464	100	0.352	Contact Map
2gf3A	1	0.9571	100	0.361	Contact Map
2gagB	1	0.9866	100	0.363	Contact Map
4x9mA	1	0.9357	100	0.374	Contact Map
4rslA	1	0.9812	100	0.377	Contact Map
1ryiA	4	0.9088	100	0.379	Contact Map
3pvcA	1	0.933	100	0.381	Contact Map
1pj5A	3	0.9678	100	0.388	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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