YSDC - BACSU - GREMLIN Contacts

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YSDC - Putative aminopeptidase YsdC

UniProt:	P94521	Sequences: MAKLDETLTMLKDLTDAKGIPGNEREVRQVMKSYIEPFADEVTTDRLGSLIAKKTGAENGPKIMIAGHLDEVGFMVTQITDKGFIRFQTVGGWWAQVMLAQRVTIVTKKGEITGVIGSKPPHILSPEARKKSVEIKDMFIDIGASSREEALEWGVLPGDMIVPHFEFTVMNNEKFLLAKAWDNRIGCAIAIDVLRNLQNTDHPNIVYGVGTVQEEVGLRGAKTAAHTIQPDIAFGVDVGIAGDTPGISEKEAQSKMGKGPQIIVYDASMVSHKGLRDAVVATAEEAGIPYQFDAIAGGGTDSGAIHLTANGVPALSITIATRYIHTHAAMLHRDDYENAVKLITEVIKKLDRKTVDEITYQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	361 (335)
Sequences:	2598 (1704)
Seq/√Len:	93.1

ECOLI - SGCX FRVX YPDE
BACSU - YSDC YTOP 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
147_R	151_L	4.877	1.00
17_A	30_V	3.482	1.00
175_F	332_H	3.180	1.00
87_F	140_I	2.869	1.00
338_N	341_K	2.840	1.00
20_I	90_V	2.727	1.00
12_K	16_D	2.677	1.00
15_T	178_A	2.648	1.00
144_A	150_A	2.618	1.00
255_K	258_K	2.609	1.00
275_L	315_L	2.594	1.00
192_D	195_R	2.586	1.00
106_V	162_V	2.544	1.00
80_T	86_R	2.520	1.00
66_A	211_T	2.474	1.00
286_A	345_E	2.456	1.00
63_I	347_I	2.379	1.00
85_I	105_I	2.286	1.00
62_K	207_Y	2.282	1.00
32_K	36_E	2.279	1.00
289_P	338_N	2.234	1.00
32_K	44_T	2.188	1.00
114_G	140_I	2.135	1.00
53_K	205_I	2.128	1.00
281_A	285_E	2.095	1.00
21_P	90_V	2.075	1.00
196_N	344_T	2.041	1.00
85_I	161_I	2.038	1.00
345_E	348_K	2.033	1.00
279_V	315_L	2.024	1.00
337_E	341_K	2.009	1.00
71_E	179_K	2.004	1.00
200_T	348_K	1.982	1.00
174_K	334_D	1.961	1.00
148_E	152_E	1.956	1.00
279_V	346_V	1.951	1.00
13_D	34_Y	1.935	1.00
23_N	160_M	1.926	1.00
31_M	187_C	1.923	1.00
194_L	208_G	1.922	1.00
33_S	36_E	1.917	1.00
260_P	338_N	1.914	1.00
148_E	151_L	1.911	1.00
81_D	147_R	1.906	1.00
53_K	207_Y	1.881	1.00
142_I	155_V	1.877	1.00
229_Q	309_A	1.870	1.00
13_D	30_V	1.865	1.00
76_V	161_I	1.852	1.00
55_T	205_I	1.793	1.00
142_I	150_A	1.765	1.00
62_K	205_I	1.746	1.00
19_G	27_V	1.742	1.00
226_H	309_A	1.737	1.00
67_G	190_A	1.722	1.00
331_L	336_Y	1.711	1.00
103_V	140_I	1.707	1.00
144_A	153_W	1.703	1.00
185_I	336_Y	1.689	1.00
105_I	140_I	1.678	1.00
264_V	292_F	1.675	1.00
13_D	33_S	1.671	1.00
80_T	84_F	1.652	1.00
41_E	53_K	1.602	1.00
32_K	50_L	1.597	1.00
119_K	128_A	1.593	1.00
28_R	69_L	1.586	1.00
176_L	181_W	1.551	1.00
56_G	205_I	1.532	1.00
107_T	110_G	1.522	1.00
156_L	159_D	1.511	1.00
64_M	305_I	1.491	1.00
66_A	301_D	1.487	1.00
19_G	184_R	1.485	1.00
39_A	52_A	1.470	1.00
282_T	286_A	1.459	1.00
156_L	284_E	1.450	1.00
49_S	223_T	1.449	1.00
34_Y	195_R	1.440	1.00
9_T	12_K	1.434	0.99
