YTOP - BACSU - GREMLIN Contacts

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YTOP - Putative aminopeptidase YtoP

UniProt:	O34924	Sequences: MNQETKALFQTLTQLPGAPGNEHQVRAFMKQELAKYADDIVQDRLGSVFGVRRGAEDAPRIMVAGHMDEVGFMVTSITDNGLLRFQTLGGWWSQVLLAQRVEIQTDNGPVPGVISSIPPHLLTDAQRNRPMDIKNMMIDIGADDKEDAIKIGIRPGQQIVPVCPFTTMANEKKILSKAWDNRYGCGLSIELLKELHGKELPNTLYAGATVQEEVGLRGAQTASHMIKPDLFFALDASPANDMSGDKNEFGQLGKGFLLRILDRTTVMHRGMREFVLDMAETHDIPYQYFVSGGGTDAGKVHISNSGVPSAVIGICSRYIHTNATIIHIDDYAAAKEMLIKLVTACDKQTVDAIKENM	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	357 (336)
Sequences:	2601 (1692)
Seq/√Len:	92.3

ECOLI - SGCX FRVX YPDE
BACSU - YTOP YSDC YHFE
HALSA - Q9HPS1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
145_K	149_I	4.689	1.00
15_L	28_F	3.506	1.00
173_K	327_H	3.199	1.00
85_F	138_I	2.880	1.00
333_A	336_E	2.766	1.00
18_A	88_L	2.701	1.00
13_T	176_S	2.674	1.00
10_Q	14_Q	2.650	1.00
271_M	310_A	2.602	1.00
251_Q	254_K	2.593	1.00
142_A	148_A	2.588	1.00
190_E	193_K	2.541	1.00
104_Q	160_V	2.496	1.00
64_A	209_T	2.428	1.00
78_T	84_R	2.409	1.00
282_H	340_K	2.407	1.00
61_I	342_V	2.349	1.00
30_K	34_A	2.284	1.00
83_L	103_I	2.258	1.00
60_R	205_Y	2.245	1.00
285_P	333_A	2.190	1.00
30_K	42_Q	2.173	1.00
51_V	203_T	2.106	1.00
112_G	138_I	2.093	1.00
19_P	88_L	2.083	1.00
277_D	281_T	2.081	1.00
69_E	177_K	2.073	1.00
340_K	343_T	2.064	1.00
146_E	149_I	2.034	1.00
275_V	310_A	2.018	1.00
194_E	339_I	2.018	1.00
83_L	159_I	1.999	1.00
198_K	343_T	1.960	1.00
332_A	336_E	1.959	1.00
275_V	341_L	1.953	1.00
172_K	329_D	1.946	1.00
227_K	304_N	1.939	1.00
146_E	150_K	1.935	1.00
192_L	206_A	1.924	1.00
256_F	333_A	1.919	1.00
29_M	185_C	1.918	1.00
21_N	158_Q	1.908	1.00
31_Q	34_A	1.893	1.00
74_V	159_I	1.891	1.00
11_T	28_F	1.882	1.00
11_T	32_E	1.882	1.00
140_I	153_I	1.858	1.00
51_V	205_Y	1.840	1.00
79_D	145_K	1.800	1.00
140_I	148_A	1.753	1.00
53_R	203_T	1.747	1.00
17_G	25_V	1.725	1.00
260_I	288_Y	1.718	1.00
326_I	331_Y	1.707	1.00
11_T	31_Q	1.704	1.00
103_I	138_I	1.695	1.00
65_G	188_S	1.693	1.00
224_H	304_N	1.678	1.00
60_R	203_T	1.677	1.00
101_V	138_I	1.672	1.00
78_T	82_L	1.657	1.00
183_Y	331_Y	1.647	1.00
142_A	151_I	1.640	1.00
117_I	126_Q	1.630	1.00
258_L	286_Y	1.601	1.00
26_R	67_M	1.588	1.00
39_D	51_V	1.569	1.00
105_T	108_G	1.545	1.00
30_K	48_V	1.533	1.00
154_R	157_Q	1.520	1.00
62_M	300_V	1.484	1.00
54_G	203_T	1.471	1.00
154_R	280_E	1.469	1.00
64_A	296_D	1.467	1.00
111_P	166_T	1.467	1.00
37_A	50_G	1.463	1.00
194_E	336_E	1.462	1.00
17_G	182_R	1.458	1.00
220_Q	299_K	1.441	0.99
7_A	10_Q	1.439	0.99
