GLPQ - ECOLI - GREMLIN Contacts

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GLPQ - Glycerophosphoryl diester phosphodiesterase

UniProt:	P09394	Sequences: MKLTLKNLSMAIMMSTIVMGSSAMAADSNEKIVIAHRGASGYLPEHTLPAKAMAYAQGADYLEQDLVMTKDDNLVVLHDHYLDRVTDVADRFPDRARKDGRYYAIDFTLDEIKSLKFTEGFDIENGKKVQTYPGRFPMGKSDFRVHTFEEEIEFVQGLNHSTGKNIGIYPEIKAPWFHHQEGKDIAAKTLEVLKKYGYTGKDDKVYLQCFDADELKRIKNELEPKMGMELNLVQLIAYTDWNETQQKQPDGSWVNYNYDWMFKPGAMKQVAEYADGIGPDYHMLIEETSQPGNIKLTGMVQDAQQNKLVVHPYTVRSDKLPEYTPDVNQLYDALYNKAGVNGLFTDFPDKAVKFLNKE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10399
Length:	358 (286)
Sequences:	2765 (1796)
Seq/√Len:	106.2

ECOLI - GLPQ UGPQ
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
113_K	150_E	3.759	1.00
87_D	91_R	3.583	1.00
304_Q	341_N	3.182	1.00
42_Y	349_D	3.027	1.00
41_G	347_F	2.999	1.00
35_A	50_A	2.973	1.00
76_V	151_E	2.861	1.00
281_Y	330_L	2.807	1.00
109_L	147_T	2.766	1.00
298_G	302_D	2.708	1.00
75_V	112_I	2.688	1.00
48_L	146_H	2.556	1.00
149_E	192_V	2.538	1.00
331_Y	343_L	2.508	1.00
153_E	196_Y	2.400	1.00
95_R	111_E	2.361	1.00
315_V	334_L	2.347	1.00
279_P	312_P	2.321	1.00
61_Y	167_G	2.307	1.00
47_T	117_F	2.266	1.00
149_E	196_Y	2.224	1.00
192_V	196_Y	2.214	1.00
52_A	56_A	2.206	1.00
40_S	50_A	2.185	1.00
66_L	148_F	2.184	1.00
149_E	195_K	2.179	1.00
88_V	107_F	2.169	1.00
187_A	221_E	2.131	1.00
270_V	274_A	2.124	1.00
152_I	168_I	2.077	1.00
108_T	111_E	2.008	1.00
172_I	189_T	2.001	1.00
317_S	350_K	1.981	1.00
312_P	340_V	1.943	1.00
37_R	45_E	1.940	1.00
234_Q	273_Y	1.939	1.00
109_L	113_K	1.928	1.00
68_M	188_K	1.923	1.00
345_T	351_A	1.920	1.00
343_L	351_A	1.905	1.00
149_E	153_E	1.875	1.00
68_M	185_I	1.865	1.00
73_N	109_L	1.798	1.00
95_R	98_K	1.779	1.00
191_E	195_K	1.770	1.00
148_F	170_P	1.760	1.00
93_P	96_A	1.742	1.00
92_F	95_R	1.739	1.00
331_Y	351_A	1.720	1.00
333_A	338_A	1.697	1.00
169_Y	311_H	1.679	1.00
116_K	142_D	1.655	1.00
347_F	350_K	1.644	1.00
304_Q	310_V	1.633	1.00
130_Q	133_P	1.627	1.00
62_L	155_V	1.626	1.00
147_T	150_E	1.619	1.00
63_E	78_H	1.599	1.00
332_D	337_K	1.519	1.00
75_V	104_A	1.517	1.00
69_T	75_V	1.514	1.00
87_D	90_D	1.507	1.00
129_V	133_P	1.499	1.00
151_E	155_V	1.496	1.00
187_A	191_E	1.482	1.00