222_K	304_A	1.419	0.99
113_T	168_T	1.412	0.99
34_Y	37_P	1.410	0.99
87_F	138_M	1.410	0.99
42_V	50_L	1.407	0.99
93_W	163_P	1.406	0.99
196_N	341_K	1.403	0.99
262_I	290_Y	1.402	0.99
35_I	191_I	1.393	0.99
75_M	88_Q	1.377	0.99
87_F	161_I	1.370	0.99
187_C	210_G	1.370	0.99
64_M	224_A	1.365	0.99
65_I	347_I	1.358	0.99
280_V	290_Y	1.346	0.99
214_E	325_H	1.333	0.99
12_K	167_F	1.324	0.99
9_T	13_D	1.324	0.99
8_L	169_V	1.307	0.99
64_M	209_V	1.307	0.99
64_M	230_P	1.303	0.99
76_V	85_I	1.301	0.99
174_K	332_H	1.301	0.99
31_M	191_I	1.299	0.99
321_T	324_I	1.276	0.99
31_M	210_G	1.274	0.99
10_M	30_V	1.272	0.99
233_A	305_I	1.272	0.99
79_I	150_A	1.268	0.99
278_A	346_V	1.268	0.99
189_I	339_A	1.265	0.99
235_G	302_S	1.264	0.99
234_F	279_V	1.259	0.99
74_F	98_M	1.255	0.99
20_I	73_G	1.254	0.99
169_V	333_R	1.250	0.99
103_V	116_I	1.223	0.98
18_K	104_T	1.222	0.98
195_R	199_N	1.221	0.98
193_V	344_T	1.220	0.98
146_S	149_E	1.213	0.98
193_V	343_I	1.210	0.98
340_V	344_T	1.209	0.98
29_Q	33_S	1.209	0.98
215_E	325_H	1.198	0.98
21_P	73_G	1.198	0.98
151_L	156_L	1.196	0.98
185_I	331_L	1.182	0.98
145_S	149_E	1.174	0.98
43_T	227_T	1.172	0.98
15_T	167_F	1.156	0.98
102_R	168_T	1.152	0.98
193_V	340_V	1.151	0.98
78_Q	86_R	1.148	0.97
28_R	44_T	1.140	0.97
85_I	142_I	1.135	0.97
302_S	314_A	1.131	0.97
105_I	161_I	1.131	0.97
256_M	259_G	1.128	0.97
280_V	292_F	1.117	0.97
18_K	106_V	1.115	0.97
170_M	177_L	1.114	0.97
239_G	261_Q	1.110	0.97
278_A	282_T	1.103	0.97
69_L	187_C	1.102	0.97
238_V	324_I	1.092	0.97
126_P	129_R	1.088	0.97
90_V	160_M	1.086	0.96
17_A	26_E	1.085	0.96
102_R	164_H	1.084	0.96
10_M	34_Y	1.081	0.96
276_R	280_V	1.072	0.96
209_V	224_A	1.068	0.96
317_I	339_A	1.068	0.96
35_I	52_A	1.065	0.96
89_T	95_A	1.060	0.96
64_M	228_I	1.053	0.96
239_G	293_D	1.050	0.96
10_M	191_I	1.049	0.96
190_A	236_V	1.048	0.96
108_K	159_D	1.042	0.96
257_G	332_H	1.042	0.96
108_K	277_D	1.039	0.95
188_A	336_Y	1.039	0.95
149_E	152_E	1.037	0.95
130_K	134_E	1.037	0.95
284_E	290_Y	1.037	0.95
38_F	195_R	1.036	0.95
192_D	196_N	1.035	0.95
207_Y	228_I	1.032	0.95
105_I	159_D	1.026	0.95
29_Q	32_K	1.025	0.95
35_I	194_L	1.021	0.95
87_F	116_I	1.018	0.95
59_N	205_I	1.014	0.95
51_I	209_V	1.010	0.95
41_E	55_T	1.006	0.95
150_A	155_V	1.006	0.95
225_A	305_I	1.005	0.95
272_H	313_P	1.003	0.95
235_G	305_I	0.992	0.94
31_M	69_L	0.991	0.94
262_I	276_R	0.991	0.94
30_V	34_Y	0.988	0.94
239_G	318_T	0.986	0.94
188_A	340_V	0.982	0.94
182_D	325_H	0.980	0.94
260_P	339_A	0.980	0.94
344_T	348_K	0.979	0.94
334_D	337_E	0.978	0.94
258_K	289_P	0.965	0.93
