UGPQ - ECOLI - GREMLIN Contacts

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UGPQ - Glycerophosphoryl diester phosphodiesterase

UniProt:	P10908	Sequences: MSNWPYPRIVAHRGGGKLAPENTLASIDVGAKYGHKMIEFDAKLSKDGEIFLLHDDNLERTSNGWGVAGELNWQDLLRVDAGSWYSKMFKGEPLPLLSQVAERCREHGMMANIEIKPTTGTGPLTGKMVALAARELWAGMTPPLLSSFEIDALEAAQQAAPELPRGLLLDEWRDDWRELTARLGCVSIHLNHKLLNKARVMQLKDAGLRILVYTVNKPQRAAELLRWGVDCICTDAIDVIGPNFTAQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11050
Length:	247 (229)
Sequences:	9410 (6974)
Seq/√Len:	460.8

ECOLI - UGPQ GLPQ
BACSU - GLPQ YHDW YQIK
HALSA - Q9HP18

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
25_A	92_E	3.220	1.00
204_K	230_D	2.942	1.00
29_V	32_K	2.595	1.00
102_E	135_E	2.585	1.00
98_S	131_L	2.552	1.00
72_N	75_D	2.428	1.00
28_D	103_R	2.424	1.00
17_K	236_A	2.384	1.00
27_I	40_F	2.334	1.00
77_L	99_Q	2.293	1.00
216_N	235_D	2.265	1.00
73_W	77_L	2.255	1.00
73_W	96_L	2.246	1.00
221_A	240_I	2.197	1.00
24_L	95_P	2.156	1.00
112_N	146_S	2.134	1.00
53_L	68_A	2.065	1.00
67_V	70_E	2.034	1.00
18_L	238_D	1.982	1.00
98_S	134_R	1.925	1.00
44_L	127_K	1.919	1.00
49_E	73_W	1.917	1.00
58_L	79_V	1.912	1.00
40_F	100_V	1.886	1.00
166_G	187_S	1.861	1.00
23_T	81_A	1.843	1.00
28_D	32_K	1.826	1.00
46_K	72_N	1.803	1.00
45_S	51_F	1.799	1.00
236_A	239_V	1.778	1.00
98_S	135_E	1.773	1.00
10_V	37_M	1.760	1.00
40_F	52_L	1.694	1.00
52_L	100_V	1.690	1.00
62_S	81_A	1.686	1.00
64_G	79_V	1.670	1.00
31_A	109_M	1.646	1.00
96_L	99_Q	1.643	1.00
53_L	61_T	1.639	1.00
127_K	130_A	1.631	1.00
19_A	29_V	1.625	1.00
58_L	71_L	1.609	1.00
51_F	73_W	1.592	1.00
49_E	96_L	1.567	1.00
37_M	110_M	1.566	1.00
217_K	220_R	1.562	1.00
126_G	159_A	1.561	1.00
29_V	33_Y	1.532	1.00
97_L	113_I	1.531	1.00
145_L	156_A	1.512	1.00
11_A	26_S	1.512	1.00
211_L	231_C	1.506	1.00
16_G	26_S	1.493	1.00
220_R	223_E	1.472	1.00
13_R	21_E	1.446	1.00
131_L	135_E	1.445	1.00
45_S	49_E	1.436	1.00
59_E	65_W	1.412	1.00
66_G	71_L	1.387	1.00
155_A	159_A	1.372	1.00
212_V	229_V	1.370	1.00
44_L	50_I	1.370	1.00
133_A	160_A	1.370	1.00
24_L	103_R	1.368	1.00
126_G	130_A	1.365	1.00
51_F	68_A	1.363	1.00
223_E	227_W	1.343	1.00
27_I	100_V	1.338	1.00
157_Q	165_R	1.335	1.00
21_E	60_R	1.320	1.00
49_E	98_S	1.313	1.00