316_R	346_D	1.468	1.00
64_Q	76_V	1.429	1.00
69_T	112_I	1.418	1.00
49_P	143_F	1.410	1.00
317_S	347_F	1.395	1.00
52_A	157_G	1.386	1.00
256_Y	261_M	1.374	1.00
187_A	217_R	1.359	1.00
188_K	191_E	1.357	1.00
300_V	340_V	1.347	1.00
43_L	53_M	1.338	0.99
53_M	56_A	1.328	0.99
217_R	221_E	1.327	0.99
113_K	144_R	1.298	0.99
42_Y	53_M	1.289	0.99
36_H	78_H	1.289	0.99
72_D	188_K	1.272	0.99
112_I	145_V	1.266	0.99
174_A	211_D	1.265	0.99
172_I	185_I	1.258	0.99
48_L	52_A	1.256	0.99
303_A	310_V	1.238	0.99
48_L	154_F	1.232	0.99
268_K	306_N	1.213	0.99
312_P	343_L	1.211	0.99
55_Y	62_L	1.211	0.99
65_D	78_H	1.210	0.99
35_A	40_S	1.209	0.99
77_L	104_A	1.198	0.99
209_C	214_E	1.192	0.99
152_I	192_V	1.191	0.99
46_H	146_H	1.178	0.99
233_V	276_G	1.176	0.99
92_F	98_K	1.172	0.99
327_V	331_Y	1.167	0.99
256_Y	260_W	1.166	0.99
107_F	112_I	1.166	0.99
51_K	64_Q	1.159	0.98
257_N	260_W	1.156	0.98
46_H	51_K	1.149	0.98
278_G	311_H	1.148	0.98
109_L	150_E	1.147	0.98
92_F	96_A	1.146	0.98
84_R	120_G	1.135	0.98
53_M	57_Q	1.133	0.98
93_P	97_R	1.129	0.98
300_V	304_Q	1.113	0.98
240_D	244_T	1.109	0.98
311_H	342_G	1.109	0.98
258_Y	261_M	1.107	0.98
315_V	331_Y	1.107	0.98
277_I	299_M	1.106	0.98
285_I	330_L	1.104	0.98
215_L	232_L	1.103	0.98
42_Y	57_Q	1.096	0.98
80_H	103_Y	1.096	0.98
169_Y	344_F	1.094	0.98
301_Q	305_Q	1.093	0.98
172_I	214_E	1.091	0.98
169_Y	278_G	1.089	0.98
224_P	230_L	1.082	0.98
156_Q	196_Y	1.067	0.97
216_K	269_Q	1.062	0.97
35_A	39_A	1.059	0.97
70_K	108_T	1.058	0.97
169_Y	172_I	1.049	0.97
64_Q	151_E	1.048	0.97
152_I	196_Y	1.048	0.97
302_D	305_Q	1.046	0.97
107_F	111_E	1.042	0.97
171_E	210_F	1.040	0.97
152_I	193_L	1.035	0.97
276_G	311_H	1.034	0.97
37_R	78_H	1.030	0.97
190_L	194_K	1.030	0.97
335_Y	343_L	1.021	0.97
331_Y	335_Y	1.016	0.97
277_I	310_V	1.015	0.96
94_D	98_K	1.006	0.96
194_K	223_E	1.002	0.96
68_M	74_L	0.996	0.96
266_A	269_Q	0.993	0.96
66_L	74_L	0.969	0.95
57_Q	349_D	0.967	0.95
32_I	60_D	0.963	0.95
103_Y	106_D	0.962	0.95
190_L	218_I	0.962	0.95
52_A	154_F	0.959	0.95
169_Y	206_Y	0.956	0.95
79_D	103_Y	0.950	0.95
55_Y	166_I	0.948	0.95
81_Y	84_R	0.948	0.95
255_N	258_Y	0.944	0.95
72_D	184_D	0.935	0.94
155_V	168_I	0.927	0.94
64_Q	170_P	0.925	0.94
132_Y	135_R	0.925	0.94
