YPDE - ECOLI - GREMLIN Contacts

Home
GREMLIN
- Submit - Monomer
- Submit - Complex
Contacts
Metagenomics
- Contacts
- Structures
Structures
- List
Old Projects
- Complexes (2014)
- PFAM (2013)

YPDE - Aminopeptidase YpdE

UniProt:	P77585	Sequences: MDLSLLKALSEADAIASSEQEVRQILLEEADRLQKEVRFDGLGSVLIRLNESTGPKVMICAHMDEVGFMVRSISREGAIDVLPVGNVRMAARQLQPVRITTREECKIPGLLDGDRQGNDVSAMRVDIGARSYDEVMQAGIRPGDRVTFDTTFQVLPHQRVMGKAFDDRLGCYLLVTLLRELHDAELPAEVWLVASSSEEVGLRGGQTATRAVSPDVAIVLDTACWAKNFDYGAANHRQIGNGPMLVLSDKSLIAPPKLTAWVETVAAEIGVPLQADMFSNGGTDGGAVHLTGTGVPTVVMGPATRHGHCAASIADCRDILQMQQLLSALIQRLTRETVVQLTDFR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG14152
Length:	345 (322)
Sequences:	2618 (1740)
Seq/√Len:	96.9

ECOLI - YPDE FRVX SGCX
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
132_Y	136_M	4.866	1.00
12_A	25_I	3.486	1.00
159_R	315_D	3.150	1.00
321_Q	324_Q	2.757	1.00
81_V	125_V	2.712	1.00
15_I	84_V	2.696	1.00
7_K	11_E	2.650	1.00
238_Q	241_N	2.618	1.00
129_A	135_V	2.606	1.00
176_T	179_R	2.552	1.00
258_L	298_V	2.503	1.00
100_T	147_T	2.490	1.00
269_I	328_A	2.457	1.00
10_S	162_G	2.419	1.00
60_C	195_S	2.402	1.00
74_S	80_D	2.393	1.00
57_V	330_I	2.301	1.00
27_L	31_D	2.241	1.00
79_I	99_I	2.241	1.00
56_K	191_W	2.174	1.00
48_R	189_E	2.164	1.00
16_A	84_V	2.150	1.00
27_L	39_F	2.139	1.00
272_P	321_Q	2.116	1.00
180_E	327_S	2.071	1.00
264_T	268_E	2.034	1.00
79_I	146_V	2.021	1.00
262_V	298_V	2.011	1.00
184_A	331_Q	1.990	1.00
243_P	321_Q	1.974	1.00
328_A	331_Q	1.969	1.00
65_E	163_K	1.963	1.00
109_G	125_V	1.959	1.00
262_V	329_L	1.934	1.00
26_L	171_C	1.931	1.00
75_R	132_Y	1.931	1.00
133_D	137_Q	1.925	1.00
70_V	146_V	1.921	1.00
320_L	324_Q	1.919	1.00
133_D	136_M	1.918	1.00
127_I	140_I	1.913	1.00
8_A	29_E	1.903	1.00
8_A	25_I	1.902	1.00
158_Q	317_R	1.893	1.00
98_R	106_K	1.871	1.00
28_E	31_D	1.870	1.00
18_S	145_R	1.868	1.00
213_S	292_G	1.841	1.00
178_L	192_L	1.838	1.00
48_R	191_W	1.804	1.00
14_A	22_V	1.766	1.00
56_K	189_E	1.718	1.00
160_V	165_F	1.710	1.00
127_I	135_V	1.663	1.00
210_R	292_G	1.655	1.00
314_A	319_I	1.650	1.00
74_S	78_A	1.646	1.00
97_V	125_V	1.635	1.00
61_A	174_L	1.629	1.00
99_I	125_V	1.627	1.00
36_E	48_R	1.616	1.00
247_L	275_A	1.600	1.00
169_L	319_I	1.597	1.00
8_A	28_E	1.573	1.00
23_R	63_M	1.562	1.00
27_L	45_V	1.532	1.00
44_S	207_T	1.520	1.00
141_R	144_D	1.492	1.00
58_M	288_V	1.489	1.00
34_Q	47_I	1.488	1.00
60_C	284_D	1.478	1.00
245_L	273_L	1.474	1.00
81_V	123_M	1.458	1.00