278_M	282_H	1.426	0.99
32_E	193_K	1.424	0.99
62_M	222_A	1.423	0.99
40_I	48_V	1.410	0.99
32_E	35_K	1.405	0.99
85_F	136_M	1.405	0.99
47_S	221_T	1.404	0.99
73_M	86_Q	1.404	0.99
6_K	167_T	1.395	0.99
91_W	161_P	1.394	0.99
193_K	197_G	1.374	0.99
33_L	189_I	1.373	0.99
185_C	208_A	1.362	0.99
85_F	159_I	1.358	0.99
63_V	342_V	1.356	0.99
167_T	328_I	1.338	0.99
144_D	147_D	1.338	0.99
10_Q	165_F	1.334	0.99
212_E	320_H	1.334	0.99
174_I	179_W	1.315	0.99
74_V	83_L	1.306	0.99
62_M	207_G	1.306	0.99
77_I	148_A	1.304	0.99
191_L	338_L	1.286	0.99
7_A	11_T	1.285	0.99
29_M	189_I	1.279	0.99
172_K	327_H	1.276	0.99
274_F	341_L	1.272	0.99
316_S	319_I	1.270	0.99
62_M	228_P	1.268	0.99
187_L	334_A	1.263	0.99
72_F	96_L	1.257	0.99
276_L	286_Y	1.251	0.99
18_A	71_G	1.250	0.99
231_F	300_V	1.249	0.99
29_M	208_A	1.248	0.99
233_A	297_A	1.244	0.98
8_L	28_F	1.243	0.98
335_K	339_I	1.236	0.98
232_F	275_V	1.235	0.98
149_I	154_R	1.231	0.98
191_L	339_I	1.224	0.98
253_G	327_H	1.221	0.98
101_V	114_I	1.218	0.98
27_A	31_Q	1.206	0.98
143_D	147_D	1.201	0.98
213_E	320_H	1.198	0.98
19_P	71_G	1.192	0.98
16_P	102_E	1.177	0.98
41_V	225_M	1.175	0.98
13_T	165_F	1.173	0.98
237_S	257_L	1.156	0.98
183_Y	326_I	1.150	0.97
297_A	309_S	1.142	0.97
103_I	159_I	1.136	0.97
76_S	84_R	1.134	0.97
26_R	42_Q	1.134	0.97
62_M	226_I	1.120	0.97
191_L	335_K	1.117	0.97
8_L	32_E	1.113	0.97
256_F	334_A	1.109	0.97
87_T	93_S	1.108	0.97
83_L	140_I	1.105	0.97
205_Y	226_I	1.104	0.97
16_P	104_Q	1.098	0.97
67_M	185_C	1.095	0.97
274_F	278_M	1.094	0.97
100_R	166_T	1.089	0.96
236_A	319_I	1.087	0.96
88_L	158_Q	1.080	0.96
33_L	50_G	1.078	0.96
100_R	162_V	1.076	0.96
60_R	229_D	1.067	0.96
8_L	189_I	1.065	0.96
258_L	272_R	1.061	0.96
207_G	222_A	1.055	0.96
188_S	234_L	1.054	0.96
103_I	157_Q	1.054	0.96
276_L	288_Y	1.053	0.96
85_F	114_I	1.048	0.96
106_D	273_E	1.048	0.96
15_L	24_Q	1.044	0.95
190_E	194_E	1.044	0.95
36_Y	193_K	1.039	0.95
39_D	53_R	1.039	0.95
272_R	276_L	1.034	0.95
49_F	207_G	1.031	0.95
148_A	153_I	1.030	0.95
106_D	157_Q	1.026	0.95
186_G	331_Y	1.025	0.95
312_I	334_A	1.022	0.95
168_M	175_L	1.020	0.95
237_S	289_F	1.008	0.95
28_F	32_E	1.008	0.95
124_D	127_R	1.007	0.95
102_E	162_V	1.006	0.94
27_A	30_K	1.001	0.94
186_G	335_K	0.999	0.94
237_S	313_G	0.993	0.94
233_A	300_V	0.993	0.94
256_F	312_I	0.991	0.94
147_D	150_K	0.991	0.94
180_D	320_H	0.988	0.94
57_D	203_T	0.981	0.94
54_G	58_A	0.980	0.94
268_H	308_P	0.976	0.94
29_M	67_M	0.976	0.94
339_I	343_T	0.975	0.94
280_E	286_Y	0.974	0.93
125_A	128_N	0.973	0.93
33_L	192_L	0.970	0.93
223_S	300_V	0.968	0.93
