GPDPase_memb - PFAM28P - GREMLIN Contacts

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GPDPase_memb - Membrane domain of glycerophosphoryl diester phosphodiesterase

PFAM:	PF10110	Sequences: IKKSLRDFRRNWRTLLLFELLYKLLALLLLIPLLSLLLRLLLKLSGYSYLTNENILSFLLTSPLGLLALLLLLLLLLLLIFLEFAGLILIAAAARRGRRISLRDALRFSLRRLPRLLRLGLLLLLLYLLLLLPFLGLGLASSLLSKIDIPYFITDEFLKAALGLGLLYLLLLLLLLYLLLRWIFALPLVLLEGKSFREALKESWRLTKGRRWRILLLLLLWLLLLLLLLLLLLALLLLLLALLLDLLPGSLALLLAVLALLLLWLLSFLLTPLFSAALTSLLYAYLYEEGELPEIPKKKRLKRLLKIVIVLLVILLIIFI	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	320 (292)
Sequences:	1430 (1230)
Seq/√Len:	72.0
META:	0.664

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
157_F	160_A	5.115	1.00
157_F	163_G	4.827	1.00
83_E	87_L	4.110	1.00
150_P	153_I	4.061	1.00
19_E	23_K	3.689	1.00
159_K	163_G	3.600	1.00
160_A	163_G	3.149	1.00
272_P	282_L	3.146	1.00
202_E	205_R	3.141	1.00
62_S	65_G	3.085	1.00
188_L	202_E	2.976	1.00
279_T	282_L	2.935	1.00
157_F	161_A	2.896	1.00
181_R	207_T	2.896	1.00
158_L	161_A	2.623	1.00
279_T	283_Y	2.298	1.00
274_F	282_L	2.284	1.00
157_F	162_L	2.213	1.00
272_P	279_T	2.139	1.00
274_F	279_T	2.134	1.00
177_Y	181_R	2.083	1.00
161_A	164_L	2.072	1.00
23_K	83_E	2.063	1.00
42_L	45_S	2.058	1.00
194_K	202_E	2.049	1.00
282_L	286_L	1.994	1.00
157_F	164_L	1.945	1.00
150_P	154_T	1.924	1.00
90_I	105_A	1.903	1.00
178_L	181_R	1.902	1.00
156_E	159_K	1.888	1.00
156_E	160_A	1.886	1.00
204_W	207_T	1.850	1.00
158_L	162_L	1.844	1.00
275_S	278_L	1.844	1.00
148_D	151_Y	1.842	1.00
149_I	152_F	1.839	1.00
218_L	229_L	1.832	1.00
185_A	200_L	1.828	1.00
18_F	22_Y	1.812	1.00
105_A	109_S	1.799	1.00
192_E	202_E	1.798	1.00
278_L	282_L	1.790	1.00
88_I	187_P	1.779	1.00
158_L	164_L	1.737	1.00
272_P	275_S	1.733	1.00
156_E	163_G	1.730	1.00
147_I	150_P	1.726	1.00
18_F	86_G	1.714	1.00
195_S	198_E	1.693	1.00
181_R	204_W	1.671	1.00
276_A	279_T	1.653	1.00
277_A	280_S	1.643	1.00
182_W	204_W	1.629	0.99
264_W	282_L	1.566	0.99
127_Y	179_L	1.558	0.99
101_S	104_D	1.545	0.99
279_T	286_L	1.543	0.99
49_Y	54_N	1.534	0.99
276_A	280_S	1.530	0.99
221_W	240_L	1.498	0.99
189_V	196_F	1.495	0.99
171_L	175_L	1.490	0.99
277_A	282_L	1.467	0.99
168_Y	172_L	1.464	0.99
147_I	153_I	1.439	0.99
102_L	105_A	1.432	0.99