87_V	148_F	1.449	1.00
14_A	168_R	1.447	1.00
265_V	269_I	1.439	1.00
206_Q	287_A	1.428	1.00
180_E	324_Q	1.418	1.00
4_S	7_K	1.415	1.00
141_R	267_A	1.411	1.00
69_M	82_L	1.400	0.99
29_E	32_R	1.395	0.99
37_V	45_V	1.369	0.99
171_C	194_A	1.363	0.99
29_E	179_R	1.354	0.99
108_P	153_Q	1.353	0.99
21_E	106_K	1.352	0.99
154_V	316_C	1.346	0.99
198_E	308_H	1.339	0.99
30_A	175_V	1.337	0.99
59_I	330_I	1.333	0.99
129_A	138_A	1.331	0.99
4_S	8_A	1.323	0.99
58_M	193_V	1.323	0.99
70_V	79_I	1.313	0.99
58_M	208_A	1.301	0.99
81_V	146_V	1.289	0.99
173_L	322_M	1.285	0.99
263_E	273_L	1.274	0.99
136_M	141_R	1.273	0.99
26_L	194_A	1.272	0.99
114_D	117_G	1.271	0.99
26_L	175_V	1.267	0.99
114_D	118_N	1.259	0.99
73_I	135_V	1.254	0.99
7_K	152_F	1.251	0.99
304_T	307_G	1.242	0.99
58_M	214_P	1.241	0.99
261_W	329_L	1.240	0.99
38_R	211_A	1.232	0.99
177_L	327_S	1.225	0.99
158_Q	315_D	1.217	0.99
15_I	67_G	1.217	0.99
24_Q	28_E	1.215	0.98
199_E	308_H	1.214	0.98
177_L	323_Q	1.208	0.98
179_R	183_D	1.206	0.98
68_F	92_R	1.190	0.98
10_S	152_F	1.185	0.98
285_G	297_T	1.178	0.98
240_G	315_D	1.177	0.98
217_A	288_V	1.176	0.98
99_I	146_V	1.176	0.98
5_L	25_I	1.175	0.98
13_D	100_T	1.170	0.98
72_S	80_D	1.169	0.98
177_L	326_L	1.165	0.98
223_A	244_M	1.158	0.98
13_D	98_R	1.158	0.98
23_R	39_F	1.149	0.98
261_W	265_V	1.144	0.98
130_R	134_E	1.144	0.98
169_L	314_A	1.142	0.98
16_A	67_G	1.142	0.98
97_V	111_L	1.132	0.98
219_V	285_G	1.130	0.98
218_I	262_V	1.129	0.98
323_Q	327_S	1.128	0.98
79_I	127_I	1.114	0.97
83_P	89_M	1.111	0.97
131_S	134_E	1.107	0.97
191_W	212_V	1.090	0.97
51_E	185_E	1.083	0.97
102_R	144_D	1.081	0.97
222_T	307_G	1.079	0.97
115_R	118_N	1.065	0.97
30_A	47_I	1.065	0.97
267_A	273_L	1.059	0.96
300_M	322_M	1.056	0.96
53_T	189_E	1.054	0.96
102_R	260_A	1.051	0.96
263_E	275_A	1.051	0.96
245_L	259_T	1.045	0.96
63_M	171_C	1.039	0.96
327_S	331_Q	1.039	0.96
98_R	149_D	1.037	0.96
193_V	208_A	1.037	0.96
172_Y	319_I	1.036	0.96
96_P	149_D	1.032	0.96
99_I	144_D	1.032	0.96
112_D	115_R	1.031	0.96
24_Q	27_L	1.026	0.96
81_V	111_L	1.024	0.96
33_L	179_R	1.021	0.96
243_P	322_M	1.021	0.96
101_T	104_E	1.015	0.95
96_P	153_Q	1.015	0.95
172_Y	323_Q	1.014	0.95
84_V	145_R	1.006	0.95
46_L	193_V	1.004	0.95
12_A	21_E	0.997	0.95
317_R	320_L	0.996	0.95
176_T	180_E	0.996	0.95
25_I	29_E	0.993	0.95
174_L	220_L	0.987	0.95
223_A	276_D	0.981	0.94
166_D	308_H	0.979	0.94
162_G	165_F	0.974	0.94
259_T	263_E	0.973	0.94
135_V	140_I	0.971	0.94
176_T	319_I	0.966	0.94