76_L	94_L	1.307	1.00
130_A	134_R	1.287	1.00
45_S	76_L	1.287	1.00
98_S	102_E	1.286	1.00
125_T	152_A	1.280	1.00
145_L	163_L	1.264	1.00
190_L	212_V	1.259	1.00
71_L	75_D	1.244	1.00
15_G	18_L	1.238	1.00
129_V	160_A	1.233	1.00
48_G	127_K	1.211	1.00
15_G	29_V	1.208	1.00
80_D	91_G	1.205	1.00
50_I	128_M	1.203	1.00
146_S	233_C	1.200	1.00
129_V	156_A	1.198	1.00
197_K	201_M	1.191	1.00
42_A	50_I	1.189	1.00
55_D	60_R	1.171	1.00
200_V	210_I	1.163	1.00
64_G	71_L	1.158	1.00
157_Q	186_V	1.155	1.00
57_N	67_V	1.155	1.00
132_A	145_L	1.154	1.00
192_H	220_R	1.151	1.00
155_A	158_Q	1.150	1.00
86_S	90_K	1.147	1.00
71_L	76_L	1.141	1.00
203_L	210_I	1.131	1.00
59_E	66_G	1.120	1.00
146_S	189_H	1.120	1.00
222_A	226_R	1.119	1.00
27_I	38_I	1.112	1.00
9_I	240_I	1.107	1.00
45_S	73_W	1.105	1.00
53_L	94_L	1.103	1.00
131_L	134_R	1.100	1.00
101_A	132_A	1.094	1.00
62_S	66_G	1.093	1.00
201_M	205_D	1.090	1.00
209_R	230_D	1.079	1.00
101_A	111_A	1.071	1.00
139_G	142_P	1.070	1.00
42_A	97_L	1.066	1.00
10_V	231_C	1.065	1.00
75_D	78_R	1.059	1.00
31_A	103_R	1.057	1.00
15_G	33_Y	1.050	1.00
24_L	28_D	1.043	1.00
153_L	165_R	1.028	1.00
139_G	143_P	1.027	1.00
25_A	29_V	1.025	1.00
39_E	54_H	1.024	1.00
115_I	128_M	1.019	1.00
10_V	112_N	1.018	1.00
203_L	208_L	1.009	1.00
200_V	204_K	1.008	1.00
101_A	135_E	1.006	1.00
43_K	56_D	0.999	1.00
27_I	52_L	0.990	1.00
125_T	155_A	0.990	1.00
58_L	64_G	0.988	1.00
77_L	93_P	0.978	1.00
11_A	16_G	0.977	1.00
104_C	111_A	0.976	1.00
115_I	152_A	0.968	1.00
180_T	183_L	0.966	1.00
80_D	93_P	0.965	1.00
42_A	113_I	0.964	1.00
9_I	241_G	0.956	1.00
16_G	235_D	0.953	1.00
42_A	128_M	0.952	1.00
160_A	163_L	0.950	1.00
215_V	221_A	0.948	1.00
215_V	224_L	0.947	1.00
71_L	79_V	0.942	1.00
221_A	232_I	0.940	1.00
112_N	211_L	0.936	1.00
199_R	203_L	0.927	1.00
50_I	131_L	0.926	1.00
11_A	35_H	0.920	1.00
15_G	238_D	0.920	1.00
50_I	127_K	0.919	1.00
46_K	70_E	0.913	1.00
112_N	233_C	0.908	1.00
218_P	222_A	0.903	1.00
51_F	76_L	0.901	1.00
22_N	27_I	0.890	1.00
59_E	63_N	0.887	1.00
18_L	33_Y	0.874	1.00
129_V	133_A	0.871	1.00
140_M	160_A	0.868	1.00
77_L	96_L	0.867	1.00
146_S	166_G	0.866	1.00
11_A	15_G	0.857	1.00
213_Y	233_C	0.854	1.00
204_K	210_I	0.853	1.00
63_N	66_G	0.852	1.00
97_L	101_A	0.852	1.00