104_T	164_H	0.964	0.93
127_E	130_K	0.962	0.93
197_L	202_H	0.956	0.93
288_I	342_L	0.950	0.93
263_I	293_D	0.939	0.92
58_E	61_P	0.938	0.92
269_M	316_S	0.938	0.92
177_L	330_M	0.938	0.92
127_E	131_K	0.935	0.92
229_Q	310_N	0.932	0.92
52_A	210_G	0.928	0.92
103_V	114_G	0.925	0.92
16_D	167_F	0.923	0.92
26_E	111_E	0.923	0.92
113_T	164_H	0.920	0.92
274_G	313_P	0.919	0.92
35_I	210_G	0.919	0.92
8_L	167_F	0.918	0.91
25_R	274_G	0.914	0.91
189_I	340_V	0.911	0.91
40_D	52_A	0.910	0.91
277_D	281_A	0.909	0.91
260_P	317_I	0.908	0.91
190_A	208_G	0.904	0.91
45_D	49_S	0.902	0.91
28_R	50_L	0.901	0.91
56_G	60_G	0.900	0.91
238_V	321_T	0.899	0.91
182_D	214_E	0.894	0.90
98_M	116_I	0.894	0.90
26_E	106_V	0.894	0.90
236_V	343_I	0.894	0.90
183_N	186_G	0.894	0.90
23_N	106_V	0.894	0.90
192_D	336_Y	0.893	0.90
63_I	204_N	0.891	0.90
60_G	205_I	0.891	0.90
254_S	261_Q	0.889	0.90
62_K	231_D	0.886	0.90
48_G	212_V	0.885	0.90
55_T	59_N	0.879	0.90
61_P	204_N	0.879	0.90
85_I	150_A	0.868	0.89
20_I	160_M	0.865	0.89
88_Q	265_Y	0.864	0.89
234_F	343_I	0.856	0.88
25_R	29_Q	0.852	0.88
32_K	42_V	0.851	0.88
63_I	206_V	0.848	0.88
56_G	202_H	0.847	0.88
303_G	306_H	0.846	0.88
134_E	137_D	0.843	0.88
268_S	303_G	0.843	0.88
42_V	52_A	0.836	0.87
218_L	304_A	0.831	0.87
237_D	293_D	0.827	0.87
240_I	324_I	0.826	0.87
213_Q	218_L	0.823	0.86
74_F	161_I	0.822	0.86
102_R	328_A	0.821	0.86
192_D	340_V	0.820	0.86
69_L	210_G	0.819	0.86
176_L	333_R	0.815	0.86
112_I	142_I	0.814	0.86
196_N	340_V	0.811	0.85
95_A	98_M	0.810	0.85
43_T	53_K	0.806	0.85
235_G	314_A	0.806	0.85
280_V	284_E	0.803	0.85
92_G	325_H	0.802	0.85
17_A	27_V	0.802	0.85
8_L	12_K	0.801	0.85
260_P	342_L	0.800	0.85
99_L	138_M	0.799	0.85
11_L	188_A	0.797	0.84
298_G	324_I	0.796	0.84
267_A	299_G	0.791	0.84
183_N	238_V	0.790	0.84
308_T	312_V	0.790	0.84
125_S	128_A	0.789	0.84
182_D	215_E	0.787	0.84
105_I	142_I	0.787	0.84
92_G	214_E	0.787	0.84
341_K	345_E	0.783	0.83
243_D	322_R	0.782	0.83
67_G	183_N	0.778	0.83
218_L	303_G	0.776	0.83
305_I	312_V	0.773	0.83
104_T	111_E	0.771	0.82
53_K	62_K	0.767	0.82
319_I	339_A	0.764	0.82
181_W	331_L	0.756	0.81
84_F	245_P	0.754	0.81
221_A	225_A	0.752	0.81
71_E	180_A	0.751	0.81
259_G	291_Q	0.751	0.81
54_K	194_L	0.751	0.81
189_I	193_V	0.748	0.81
189_I	336_Y	0.745	0.80
170_M	330_M	0.743	0.80
104_T	113_T	0.738	0.80
77_T	88_Q	0.738	0.80
85_I	112_I	0.737	0.80
206_V	347_I	0.735	0.79
27_V	69_L	0.732	0.79
17_A	34_Y	0.731	0.79
259_G	335_D	0.730	0.79
279_V	317_I	0.729	0.79
112_I	155_V	0.727	0.79
271_S	316_S	0.726	0.79
61_P	231_D	0.723	0.78