58_M	212_V	0.965	0.94
26_L	63_M	0.959	0.94
112_D	116_Q	0.959	0.94
5_L	175_V	0.959	0.94
243_P	325_L	0.957	0.94
271_V	325_L	0.956	0.94
55_P	188_A	0.956	0.94
20_Q	257_K	0.955	0.94
223_A	301_G	0.954	0.94
134_E	137_Q	0.950	0.93
5_L	29_E	0.949	0.93
30_A	178_L	0.948	0.93
161_M	313_I	0.946	0.93
243_P	300_M	0.941	0.93
40_D	44_S	0.939	0.93
155_L	161_M	0.938	0.93
257_K	296_P	0.936	0.93
209_T	288_V	0.935	0.93
260_A	264_T	0.932	0.93
97_V	109_G	0.930	0.93
23_R	45_V	0.928	0.93
242_G	318_D	0.921	0.92
113_G	118_N	0.920	0.92
181_L	186_L	0.919	0.92
246_V	276_D	0.913	0.92
30_A	194_A	0.913	0.92
113_G	116_Q	0.906	0.92
219_V	288_V	0.901	0.92
255_P	296_P	0.896	0.91
174_L	192_L	0.893	0.91
57_V	188_A	0.893	0.91
213_S	293_T	0.891	0.91
79_I	135_V	0.891	0.91
286_G	289_H	0.888	0.91
56_K	215_D	0.886	0.91
52_S	55_P	0.886	0.91
166_D	198_E	0.885	0.91
246_V	278_F	0.884	0.91
21_E	100_T	0.882	0.91
54_G	189_E	0.868	0.90
281_G	307_G	0.865	0.90
173_L	323_Q	0.864	0.90
159_R	165_F	0.864	0.90
11_E	152_F	0.860	0.90
218_I	326_L	0.854	0.89
167_D	170_G	0.854	0.89
43_G	196_S	0.852	0.89
227_K	305_R	0.851	0.89
18_S	100_T	0.851	0.89
245_L	298_V	0.849	0.89
82_L	248_S	0.842	0.89
47_I	194_A	0.840	0.88
92_R	111_L	0.838	0.88
89_M	92_R	0.835	0.88
108_P	149_D	0.831	0.88
48_R	56_K	0.831	0.88
35_K	47_I	0.828	0.88
15_I	145_R	0.827	0.88
96_P	311_A	0.826	0.88
222_T	304_T	0.826	0.88
252_L	299_V	0.821	0.87
220_L	326_L	0.820	0.87
86_N	308_H	0.816	0.87
49_L	178_L	0.816	0.87
27_L	37_V	0.812	0.87
78_A	229_F	0.812	0.87
63_M	194_A	0.810	0.87
263_E	267_A	0.809	0.87
242_G	274_Q	0.806	0.86
51_E	187_P	0.805	0.86
197_S	202_L	0.805	0.86
113_G	117_G	0.801	0.86
61_A	167_D	0.801	0.86
241_N	272_P	0.800	0.86
202_L	287_A	0.799	0.86
37_V	47_I	0.798	0.86
38_R	48_R	0.797	0.86
221_D	276_D	0.797	0.86
68_F	146_V	0.791	0.85
224_C	307_G	0.791	0.85
226_A	236_H	0.791	0.85
12_A	22_V	0.790	0.85
20_Q	24_Q	0.789	0.85
93_Q	123_M	0.787	0.85
88_R	91_A	0.785	0.85
86_N	198_E	0.784	0.85
160_V	316_C	0.783	0.85
176_T	323_Q	0.781	0.85
180_E	323_Q	0.779	0.84
6_L	172_Y	0.776	0.84
302_P	322_M	0.774	0.84
166_D	199_E	0.772	0.84
101_T	139_G	0.767	0.83
282_G	286_G	0.766	0.83
324_Q	328_A	0.763	0.83
251_S	286_G	0.756	0.83
57_V	190_V	0.756	0.83
107_I	127_I	0.756	0.83
7_K	154_V	0.755	0.83
99_I	127_I	0.752	0.82
249_D	281_G	0.752	0.82
104_E	107_I	0.750	0.82
98_R	108_P	0.750	0.82
65_E	164_A	0.750	0.82
237_R	244_M	0.750	0.82
119_D	122_A	0.744	0.82
254_A	299_V	0.734	0.81
210_R	293_T	0.730	0.80