126_G	155_A	0.848	1.00
57_N	60_R	0.844	1.00
202_Q	206_A	0.843	1.00
19_A	25_A	0.836	1.00
127_K	131_L	0.835	1.00
14_G	27_I	0.829	1.00
95_P	100_V	0.827	1.00
105_R	139_G	0.826	1.00
112_N	189_H	0.823	1.00
112_N	144_L	0.822	1.00
105_R	135_E	0.821	1.00
176_W	179_L	0.820	1.00
28_D	104_C	0.818	1.00
189_H	211_L	0.813	1.00
198_A	202_Q	0.813	1.00
22_N	95_P	0.812	1.00
202_Q	205_D	0.804	1.00
181_A	206_A	0.802	1.00
114_E	148_F	0.799	1.00
133_A	140_M	0.799	1.00
132_A	140_M	0.792	1.00
146_S	168_L	0.791	1.00
40_F	111_A	0.789	1.00
82_G	85_Y	0.783	1.00
12_H	54_H	0.782	1.00
234_T	240_I	0.779	1.00
179_L	182_R	0.779	1.00
135_E	139_G	0.778	1.00
148_F	168_L	0.777	1.00
133_A	162_E	0.776	1.00
15_G	237_I	0.775	1.00
44_L	48_G	0.772	1.00
201_M	204_K	0.766	1.00
218_P	239_V	0.762	1.00
200_V	227_W	0.762	1.00
125_T	129_V	0.761	1.00
212_V	224_L	0.757	1.00
128_M	132_A	0.756	1.00
164_P	186_V	0.752	1.00
140_M	143_P	0.739	1.00
225_L	240_I	0.739	1.00
149_E	152_A	0.739	1.00
9_I	35_H	0.734	1.00
187_S	209_R	0.733	1.00
177_R	180_T	0.731	1.00
101_A	131_L	0.729	1.00
221_A	239_V	0.728	1.00
35_H	237_I	0.725	1.00
18_L	29_V	0.724	1.00
114_E	147_S	0.720	1.00
49_E	127_K	0.716	1.00
62_S	79_V	0.715	1.00
80_D	84_W	0.715	1.00
28_D	92_E	0.710	1.00
15_G	19_A	0.702	1.00
80_D	83_S	0.701	1.00
10_V	233_C	0.698	1.00
129_V	159_A	0.693	1.00
150_I	154_E	0.690	1.00
176_W	180_T	0.687	1.00
41_D	54_H	0.687	1.00
220_R	224_L	0.686	1.00
58_L	76_L	0.685	1.00
216_N	234_T	0.682	1.00
74_Q	78_R	0.680	1.00
7_P	225_L	0.675	1.00
57_N	65_W	0.672	1.00
56_D	67_V	0.664	1.00
33_Y	238_D	0.663	1.00
12_H	39_E	0.658	1.00
30_G	35_H	0.657	1.00
175_D	178_E	0.656	1.00
20_P	92_E	0.654	1.00
43_K	69_G	0.654	1.00
136_L	140_M	0.654	1.00
105_R	142_P	0.651	1.00
86_S	91_G	0.650	1.00
99_Q	102_E	0.649	1.00
38_I	104_C	0.649	1.00
166_G	189_H	0.643	1.00
156_A	165_R	0.643	1.00
154_E	158_Q	0.642	1.00
150_I	167_L	0.641	1.00
100_V	111_A	0.639	1.00
76_L	79_V	0.636	0.99
224_L	227_W	0.635	0.99
80_D	85_Y	0.634	0.99
187_S	211_L	0.634	0.99
178_E	182_R	0.631	0.99
100_V	104_C	0.630	0.99
114_E	168_L	0.628	0.99
81_A	95_P	0.626	0.99
108_G	142_P	0.625	0.99
197_K	227_W	0.623	0.99
97_L	128_M	0.621	0.99
43_K	68_A	0.619	0.99
186_V	189_H	0.618	0.99
232_I	240_I	0.618	0.99
59_E	64_G	0.617	0.99