94_W	97_V	0.723	0.78
35_I	39_A	0.721	0.78
233_A	312_V	0.721	0.78
334_D	338_N	0.721	0.78
188_A	192_D	0.720	0.78
293_D	318_T	0.718	0.78
68_H	214_E	0.718	0.78
263_I	295_I	0.718	0.78
167_F	176_L	0.708	0.77
299_G	303_G	0.708	0.77
39_A	42_V	0.708	0.77
11_L	181_W	0.704	0.76
114_G	142_I	0.703	0.76
259_G	262_I	0.702	0.76
31_M	50_L	0.701	0.76
227_T	310_N	0.700	0.76
167_F	178_A	0.698	0.76
189_I	236_V	0.692	0.75
202_H	206_V	0.692	0.75
81_D	127_E	0.691	0.75
336_Y	340_V	0.691	0.75
234_F	315_L	0.690	0.75
100_A	327_H	0.688	0.75
321_T	331_L	0.686	0.75
242_G	253_Q	0.681	0.74
63_I	232_I	0.678	0.74
193_V	347_I	0.677	0.74
324_I	329_A	0.677	0.74
44_T	50_L	0.674	0.73
40_D	54_K	0.671	0.73
271_S	276_R	0.670	0.73
225_A	308_T	0.669	0.73
107_T	159_D	0.667	0.72
30_V	33_S	0.666	0.72
156_L	280_V	0.665	0.72
226_H	310_N	0.661	0.72
283_A	342_L	0.660	0.72
196_N	200_T	0.656	0.71
217_G	299_G	0.655	0.71
92_G	299_G	0.655	0.71
232_I	346_V	0.655	0.71
282_T	345_E	0.654	0.71
262_I	315_L	0.652	0.71
142_I	153_W	0.648	0.70
35_I	42_V	0.648	0.70
26_E	33_S	0.644	0.70
197_L	206_V	0.644	0.70
74_F	87_F	0.643	0.70
51_I	207_Y	0.642	0.70
92_G	215_E	0.642	0.70
273_K	313_P	0.640	0.69
235_G	343_I	0.639	0.69
213_Q	216_V	0.638	0.69
286_A	341_K	0.637	0.69
281_A	284_E	0.635	0.69
151_L	284_E	0.633	0.69
178_A	181_W	0.631	0.68
278_A	281_A	0.629	0.68
49_S	209_V	0.628	0.68
190_A	193_V	0.628	0.68
107_T	154_G	0.627	0.68
20_I	162_V	0.627	0.68
25_R	28_R	0.624	0.67
112_I	144_A	0.624	0.67
107_T	112_I	0.624	0.67
273_K	277_D	0.621	0.67
11_L	176_L	0.616	0.66
263_I	316_S	0.615	0.66
282_T	346_V	0.614	0.66
256_M	320_A	0.613	0.66
38_F	198_Q	0.613	0.66
84_F	139_F	0.612	0.66
284_E	287_G	0.611	0.66
117_G	323_Y	0.611	0.66
58_E	205_I	0.610	0.66
271_S	298_G	0.609	0.66
226_H	229_Q	0.607	0.65
183_N	237_D	0.606	0.65
66_A	235_G	0.600	0.64
80_T	139_F	0.598	0.64
300_T	325_H	0.598	0.64
149_E	172_N	0.598	0.64
237_D	300_T	0.596	0.64
105_I	155_V	0.595	0.64
14_L	27_V	0.594	0.64
270_V	303_G	0.593	0.64
8_L	178_A	0.593	0.64
78_Q	81_D	0.592	0.63
23_N	26_E	0.591	0.63
298_G	316_S	0.591	0.63
266_D	298_G	0.587	0.63
239_G	254_S	0.587	0.63
145_S	334_D	0.586	0.63
79_I	280_V	0.584	0.62
238_V	293_D	0.584	0.62
18_K	26_E	0.583	0.62
213_Q	219_R	0.583	0.62
185_I	340_V	0.581	0.62
72_V	329_A	0.578	0.62
46_R	313_P	0.578	0.62
95_A	133_V	0.575	0.61
178_A	330_M	0.575	0.61
15_T	179_K	0.574	0.61
316_S	324_I	0.574	0.61
75_M	90_V	0.572	0.61
65_I	190_A	0.572	0.61
183_N	214_E	0.571	0.61
125_S	129_R	0.571	0.61
8_L	333_R	0.570	0.60
66_A	275_L	0.568	0.60
43_T	207_Y	0.568	0.60