284_I	337_M	0.959	0.93
270_G	308_P	0.956	0.93
128_N	132_D	0.956	0.93
329_D	332_A	0.953	0.93
256_F	337_M	0.950	0.93
227_K	305_S	0.943	0.92
111_P	162_V	0.938	0.92
265_T	311_V	0.937	0.92
175_L	325_I	0.936	0.92
56_E	59_P	0.935	0.92
273_E	277_D	0.928	0.92
101_V	112_G	0.926	0.92
23_H	270_G	0.923	0.92
6_K	165_F	0.916	0.91
38_D	50_G	0.916	0.91
254_K	285_P	0.915	0.91
59_P	229_D	0.912	0.91
33_L	208_A	0.911	0.91
26_R	48_V	0.905	0.91
21_N	104_Q	0.903	0.91
195_L	200_L	0.898	0.90
190_E	331_Y	0.898	0.90
50_G	208_A	0.896	0.90
125_A	129_R	0.896	0.90
96_L	114_I	0.895	0.90
188_S	206_A	0.890	0.90
179_W	326_I	0.890	0.90
236_A	316_S	0.887	0.90
187_L	335_K	0.884	0.90
43_D	47_S	0.884	0.90
24_Q	104_Q	0.882	0.90
180_D	212_E	0.881	0.90
61_I	202_N	0.878	0.89
24_Q	109_P	0.876	0.89
83_L	148_A	0.876	0.89
255_G	330_D	0.875	0.89
58_A	203_T	0.874	0.89
241_D	317_R	0.871	0.89
53_R	57_D	0.869	0.89
234_L	338_L	0.867	0.89
181_N	184_G	0.866	0.89
115_S	318_Y	0.864	0.89
264_T	298_G	0.857	0.88
18_A	158_Q	0.857	0.88
46_G	210_V	0.853	0.88
232_F	338_L	0.852	0.88
67_M	208_A	0.851	0.88
298_G	301_H	0.850	0.88
23_H	27_A	0.845	0.87
93_S	96_L	0.843	0.87
258_L	310_A	0.842	0.87
190_E	335_K	0.842	0.87
259_R	289_F	0.842	0.87
69_E	178_A	0.842	0.87
40_I	50_G	0.839	0.87
216_L	299_K	0.838	0.87
235_D	289_F	0.838	0.87
30_K	40_I	0.832	0.87
14_Q	165_F	0.830	0.87
59_P	202_N	0.830	0.87
97_L	136_M	0.828	0.86
54_G	200_L	0.827	0.86
174_I	328_I	0.813	0.85
194_E	335_K	0.812	0.85
51_V	60_R	0.811	0.85
72_F	159_I	0.803	0.85
9_F	186_G	0.803	0.85
132_D	135_N	0.802	0.85
276_L	280_E	0.802	0.85
90_G	320_H	0.802	0.85
123_T	126_Q	0.801	0.85
211_Q	216_L	0.801	0.85
86_Q	261_L	0.796	0.84
238_P	319_I	0.796	0.84
103_I	140_I	0.795	0.84
110_V	140_I	0.795	0.84
250_G	257_L	0.792	0.84
255_G	287_Q	0.790	0.84
41_V	51_V	0.790	0.84
216_L	298_G	0.789	0.84
9_F	179_W	0.788	0.84
275_V	312_I	0.785	0.83
303_S	307_V	0.784	0.83
90_G	212_E	0.784	0.83
102_E	109_P	0.779	0.83
180_D	213_E	0.778	0.83
61_I	204_L	0.778	0.83
237_S	250_G	0.778	0.83
187_L	191_L	0.775	0.83
168_M	325_I	0.773	0.82
181_N	236_A	0.772	0.82
336_E	340_K	0.772	0.82
314_I	334_A	0.764	0.82
289_F	313_G	0.761	0.81
52_R	192_L	0.761	0.81
65_G	181_N	0.756	0.81
10_Q	167_T	0.750	0.80
6_K	176_S	0.750	0.80
15_L	25_V	0.750	0.80
293_G	319_I	0.749	0.80
33_L	37_A	0.747	0.80
25_V	67_M	0.743	0.80
110_V	153_I	0.741	0.80
240_N	248_E	0.741	0.80
233_A	309_S	0.740	0.80
75_T	86_Q	0.739	0.79
300_V	307_V	0.737	0.79
102_E	111_P	0.736	0.79
232_F	310_A	0.734	0.79
29_M	48_V	0.734	0.79
61_I	230_L	0.732	0.79
187_L	331_Y	0.729	0.79