128_K	133_P	0.925	0.94
212_A	216_K	0.924	0.94
33_V	352_V	0.923	0.94
276_G	309_V	0.923	0.94
78_H	173_K	0.922	0.94
79_D	101_R	0.921	0.94
25_A	28_S	0.917	0.94
263_K	266_A	0.915	0.94
37_R	63_E	0.911	0.94
266_A	270_V	0.911	0.94
239_T	244_T	0.910	0.94
184_D	187_A	0.909	0.94
208_Q	344_F	0.909	0.94
51_K	76_V	0.906	0.93
194_K	199_T	0.904	0.93
179_H	184_D	0.902	0.93
148_F	152_I	0.897	0.93
184_D	188_K	0.892	0.93
262_F	283_M	0.891	0.93
82_L	104_A	0.889	0.93
146_H	154_F	0.883	0.93
190_L	221_E	0.880	0.92
173_K	210_F	0.880	0.92
269_Q	272_E	0.877	0.92
69_T	109_L	0.876	0.92
131_T	135_R	0.875	0.92
66_L	189_T	0.871	0.92
169_Y	208_Q	0.871	0.92
277_I	308_L	0.869	0.92
212_A	234_Q	0.869	0.92
267_M	302_D	0.859	0.92
267_M	270_V	0.855	0.91
315_V	327_V	0.852	0.91
333_A	337_K	0.851	0.91
284_L	338_A	0.840	0.91
237_A	243_E	0.838	0.91
92_F	97_R	0.834	0.90
239_T	242_N	0.832	0.90
332_D	354_F	0.830	0.90
39_A	42_Y	0.829	0.90
255_N	261_M	0.827	0.90
165_N	204_K	0.827	0.90
54_A	62_L	0.826	0.90
255_N	259_D	0.822	0.90
73_N	149_E	0.821	0.90
312_P	315_V	0.821	0.90
80_H	105_I	0.820	0.90
56_A	157_G	0.812	0.89
82_L	85_V	0.810	0.89
37_R	65_D	0.809	0.89
285_I	334_L	0.803	0.89
231_N	236_I	0.803	0.89
91_R	114_S	0.803	0.89
279_P	299_M	0.802	0.88
273_Y	279_P	0.799	0.88
219_K	275_D	0.798	0.88
210_F	235_L	0.796	0.88
148_F	192_V	0.795	0.88
156_Q	204_K	0.794	0.88
78_H	210_F	0.792	0.88
168_I	198_Y	0.792	0.88
36_H	63_E	0.782	0.87
241_W	244_T	0.779	0.87
73_N	147_T	0.775	0.87
186_A	214_E	0.774	0.87
86_T	117_F	0.771	0.86
93_P	98_K	0.771	0.86
237_A	313_Y	0.770	0.86
77_L	145_V	0.768	0.86
207_L	232_L	0.761	0.86
37_R	173_K	0.760	0.86
72_D	182_G	0.760	0.86
223_E	230_L	0.760	0.86
45_E	63_E	0.759	0.86
303_A	308_L	0.757	0.85
238_Y	244_T	0.757	0.85
166_I	169_Y	0.756	0.85
127_K	130_Q	0.755	0.85
102_Y	107_F	0.752	0.85
200_G	204_K	0.750	0.85
257_N	262_F	0.749	0.85
34_I	169_Y	0.747	0.85
47_T	146_H	0.742	0.84
340_V	343_L	0.741	0.84
34_I	61_Y	0.740	0.84
236_I	262_F	0.738	0.84
94_D	97_R	0.738	0.84
286_E	293_N	0.734	0.84
63_E	173_K	0.734	0.84
74_L	189_T	0.731	0.83
75_V	109_L	0.730	0.83
74_L	188_K	0.729	0.83
68_M	183_K	0.728	0.83
116_K	144_R	0.726	0.83
317_S	327_V	0.725	0.83
223_E	229_E	0.723	0.83
86_T	115_L	0.723	0.83