209_V	233_A	0.568	0.60
230_P	233_A	0.565	0.60
240_I	293_D	0.564	0.60
51_I	224_A	0.563	0.60
282_T	288_I	0.562	0.59
222_K	225_A	0.561	0.59
31_M	52_A	0.561	0.59
108_K	281_A	0.559	0.59
68_H	215_E	0.559	0.59
65_I	343_I	0.558	0.59
56_G	59_N	0.556	0.59
106_V	161_I	0.555	0.58
217_G	266_D	0.554	0.58
11_L	15_T	0.553	0.58
12_K	169_V	0.553	0.58
181_W	336_Y	0.552	0.58
39_A	194_L	0.551	0.58
260_P	341_K	0.551	0.58
332_H	336_Y	0.547	0.57
126_P	130_K	0.545	0.57
232_I	275_L	0.543	0.57
197_L	347_I	0.542	0.57
16_D	166_E	0.541	0.57
298_G	303_G	0.540	0.56
218_L	299_G	0.540	0.56
40_D	198_Q	0.540	0.56
40_D	194_L	0.539	0.56
74_F	93_W	0.538	0.56
322_R	335_D	0.538	0.56
266_D	303_G	0.538	0.56
169_V	174_K	0.537	0.56
23_N	90_V	0.537	0.56
50_L	191_I	0.537	0.56
34_Y	191_I	0.535	0.56
18_K	162_V	0.534	0.56
117_G	122_H	0.532	0.55
40_D	53_K	0.532	0.55
40_D	55_T	0.532	0.55
71_E	117_G	0.531	0.55
74_F	163_P	0.530	0.55
65_I	193_V	0.529	0.55
28_R	48_G	0.528	0.55
176_L	331_L	0.528	0.55
63_I	234_F	0.528	0.55
291_Q	335_D	0.528	0.55
95_A	135_I	0.527	0.55
264_V	276_R	0.527	0.55
19_G	179_K	0.526	0.54
261_Q	318_T	0.526	0.54
89_T	135_I	0.526	0.54
171_N	174_K	0.525	0.54
89_T	93_W	0.525	0.54
299_G	325_H	0.525	0.54
214_E	300_T	0.525	0.54
199_N	287_G	0.525	0.54
35_I	38_F	0.524	0.54
68_H	325_H	0.523	0.54
185_I	319_I	0.523	0.54
163_P	327_H	0.522	0.54
254_S	293_D	0.521	0.54
94_W	128_A	0.521	0.54
219_R	270_V	0.521	0.54
269_M	324_I	0.519	0.53
243_D	256_M	0.519	0.53
224_A	305_I	0.518	0.53
277_D	280_V	0.517	0.53
50_L	75_M	0.517	0.53
305_I	314_A	0.516	0.53
181_W	185_I	0.514	0.53
73_G	90_V	0.514	0.53
93_W	124_L	0.513	0.53
60_G	204_N	0.513	0.53
93_W	121_P	0.512	0.53
36_E	42_V	0.512	0.53
262_I	280_V	0.510	0.52
10_M	195_R	0.510	0.52
306_H	314_A	0.510	0.52
47_L	223_T	0.510	0.52
10_M	192_D	0.507	0.52
13_D	16_D	0.506	0.52
120_P	240_I	0.506	0.52
77_T	87_F	0.506	0.52
116_I	138_M	0.506	0.52
22_G	160_M	0.505	0.52
286_A	338_N	0.505	0.52
266_D	324_I	0.505	0.52
186_G	291_Q	0.505	0.52
333_R	337_E	0.502	0.51
78_Q	157_P	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	0.9751	100	0.393	Contact Map
1y0yA	5	0.9197	100	0.412	Contact Map
2wznA	4	0.9307	100	0.419	Contact Map
3wt4A	4	0.9363	100	0.426	Contact Map
2wyrA	4	0.903	100	0.427	Contact Map
3vatA	4	0.9889	100	0.429	Contact Map
2fvgA	1	0.8615	100	0.43	Contact Map
2gljA	6	0.9446	100	0.439	Contact Map
2glfA	4	0.9418	100	0.447	Contact Map
1y7eA	4	0.8476	100	0.458	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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