71_R	82_L	0.729	0.80
291_T	295_V	0.726	0.80
62_H	198_E	0.726	0.80
223_A	237_R	0.724	0.80
288_V	295_V	0.724	0.80
22_V	63_M	0.723	0.80
127_I	138_A	0.723	0.80
317_R	321_Q	0.722	0.80
109_G	127_I	0.722	0.80
202_L	286_G	0.719	0.79
201_G	282_G	0.718	0.79
158_Q	163_K	0.718	0.79
165_F	314_A	0.714	0.79
136_M	267_A	0.711	0.79
152_F	162_G	0.711	0.79
167_D	222_T	0.709	0.78
86_N	282_G	0.709	0.78
172_Y	176_T	0.708	0.78
254_A	259_T	0.706	0.78
219_V	222_T	0.702	0.78
94_L	310_A	0.698	0.77
30_A	34_Q	0.697	0.77
12_A	29_E	0.697	0.77
173_L	319_I	0.697	0.77
219_V	297_T	0.696	0.77
304_T	314_A	0.696	0.77
218_I	298_V	0.695	0.77
6_L	165_F	0.695	0.77
173_L	177_L	0.694	0.77
26_L	45_V	0.693	0.77
307_G	312_S	0.691	0.77
52_S	189_E	0.690	0.76
250_K	282_G	0.689	0.76
25_I	28_E	0.688	0.76
262_V	300_M	0.688	0.76
246_V	299_V	0.687	0.76
107_I	140_I	0.686	0.76
211_A	293_T	0.680	0.75
51_E	189_E	0.677	0.75
154_V	158_Q	0.675	0.75
78_A	124_R	0.672	0.75
239_I	303_A	0.672	0.75
264_T	267_A	0.669	0.74
319_I	323_Q	0.667	0.74
190_V	330_I	0.662	0.73
159_R	163_K	0.661	0.73
186_L	190_V	0.658	0.73
249_D	286_G	0.655	0.73
158_Q	165_F	0.653	0.72
34_Q	37_V	0.651	0.72
265_V	328_A	0.650	0.72
173_L	220_L	0.650	0.72
86_N	199_E	0.647	0.72
256_P	260_A	0.646	0.72
79_I	107_I	0.645	0.72
197_S	200_V	0.645	0.72
155_L	313_I	0.643	0.71
141_R	263_E	0.643	0.71
180_E	184_A	0.641	0.71
276_D	301_G	0.641	0.71
74_S	124_R	0.635	0.70
41_G	215_D	0.630	0.70
201_G	249_D	0.625	0.69
254_A	281_G	0.624	0.69
205_G	209_T	0.623	0.69
281_G	299_V	0.622	0.69
266_A	325_L	0.621	0.69
159_R	164_A	0.621	0.69
33_L	182_H	0.618	0.68
269_I	324_Q	0.615	0.68
44_S	193_V	0.614	0.68
177_L	330_I	0.613	0.68
18_S	21_E	0.612	0.68
249_D	299_V	0.611	0.67
68_F	81_V	0.609	0.67
34_Q	178_L	0.608	0.67
102_R	264_T	0.608	0.67
174_L	177_L	0.605	0.67
209_T	291_T	0.605	0.67
181_L	190_V	0.605	0.67
15_I	147_T	0.603	0.66
57_V	216_V	0.602	0.66
13_D	21_E	0.598	0.66
216_V	258_L	0.598	0.66
66_V	312_S	0.597	0.66
60_C	219_V	0.597	0.66
265_V	329_L	0.595	0.65
10_S	163_K	0.595	0.65
45_V	175_V	0.595	0.65
219_V	326_L	0.593	0.65
26_L	47_I	0.591	0.65
41_G	296_P	0.590	0.65
35_K	182_H	0.590	0.65
35_K	49_L	0.589	0.65
197_S	203_R	0.588	0.64
99_I	140_I	0.587	0.64
169_L	323_Q	0.585	0.64
50_N	54_G	0.583	0.64
50_N	189_E	0.583	0.64
59_I	174_L	0.583	0.64
247_L	259_T	0.583	0.64
237_R	276_D	0.582	0.64
20_Q	23_R	0.581	0.64
181_L	330_I	0.581	0.64
72_S	75_R	0.580	0.63
6_L	160_V	0.580	0.63
55_P	215_D	0.580	0.63
229_F	235_N	0.577	0.63