234_Q	261_M	0.717	0.82
78_H	171_E	0.714	0.82
51_K	151_E	0.714	0.82
210_F	313_Y	0.713	0.82
104_A	178_H	0.710	0.82
55_Y	164_K	0.710	0.82
74_L	148_F	0.710	0.82
316_R	347_F	0.706	0.81
262_F	266_A	0.701	0.81
110_D	113_K	0.698	0.81
128_K	131_T	0.697	0.80
61_Y	169_Y	0.693	0.80
166_I	171_E	0.693	0.80
214_E	217_R	0.692	0.80
155_V	165_N	0.691	0.80
81_Y	101_R	0.691	0.80
129_V	132_Y	0.688	0.80
58_G	63_E	0.686	0.79
171_E	314_T	0.681	0.79
77_L	86_T	0.681	0.79
190_L	207_L	0.681	0.79
113_K	147_T	0.676	0.78
95_R	107_F	0.674	0.78
280_D	313_Y	0.674	0.78
327_V	350_K	0.674	0.78
240_D	243_E	0.672	0.78
42_Y	347_F	0.671	0.78
70_K	106_D	0.669	0.78
45_E	78_H	0.668	0.78
298_G	301_Q	0.667	0.77
189_T	193_L	0.665	0.77
54_A	59_A	0.665	0.77
119_E	122_D	0.665	0.77
88_V	115_L	0.664	0.77
63_E	235_L	0.663	0.77
66_L	170_P	0.663	0.77
177_F	181_E	0.663	0.77
37_R	346_D	0.661	0.77
309_V	341_N	0.660	0.77
118_T	121_F	0.652	0.76
77_L	85_V	0.651	0.76
116_K	119_E	0.650	0.76
206_Y	311_H	0.649	0.76
214_E	218_I	0.649	0.76
63_E	79_D	0.648	0.75
173_K	235_L	0.647	0.75
267_M	306_N	0.642	0.75
51_K	62_L	0.641	0.75
49_P	52_A	0.636	0.74
277_I	303_A	0.635	0.74
257_N	261_M	0.633	0.74
232_L	236_I	0.633	0.74
270_V	273_Y	0.631	0.73
268_K	272_E	0.631	0.73
210_F	314_T	0.629	0.73
189_T	207_L	0.629	0.73
177_F	180_Q	0.628	0.73
258_Y	262_F	0.628	0.73
96_A	100_G	0.627	0.73
36_H	313_Y	0.626	0.73
121_F	127_K	0.623	0.73
313_Y	344_F	0.621	0.72
46_H	64_Q	0.620	0.72
109_L	144_R	0.619	0.72
34_I	342_G	0.618	0.72
278_G	313_Y	0.614	0.71
255_N	263_K	0.613	0.71
77_L	117_F	0.613	0.71
268_K	302_D	0.612	0.71
85_V	120_G	0.612	0.71
83_D	89_A	0.612	0.71
208_Q	214_E	0.611	0.71
73_N	188_K	0.611	0.71
38_G	51_K	0.611	0.71
255_N	260_W	0.610	0.71
172_I	209_C	0.610	0.71
193_L	207_L	0.610	0.71
284_L	300_V	0.608	0.71
90_D	133_P	0.608	0.71
183_K	187_A	0.607	0.71
91_R	107_F	0.607	0.71
48_L	189_T	0.606	0.70
280_D	283_M	0.605	0.70
332_D	335_Y	0.601	0.70
68_M	104_A	0.601	0.70
278_G	344_F	0.599	0.70
271_A	308_L	0.597	0.69
198_Y	204_K	0.597	0.69
238_Y	241_W	0.596	0.69
212_A	270_V	0.595	0.69
283_M	299_M	0.593	0.69
146_H	151_E	0.593	0.69
172_I	175_P	0.593	0.69
40_S	178_H	0.592	0.69
237_A	280_D	0.590	0.68
36_H	173_K	0.590	0.68