186_G	190_E	0.726	0.78
240_N	249_F	0.726	0.78
15_L	32_E	0.725	0.78
187_L	234_L	0.724	0.78
224_H	305_S	0.723	0.78
267_M	311_V	0.721	0.78
263_R	294_G	0.719	0.78
252_L	315_C	0.715	0.77
37_A	40_I	0.715	0.77
115_S	137_M	0.713	0.77
66_H	212_E	0.711	0.77
83_L	110_V	0.708	0.77
331_Y	335_K	0.707	0.76
329_D	333_A	0.707	0.76
112_G	140_I	0.705	0.76
204_L	342_V	0.703	0.76
92_W	95_V	0.703	0.76
294_G	298_G	0.697	0.75
82_L	243_S	0.695	0.75
90_G	294_G	0.694	0.75
9_F	174_I	0.693	0.75
231_F	307_V	0.690	0.75
165_F	176_S	0.685	0.74
6_K	10_Q	0.685	0.74
76_S	242_M	0.683	0.74
38_D	52_R	0.682	0.74
42_Q	48_V	0.681	0.74
316_S	326_I	0.681	0.74
140_I	151_I	0.680	0.74
278_M	340_K	0.678	0.73
191_L	342_V	0.675	0.73
154_R	276_L	0.675	0.73
225_M	305_S	0.672	0.73
319_I	324_T	0.668	0.72
194_E	198_K	0.668	0.72
105_T	110_V	0.665	0.72
211_Q	214_V	0.661	0.71
149_I	280_E	0.660	0.71
105_T	152_G	0.657	0.71
267_M	272_R	0.656	0.71
219_A	223_S	0.654	0.71
165_F	174_I	0.653	0.71
215_G	294_G	0.651	0.70
69_E	115_S	0.650	0.70
72_F	85_F	0.650	0.70
44_R	308_P	0.648	0.70
79_D	125_A	0.646	0.70
90_G	213_E	0.642	0.69
28_F	31_Q	0.641	0.69
195_L	204_L	0.641	0.69
33_L	40_I	0.638	0.69
167_T	172_K	0.637	0.69
269_R	308_P	0.635	0.68
277_D	280_E	0.634	0.68
13_T	177_K	0.634	0.68
280_E	283_D	0.633	0.68
64_A	233_A	0.633	0.68
223_S	303_S	0.631	0.68
279_A	337_M	0.629	0.68
200_L	204_L	0.629	0.68
230_L	341_L	0.628	0.68
49_F	205_Y	0.628	0.68
269_R	273_E	0.627	0.67
105_T	157_Q	0.625	0.67
21_N	24_Q	0.625	0.67
24_Q	31_Q	0.624	0.67
236_A	289_F	0.624	0.67
282_H	336_E	0.623	0.67
252_L	255_G	0.619	0.66
36_Y	196_H	0.619	0.66
181_N	235_D	0.618	0.66
38_D	192_L	0.618	0.66
188_S	191_L	0.618	0.66
82_L	137_M	0.618	0.66
233_A	236_A	0.617	0.66
47_S	207_G	0.615	0.66
262_D	293_G	0.614	0.66
12_L	25_V	0.612	0.66
23_H	26_R	0.611	0.65
110_V	142_A	0.611	0.65
103_I	153_I	0.611	0.65
274_F	277_D	0.610	0.65
56_E	203_T	0.609	0.65
176_S	325_I	0.608	0.65
287_Q	330_D	0.608	0.65
123_T	127_R	0.605	0.65
233_A	338_L	0.604	0.65
294_G	320_H	0.603	0.64
44_R	229_D	0.603	0.64
100_R	322_N	0.600	0.64
16_P	24_Q	0.599	0.64
207_G	231_F	0.598	0.64
245_D	248_E	0.596	0.64
295_T	320_H	0.595	0.63
250_G	289_F	0.593	0.63
278_M	341_L	0.592	0.63
73_M	88_L	0.592	0.63
70_V	324_T	0.592	0.63
18_A	160_V	0.592	0.63
78_T	137_M	0.590	0.63
38_D	196_H	0.588	0.63
259_R	313_G	0.588	0.63
257_L	313_G	0.587	0.62
215_G	262_D	0.587	0.62
77_I	276_L	0.586	0.62
278_M	284_I	0.586	0.62
98_A	322_N	0.585	0.62
183_Y	335_K	0.584	0.62
194_E	197_G	0.584	0.62
230_L	271_M	0.583	0.62
311_V	319_I	0.583	0.62