299_V	307_G	0.577	0.63
101_T	144_D	0.577	0.63
217_A	295_V	0.576	0.63
51_E	54_G	0.575	0.63
21_E	28_E	0.574	0.63
69_M	84_V	0.574	0.63
39_F	45_V	0.572	0.62
216_V	329_L	0.571	0.62
221_D	283_T	0.571	0.62
256_P	296_P	0.570	0.62
62_H	199_E	0.569	0.62
101_T	107_I	0.569	0.62
35_K	48_R	0.566	0.62
267_A	270_G	0.566	0.62
51_E	55_P	0.564	0.61
132_Y	135_V	0.564	0.61
107_I	129_A	0.562	0.61
249_D	307_G	0.562	0.61
261_W	264_T	0.562	0.61
46_L	191_W	0.559	0.61
9_L	22_V	0.558	0.60
6_L	10_S	0.557	0.60
224_C	276_D	0.557	0.60
158_Q	164_A	0.555	0.60
222_T	226_A	0.554	0.60
152_F	160_V	0.552	0.60
162_G	313_I	0.549	0.59
89_M	120_V	0.549	0.59
38_R	191_W	0.549	0.59
219_V	223_A	0.549	0.59
224_C	249_D	0.549	0.59
265_V	271_V	0.547	0.59
283_T	308_H	0.546	0.59
227_K	239_I	0.546	0.59
59_I	326_L	0.544	0.59
31_D	37_V	0.544	0.59
242_G	305_R	0.542	0.58
46_L	208_A	0.541	0.58
260_A	263_E	0.538	0.58
62_H	308_H	0.538	0.58
148_F	310_A	0.538	0.58
17_S	145_R	0.538	0.58
18_S	84_V	0.536	0.57
244_M	301_G	0.534	0.57
282_G	308_H	0.534	0.57
167_D	198_E	0.533	0.57
130_R	317_R	0.532	0.57
30_A	37_V	0.532	0.57
100_T	106_K	0.532	0.57
100_T	146_V	0.531	0.57
75_R	137_Q	0.530	0.57
195_S	208_A	0.529	0.56
208_A	288_V	0.528	0.56
204_G	207_T	0.528	0.56
222_T	276_D	0.527	0.56
170_G	274_Q	0.524	0.56
23_R	43_G	0.524	0.56
58_M	217_A	0.523	0.56
202_L	282_G	0.523	0.56
274_Q	318_D	0.522	0.55
315_D	319_I	0.522	0.55
83_P	87_V	0.521	0.55
60_C	258_L	0.520	0.55
59_I	177_L	0.519	0.55
14_A	163_K	0.517	0.55
11_E	151_T	0.516	0.55
29_E	175_V	0.516	0.55
158_Q	316_C	0.516	0.55
71_R	81_V	0.515	0.54
5_L	176_T	0.513	0.54
246_V	249_D	0.512	0.54
72_S	142_P	0.512	0.54
108_P	111_L	0.512	0.54
13_D	106_K	0.511	0.54
245_L	263_E	0.509	0.54
248_S	254_A	0.509	0.54
35_K	178_L	0.509	0.54
13_D	147_T	0.508	0.53
5_L	179_R	0.508	0.53
169_L	302_P	0.507	0.53
216_V	296_P	0.505	0.53
54_G	188_A	0.504	0.53
128_G	242_G	0.504	0.53
67_G	84_V	0.502	0.53
7_K	49_L	0.502	0.53
220_L	223_A	0.500	0.52

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	0.9942	100	0.423	Contact Map
1y0yA	5	0.9623	100	0.433	Contact Map
2wyrA	4	0.9217	100	0.442	Contact Map
2wznA	4	0.942	100	0.443	Contact Map
3vatA	4	0.9884	100	0.443	Contact Map
3wt4A	4	0.9478	100	0.443	Contact Map
2fvgA	1	0.887	100	0.444	Contact Map
2gljA	6	0.942	100	0.46	Contact Map
2glfA	4	0.9362	100	0.463	Contact Map
1y7eA	4	0.8638	100	0.47	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.

Page generated in 0.0107 seconds.