173_K	314_T	0.589	0.68
192_V	195_K	0.584	0.68
57_Q	352_V	0.582	0.67
268_K	301_Q	0.581	0.67
27_D	30_E	0.579	0.67
156_Q	197_G	0.579	0.67
237_A	244_T	0.578	0.67
317_S	352_V	0.577	0.67
82_L	88_V	0.575	0.66
331_Y	345_T	0.574	0.66
78_H	313_Y	0.573	0.66
236_I	277_I	0.571	0.66
61_Y	342_G	0.570	0.66
207_L	218_I	0.566	0.65
117_F	121_F	0.566	0.65
55_Y	155_V	0.565	0.65
72_D	133_P	0.565	0.65
93_P	102_Y	0.563	0.65
205_V	230_L	0.563	0.65
281_Y	315_V	0.562	0.65
35_A	54_A	0.561	0.65
300_V	310_V	0.561	0.65
280_D	284_L	0.561	0.65
206_Y	231_N	0.560	0.64
300_V	338_A	0.559	0.64
134_G	141_S	0.557	0.64
80_H	104_A	0.556	0.64
224_P	229_E	0.555	0.64
33_V	351_A	0.551	0.63
80_H	181_E	0.550	0.63
50_A	129_V	0.549	0.63
315_V	340_V	0.547	0.63
34_I	340_V	0.545	0.62
330_L	334_L	0.545	0.62
36_H	171_E	0.545	0.62
32_I	61_Y	0.544	0.62
72_D	183_K	0.544	0.62
39_A	53_M	0.543	0.62
169_Y	173_K	0.542	0.62
127_K	131_T	0.542	0.62
284_L	312_P	0.542	0.62
331_Y	354_F	0.541	0.62
63_E	210_F	0.541	0.62
350_K	354_F	0.541	0.62
135_R	143_F	0.541	0.62
87_D	117_F	0.539	0.62
303_A	307_K	0.539	0.62
111_E	114_S	0.538	0.61
107_F	115_L	0.537	0.61
65_D	210_F	0.536	0.61
199_T	229_E	0.531	0.60
274_A	278_G	0.529	0.60
236_I	283_M	0.527	0.60
236_I	299_M	0.526	0.60
34_I	276_G	0.525	0.60
80_H	178_H	0.525	0.60
34_I	311_H	0.524	0.59
148_F	193_L	0.523	0.59
221_E	224_P	0.520	0.59
38_G	54_A	0.520	0.59
71_D	75_V	0.519	0.59
78_H	235_L	0.518	0.58
268_K	305_Q	0.517	0.58
293_N	296_L	0.515	0.58
302_D	306_N	0.514	0.58
171_E	235_L	0.514	0.58
86_T	90_D	0.511	0.57
351_A	354_F	0.510	0.57
105_I	178_H	0.509	0.57
318_D	353_K	0.508	0.57
41_G	317_S	0.505	0.57
259_D	262_F	0.505	0.57
67_V	80_H	0.503	0.56
335_Y	351_A	0.500	0.56

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
1ydyA	2	0.9134	100	0.206	Contact Map
4r7oA	4	0.7654	100	0.279	Contact Map
2oogA	4	0.7291	100	0.301	Contact Map
2pz0A	2	0.676	100	0.308	Contact Map
3ch0A	1	0.7402	100	0.315	Contact Map
3l12A	2	0.8017	100	0.32	Contact Map
1zccA	5	0.6536	100	0.324	Contact Map
3qvqA	4	0.6955	100	0.325	Contact Map
2otdA	1	0.6816	100	0.327	Contact Map
3ks6A	1	0.6816	100	0.329	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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