15_L	19_E	1.416	0.98
22_Y	26_A	1.413	0.98
275_S	279_T	1.411	0.98
19_E	22_Y	1.404	0.98
264_W	283_Y	1.402	0.98
264_W	267_S	1.397	0.98
277_A	281_L	1.389	0.98
264_W	268_F	1.389	0.98
257_V	260_L	1.364	0.98
169_L	173_L	1.356	0.98
93_A	100_I	1.352	0.98
218_L	221_W	1.352	0.98
137_L	140_A	1.343	0.98
254_L	258_L	1.331	0.98
158_L	163_G	1.314	0.98
268_F	271_T	1.308	0.97
144_L	148_D	1.293	0.97
188_L	192_E	1.281	0.97
88_I	191_L	1.272	0.97
282_L	287_Y	1.271	0.97
50_L	175_L	1.263	0.97
63_P	66_L	1.254	0.97
157_F	165_G	1.251	0.97
81_F	86_G	1.249	0.97
167_L	173_L	1.243	0.97
41_L	58_F	1.242	0.97
202_E	206_L	1.215	0.96
267_S	282_L	1.214	0.96
219_L	222_L	1.208	0.96
280_S	284_A	1.205	0.96
188_L	282_L	1.201	0.96
54_N	65_G	1.187	0.96
152_F	160_A	1.177	0.95
291_E	294_E	1.170	0.95
36_L	40_L	1.140	0.94
15_L	94_A	1.129	0.94
112_R	115_R	1.127	0.94
82_L	86_G	1.126	0.94
278_L	281_L	1.122	0.94
148_D	152_F	1.119	0.94
222_L	226_L	1.119	0.94
282_L	285_Y	1.116	0.94
177_Y	207_T	1.116	0.94
257_V	261_L	1.110	0.94
229_L	240_L	1.109	0.94
18_F	23_K	1.105	0.93
144_L	149_I	1.099	0.93
74_L	77_L	1.097	0.93
281_L	285_Y	1.097	0.93
188_L	206_L	1.094	0.93
19_E	83_E	1.093	0.93
290_G	294_E	1.092	0.93
178_L	267_S	1.092	0.93
280_S	283_Y	1.089	0.93
203_S	207_T	1.085	0.93
150_P	156_E	1.073	0.92
147_I	151_Y	1.068	0.92
182_W	200_L	1.061	0.92
107_R	111_R	1.059	0.92
18_F	90_I	1.054	0.92
287_Y	290_G	1.050	0.92
139_L	142_S	1.049	0.92
160_A	164_L	1.046	0.91
93_A	98_R	1.046	0.91
274_F	277_A	1.029	0.91
10_R	97_G	1.022	0.90
19_E	87_L	1.014	0.90
52_N	65_G	1.010	0.90
150_P	157_F	1.009	0.90
238_L	242_L	1.009	0.90
268_F	279_T	1.008	0.90
62_S	91_A	1.004	0.90
284_A	287_Y	1.002	0.90
236_L	242_L	0.999	0.89
227_L	231_L	0.997	0.89
287_Y	291_E	0.996	0.89
11_N	94_A	0.995	0.89
266_L	273_L	0.991	0.89
264_W	275_S	0.990	0.89
270_L	278_L	0.988	0.89
157_F	167_L	0.987	0.89
220_L	223_L	0.986	0.89
58_F	65_G	0.969	0.88
276_A	282_L	0.965	0.88
207_T	210_R	0.963	0.88
59_L	134_F	0.962	0.88
139_L	176_L	0.958	0.87
187_P	283_Y	0.957	0.87
97_G	104_D	0.951	0.87
33_L	40_L	0.950	0.87
192_E	206_L	0.948	0.87
16_L	25_L	0.947	0.87
125_L	173_L	0.945	0.87
278_L	287_Y	0.941	0.86
283_Y	287_Y	0.939	0.86
181_R	203_S	0.935	0.86
283_Y	286_L	0.934	0.86
287_Y	296_P	0.934	0.86