195_L	342_V	0.582	0.62
256_F	336_E	0.580	0.61
76_S	79_D	0.578	0.61
245_D	249_F	0.578	0.61
216_L	294_G	0.578	0.61
211_Q	217_R	0.576	0.61
233_A	237_S	0.575	0.61
34_A	40_I	0.574	0.61
181_N	212_E	0.574	0.61
106_D	277_D	0.573	0.61
63_V	338_L	0.571	0.60
41_V	205_Y	0.570	0.60
143_D	329_D	0.570	0.60
93_S	131_M	0.568	0.60
147_D	170_N	0.567	0.60
124_D	128_N	0.567	0.60
14_Q	164_P	0.567	0.60
259_R	311_V	0.565	0.59
266_V	298_G	0.564	0.59
104_Q	159_I	0.564	0.59
267_M	293_G	0.563	0.59
173_K	325_I	0.562	0.59
9_F	13_T	0.562	0.59
54_G	57_D	0.561	0.59
100_R	323_A	0.560	0.59
293_G	311_V	0.559	0.59
6_K	328_I	0.557	0.58
179_W	331_Y	0.557	0.58
37_A	192_L	0.555	0.58
66_H	213_E	0.554	0.58
48_V	73_M	0.553	0.58
29_M	50_G	0.552	0.58
255_G	317_R	0.551	0.58
327_H	331_Y	0.551	0.58
218_G	221_T	0.550	0.57
62_M	231_F	0.550	0.57
221_T	306_G	0.548	0.57
63_V	188_S	0.546	0.57
21_N	88_L	0.544	0.57
238_P	289_F	0.543	0.56
124_D	130_P	0.543	0.56
72_F	91_W	0.542	0.56
49_F	222_A	0.542	0.56
176_S	179_W	0.541	0.56
258_L	276_L	0.540	0.56
8_L	190_E	0.540	0.56
260_I	272_R	0.540	0.56
38_D	51_V	0.539	0.56
72_F	161_P	0.538	0.56
273_E	276_L	0.538	0.56
93_S	133_I	0.536	0.56
16_P	160_V	0.535	0.55
175_L	323_A	0.535	0.55
48_V	189_I	0.533	0.55
32_E	189_I	0.532	0.55
212_E	295_T	0.532	0.55
141_G	255_G	0.530	0.55
262_D	298_G	0.530	0.55
26_R	46_G	0.530	0.55
20_G	158_Q	0.529	0.55
183_Y	314_I	0.529	0.55
61_I	232_F	0.529	0.55
328_I	332_A	0.528	0.54
87_T	133_I	0.526	0.54
235_D	295_T	0.524	0.54
91_W	119_P	0.524	0.54
66_H	320_H	0.524	0.54
317_R	330_D	0.523	0.54
38_D	53_R	0.522	0.54
25_V	178_A	0.520	0.53
144_D	148_A	0.517	0.53
63_V	191_L	0.516	0.53
174_I	326_I	0.515	0.53
84_R	279_A	0.515	0.53
64_A	271_M	0.513	0.52
115_S	120_H	0.513	0.52
33_L	36_Y	0.512	0.52
241_D	252_L	0.511	0.52
17_G	177_K	0.510	0.52
301_H	309_S	0.509	0.52
141_G	254_K	0.508	0.52
142_A	147_D	0.507	0.52
91_W	122_L	0.506	0.51
71_G	88_L	0.505	0.51
295_T	311_V	0.505	0.51
91_W	322_N	0.501	0.51
10_Q	52_R	0.501	0.51
11_T	14_Q	0.501	0.51
7_A	146_E	0.500	0.51

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
4wwvA	4	0.9804	100	0.394	Contact Map
1y0yA	5	0.9244	100	0.414	Contact Map
2wyrA	4	0.9132	100	0.42	Contact Map
2wznA	4	0.9356	100	0.421	Contact Map
3wt4A	4	0.9384	100	0.422	Contact Map
3vatA	4	0.9888	100	0.428	Contact Map
2fvgA	1	0.8627	100	0.428	Contact Map
2gljA	6	0.944	100	0.439	Contact Map
2glfA	4	0.9412	100	0.444	Contact Map
1y7eA	4	0.8487	100	0.455	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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