9_I	234_T	0.614	0.99
40_F	113_I	0.613	0.99
33_Y	241_G	0.612	0.99
97_L	131_L	0.612	0.99
147_S	153_L	0.610	0.99
18_L	236_A	0.609	0.99
166_G	211_L	0.608	0.99
58_L	66_G	0.608	0.99
8_R	231_C	0.606	0.99
46_K	75_D	0.606	0.99
132_A	143_P	0.601	0.99
217_K	239_V	0.599	0.99
150_I	179_L	0.598	0.99
74_Q	77_L	0.594	0.99
53_L	62_S	0.593	0.99
128_M	145_L	0.591	0.99
39_E	116_K	0.586	0.99
61_T	64_G	0.586	0.99
10_V	211_L	0.585	0.99
38_I	109_M	0.582	0.99
101_A	139_G	0.572	0.99
8_R	36_K	0.571	0.99
23_T	26_S	0.570	0.99
59_E	62_S	0.569	0.99
164_P	209_R	0.568	0.99
51_F	96_L	0.567	0.99
151_D	154_E	0.567	0.99
15_G	35_H	0.563	0.99
8_R	110_M	0.559	0.99
212_V	215_V	0.558	0.99
214_T	234_T	0.557	0.99
61_T	81_A	0.556	0.99
43_K	117_P	0.554	0.99
197_K	200_V	0.553	0.99
9_I	237_I	0.552	0.99
132_A	139_G	0.552	0.99
125_T	128_M	0.551	0.99
221_A	225_L	0.551	0.99
67_V	71_L	0.551	0.99
153_L	157_Q	0.549	0.99
148_F	213_Y	0.548	0.99
31_A	108_G	0.545	0.98
170_D	191_N	0.544	0.98
62_S	65_W	0.543	0.98
189_H	233_C	0.542	0.98
125_T	159_A	0.541	0.98
179_L	183_L	0.541	0.98
116_K	148_F	0.539	0.98
33_Y	237_I	0.534	0.98
38_I	100_V	0.534	0.98
195_L	212_V	0.532	0.98
31_A	38_I	0.528	0.98
167_L	185_C	0.528	0.98
25_A	28_D	0.528	0.98
199_R	202_Q	0.527	0.98
16_G	237_I	0.521	0.98
106_E	142_P	0.521	0.98
223_E	226_R	0.520	0.98
117_P	122_G	0.520	0.98
54_H	116_K	0.515	0.98
113_I	143_P	0.513	0.98
37_M	146_S	0.513	0.98
117_P	120_G	0.512	0.98
81_A	85_Y	0.510	0.98
211_L	233_C	0.509	0.98
105_R	108_G	0.506	0.98
200_V	229_V	0.505	0.97
24_L	27_I	0.503	0.97
30_G	38_I	0.502	0.97
180_T	188_I	0.502	0.97
168_L	189_H	0.501	0.97
105_R	111_A	0.501	0.97
39_E	55_D	0.501	0.97
136_L	139_G	0.500	0.97
46_K	71_L	0.500	0.97

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
2pz0A	2	0.9717	100	0.082	Contact Map
2otdA	1	0.9879	100	0.083	Contact Map
3qvqA	4	0.9919	100	0.101	Contact Map
4r7oA	4	0.9717	100	0.104	Contact Map
3ks6A	1	0.9555	100	0.114	Contact Map
4oecA	1	0.9352	100	0.119	Contact Map
1zccA	5	0.9433	100	0.12	Contact Map
3l12A	2	0.9879	100	0.122	Contact Map
2o55A	1	0.9555	100	0.123	Contact Map
2oogA	4	0.9798	100	0.129	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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