86_G	109_S	0.931	0.86
89_L	112_R	0.923	0.85
229_L	238_L	0.922	0.85
207_T	214_I	0.922	0.85
89_L	184_F	0.921	0.85
285_Y	289_E	0.921	0.85
122_L	126_L	0.921	0.85
217_L	220_L	0.918	0.85
269_L	273_L	0.916	0.85
164_L	167_L	0.913	0.85
230_L	234_A	0.912	0.85
220_L	238_L	0.912	0.85
159_K	162_L	0.906	0.84
222_L	240_L	0.906	0.84
73_L	231_L	0.905	0.84
263_L	267_S	0.903	0.84
42_L	58_F	0.902	0.84
59_L	63_P	0.899	0.84
264_W	278_L	0.893	0.83
270_L	282_L	0.893	0.83
113_L	134_F	0.889	0.83
236_L	240_L	0.888	0.83
54_N	62_S	0.886	0.83
149_I	153_I	0.885	0.83
266_L	276_A	0.879	0.82
219_L	226_L	0.873	0.82
75_L	98_R	0.868	0.82
74_L	81_F	0.866	0.81
180_L	208_K	0.865	0.81
275_S	283_Y	0.857	0.81
85_A	109_S	0.853	0.80
201_K	205_R	0.850	0.80
286_L	291_E	0.848	0.80
221_W	225_L	0.843	0.80
132_L	190_L	0.842	0.80
8_F	13_R	0.840	0.79
194_K	199_A	0.837	0.79
152_F	155_D	0.837	0.79
214_I	222_L	0.837	0.79
46_G	132_L	0.833	0.79
6_R	97_G	0.832	0.79
6_R	67_L	0.827	0.78
233_L	237_L	0.826	0.78
41_L	65_G	0.826	0.78
265_L	269_L	0.817	0.77
184_F	214_I	0.816	0.77
252_A	255_L	0.815	0.77
246_L	265_L	0.808	0.77
267_S	271_T	0.807	0.77
26_A	129_L	0.805	0.76
220_L	231_L	0.805	0.76
138_G	142_S	0.799	0.76
229_L	233_L	0.798	0.76
59_L	137_L	0.797	0.76
91_A	187_P	0.796	0.76
180_L	211_R	0.795	0.76
216_L	226_L	0.788	0.75
266_L	271_T	0.784	0.75
110_L	251_L	0.781	0.74
28_L	229_L	0.780	0.74
264_W	272_P	0.779	0.74
222_L	233_L	0.778	0.74
272_P	276_A	0.776	0.74
39_R	269_L	0.774	0.74
240_L	245_D	0.763	0.72
149_I	154_T	0.762	0.72
163_G	170_L	0.761	0.72
83_E	214_I	0.754	0.72
83_E	187_P	0.753	0.72
226_L	237_L	0.750	0.71
82_L	88_I	0.747	0.71
122_L	197_R	0.745	0.71
54_N	189_V	0.744	0.71
27_L	81_F	0.740	0.70
81_F	116_L	0.738	0.70
82_L	89_L	0.738	0.70
264_W	279_T	0.737	0.70
65_G	86_G	0.736	0.70
153_I	170_L	0.733	0.69
294_E	297_K	0.733	0.69
80_I	84_F	0.733	0.69
47_Y	54_N	0.732	0.69
28_L	37_L	0.730	0.69
284_A	288_E	0.728	0.69
234_A	238_L	0.727	0.69
182_W	185_A	0.726	0.69
274_F	278_L	0.725	0.69
123_L	196_F	0.722	0.68
267_S	272_P	0.711	0.67
200_L	204_W	0.711	0.67
226_L	229_L	0.711	0.67
141_S	153_I	0.706	0.67
49_Y	65_G	0.706	0.67
11_N	54_N	0.704	0.66
272_P	277_A	0.702	0.66
288_E	294_E	0.702	0.66
93_A	105_A	0.700	0.66
275_S	282_L	0.698	0.66
247_L	252_A	0.695	0.65
245_D	250_S	0.695	0.65
51_T	131_L	0.694	0.65
45_S	65_G	0.694	0.65
267_S	276_A	0.693	0.65
189_V	199_A	0.688	0.65
267_S	277_A	0.687	0.64
227_L	230_L	0.684	0.64
171_L	242_L	0.684	0.64
174_L	247_L	0.684	0.64
231_L	243_L	0.683	0.64
73_L	104_D	0.680	0.64
165_G	169_L	0.678	0.63
105_A	143_L	0.676	0.63
268_F	272_P	0.675	0.63
182_W	203_S	0.673	0.63
59_L	206_L	0.672	0.63
59_L	240_L	0.671	0.63
220_L	225_L	0.668	0.62
71_L	169_L	0.667	0.62
251_L	257_V	0.666	0.62
223_L	250_S	0.666	0.62
50_L	123_L	0.666	0.62
105_A	189_V	0.664	0.62
83_E	90_I	0.664	0.62
182_W	207_T	0.662	0.62
157_F	175_L	0.661	0.61
269_L	281_L	0.661	0.61
268_F	282_L	0.661	0.61
277_A	285_Y	0.660	0.61
271_T	279_T	0.658	0.61
272_P	283_Y	0.657	0.61
128_L	153_I	0.656	0.61
99_R	102_L	0.656	0.61
266_L	277_A	0.653	0.61
269_L	272_P	0.651	0.60
22_Y	30_L	0.650	0.60
265_L	271_T	0.650	0.60
73_L	130_L	0.648	0.60
112_R	193_G	0.648	0.60
174_L	181_R	0.647	0.60
32_P	131_L	0.647	0.60
6_R	193_G	0.644	0.59
170_L	220_L	0.640	0.59
273_L	281_L	0.637	0.59
290_G	296_P	0.634	0.58
148_D	153_I	0.633	0.58
32_P	182_W	0.632	0.58
107_R	110_L	0.632	0.58
43_K	130_L	0.631	0.58
166_L	170_L	0.631	0.58
30_L	79_L	0.628	0.58
173_L	216_L	0.625	0.57
280_S	286_L	0.624	0.57
291_E	296_P	0.623	0.57
239_L	243_L	0.623	0.57
290_G	293_P	0.621	0.57
11_N	23_K	0.619	0.56
152_F	157_F	0.619	0.56
171_L	181_R	0.615	0.56
271_T	275_S	0.613	0.56
185_A	196_F	0.610	0.55
20_L	256_A	0.609	0.55
18_F	52_N	0.609	0.55
228_L	256_A	0.608	0.55
287_Y	293_P	0.608	0.55
108_F	117_L	0.607	0.55
17_L	42_L	0.607	0.55
230_L	237_L	0.606	0.55
264_W	276_A	0.606	0.55
59_L	251_L	0.606	0.55
255_L	260_L	0.605	0.55
194_K	198_E	0.605	0.55
162_L	169_L	0.604	0.55
101_S	115_R	0.602	0.54
143_L	149_I	0.601	0.54
276_A	284_A	0.601	0.54
267_S	270_L	0.598	0.54
160_A	178_L	0.597	0.54
267_S	274_F	0.597	0.54
288_E	292_L	0.597	0.54
54_N	120_G	0.595	0.54
161_A	165_G	0.594	0.53
18_F	83_E	0.591	0.53
134_F	182_W	0.591	0.53
216_L	237_L	0.590	0.53
35_S	78_L	0.588	0.53
227_L	232_L	0.587	0.53
134_F	188_L	0.586	0.52
60_L	65_G	0.583	0.52
131_L	135_L	0.583	0.52
241_A	245_D	0.582	0.52
32_P	52_N	0.582	0.52
232_L	239_L	0.579	0.52
33_L	199_A	0.577	0.51
23_K	38_L	0.577	0.51
234_A	240_L	0.575	0.51
14_T	17_L	0.574	0.51
179_L	190_L	0.573	0.51
206_L	210_R	0.572	0.51
50_L	72_L	0.569	0.50
52_N	56_L	0.568	0.50
67_L	265_L	0.565	0.50
25_L	125_L	0.565	0.50
103_R	135_L	0.565	0.50
127_Y	150_P	0.561	0.49
70_L	197_R	0.560	0.49
40_L	44_L	0.560	0.49
98_R	101_S	0.560	0.49
232_L	237_L	0.559	0.49
7_D	11_N	0.558	0.49
183_I	199_A	0.557	0.49
8_F	183_I	0.557	0.49
97_G	173_L	0.556	0.49
186_L	190_L	0.553	0.48
195_S	234_A	0.552	0.48
125_L	129_L	0.552	0.48
79_L	82_L	0.552	0.48
79_L	109_S	0.546	0.48
231_L	280_S	0.545	0.47
184_F	196_F	0.542	0.47
272_P	287_Y	0.542	0.47
62_S	80_I	0.541	0.47
64_L	71_L	0.541	0.47
284_A	290_G	0.540	0.47
127_Y	180_L	0.540	0.47
7_D	41_L	0.539	0.47
244_L	251_L	0.537	0.46
204_W	223_L	0.537	0.46
188_L	194_K	0.533	0.46
140_A	152_F	0.533	0.46
235_L	255_L	0.532	0.46
233_L	241_A	0.531	0.46
84_F	90_I	0.529	0.45
41_L	72_L	0.528	0.45
228_L	278_L	0.528	0.45
31_I	68_A	0.527	0.45
37_L	262_L	0.526	0.45
121_L	132_L	0.526	0.45
278_L	283_Y	0.525	0.45
281_L	286_L	0.525	0.45
170_L	229_L	0.525	0.45
84_F	187_P	0.525	0.45
40_L	43_K	0.525	0.45
140_A	148_D	0.524	0.45
60_L	262_L	0.523	0.45
260_L	264_W	0.521	0.44
210_R	213_R	0.521	0.44
164_L	169_L	0.520	0.44
228_L	237_L	0.519	0.44
78_L	208_K	0.519	0.44
36_L	191_L	0.519	0.44
136_G	143_L	0.518	0.44
221_W	237_L	0.517	0.44
232_L	297_K	0.517	0.44
123_L	185_A	0.516	0.44
165_G	171_L	0.515	0.44
104_D	190_L	0.514	0.44
233_L	238_L	0.513	0.44
142_S	187_P	0.513	0.44
7_D	15_L	0.510	0.43
42_L	47_Y	0.510	0.43
222_L	235_L	0.510	0.43
133_P	182_W	0.510	0.43
270_L	274_F	0.509	0.43
121_L	127_Y	0.509	0.43
222_L	230_L	0.508	0.43
123_L	140_A	0.507	0.43
21_L	225_L	0.506	0.43
179_L	182_W	0.505	0.43
72_L	81_F	0.504	0.42
29_L	155_D	0.503	0.42
275_S	280_S	0.502	0.42
293_P	297_K	0.501	0.42
94_A	228_L	0.500	0.42

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
4lz6A	1	0.3563	11	0.95	Contact Map
3w4tA	1	0.3531	10.4	0.951	Contact Map
4tquM	1	0.8406	9.4	0.952	Contact Map
3mp7A	1	0.2531	6.7	0.955	Contact Map
4w251	1	0.2969	5	0.958	Contact Map
4humA	1	0.35	4.9	0.958	Contact Map
4tquN	1	0.7656	4.9	0.958	Contact Map
3mp7B	1	0.1688	4.7	0.958	Contact Map
3dinC	1	0.3125	4	0.959	Contact Map
3dl8G	1	0.3094	3.9	0.96	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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