LGT - PFAM28P - GREMLIN Contacts

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LGT - Prolipoprotein diacylglyceryl transferase

PFAM:	PF01790	Sequences: PVLFSIGLAIRWYGLMYALGFLLGLWLARRRAKRRGDDDVDDLLLWAVILGIIGARLGYVLFYYNPEIFAIWEGGLSFHGGLIGGLLAALLYARKLPFLRLADAVAPALPLGQAIGRIGNFINGELYGGVPRHPTQLYEALEGLLLFAILWWLRRRRRPGQLFGLYLILYGLGRFFIEFLRPDSLTMGQLLSLPMILAGLALLIW	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	205 (202)
Sequences:	49679 (33450)
Seq/√Len:	2353.5
META:	0.889

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
133_H	138_Y	5.019	1.00
142_E	173_G	3.542	1.00
146_L	169_L	3.137	1.00
176_F	180_L	2.819	1.00
70_A	73_E	2.698	1.00
67_E	73_E	2.670	1.00
103_D	160_G	2.517	1.00
67_E	70_A	2.515	1.00
5_S	9_A	2.500	1.00
164_G	202_L	2.462	1.00
118_I	140_A	2.454	1.00
120_N	125_E	2.325	1.00
175_F	179_F	2.278	1.00
158_R	161_Q	2.260	1.00
113_Q	166_Y	2.201	1.00
31_R	154_R	2.174	1.00
168_I	196_I	2.075	1.00
148_A	152_W	2.072	1.00
100_R	159_P	1.994	1.00
164_G	199_G	1.970	1.00
84_G	88_A	1.885	1.00
14_G	18_A	1.835	1.00
171_G	196_I	1.785	1.00
168_I	199_G	1.764	1.00
26_W	30_R	1.751	1.00
107_P	110_P	1.751	1.00
120_N	126_L	1.727	1.00
31_R	34_R	1.716	1.00
102_A	163_F	1.695	1.00
153_L	165_L	1.679	1.00
50_L	88_A	1.660	1.00
3_L	15_L	1.647	1.00
28_A	108_A	1.592	1.00
161_Q	203_L	1.582	1.00
97_P	159_P	1.581	1.00
30_R	33_K	1.580	1.00
97_P	100_R	1.549	1.00
111_L	147_F	1.529	1.00
54_G	84_G	1.524	1.00
135_T	177_I	1.522	1.00
93_A	101_L	1.518	1.00
114_A	144_L	1.504	1.00
16_M	119_G	1.501	1.00
113_Q	143_G	1.499	1.00
98_F	102_A	1.470	1.00
179_F	189_Q	1.460	1.00
3_L	12_W	1.449	1.00
110_P	146_L	1.426	1.00
142_E	146_L	1.401	1.00
110_P	166_Y	1.399	1.00
121_F	137_L	1.388	1.00
50_L	84_G	1.378	1.00
25_L	44_L	1.374	1.00
164_G	203_L	1.371	1.00
29_R	41_D	1.340	1.00
127_Y	132_R	1.338	1.00
99_L	160_G	1.338	1.00
153_L	161_Q	1.329	1.00
30_R	34_R	1.325	1.00
26_W	29_R	1.322	1.00
118_I	122_I	1.320	1.00
27_L	151_W	1.320	1.00
90_L	98_F	1.320	1.00
46_W	50_L	1.313	1.00
151_W	154_R	1.312	1.00
96_L	101_L	1.308	1.00
39_D	96_L	1.307	1.00
114_A	140_A	1.300	1.00
38_D	41_D	1.290	1.00
140_A	144_L	1.282	1.00
46_W	88_A	1.253	1.00
135_T	180_L	1.252	1.00
147_F	151_W	1.244	1.00
12_W	122_I	1.231	1.00
29_R	33_K	1.229	1.00
78_F	82_L	1.216	1.00
168_I	203_L	1.212	1.00
163_F	167_L	1.198	1.00
186_T	189_Q	1.180	1.00
16_M	122_I	1.180	1.00
168_I	200_L	1.154	1.00
172_L	176_F	1.132	1.00
137_L	141_L	1.127	1.00
43_L	92_Y	1.124	1.00
169_L	173_G	1.123	1.00
149_I	153_L	1.121	1.00
157_R	161_Q	1.117	1.00
175_F	189_Q	1.115	1.00
144_L	148_A	1.103	1.00
149_I	152_W	1.099	1.00
154_R	162_L	1.089	1.00
66_P	69_F	1.089	1.00
150_L	162_L	1.083	1.00
32_A	40_V	1.081	1.00
78_F	113_Q	1.060	1.00
106_A	163_F	1.054	1.00
200_L	204_I	1.052	1.00
60_V	68_I	1.045	1.00
25_L	41_D	1.039	1.00
175_F	196_I	1.029	1.00
21_F	48_V	1.025	1.00
87_L	91_L	1.024	1.00
121_F	136_Q	1.003	1.00
79_H	188_G	1.001	1.00
16_M	19_L	0.996	1.00
88_A	92_Y	0.983	1.00
201_A	204_I	0.979	1.00
89_A	93_A	0.977	1.00
172_L	196_I	0.974	1.00
39_D	42_D	0.968	1.00
149_I	169_L	0.968	1.00
190_L	194_P	0.964	1.00
141_L	145_L	0.962	1.00
198_A	201_A	0.948	1.00
79_H	192_S	0.947	1.00
194_P	198_A	0.939	1.00
117_R	174_R	0.925	1.00
22_L	26_W	0.923	1.00
3_L	10_I	0.923	1.00
43_L	101_L	0.921	1.00
165_L	203_L	0.920	1.00
165_L	169_L	0.914	1.00
23_L	115_I	0.910	1.00
173_G	177_I	0.903	1.00
27_L	108_A	0.902	1.00
65_N	70_A	0.897	1.00
145_L	149_I	0.897	1.00
167_L	199_G	0.896	1.00
114_A	147_F	0.892	1.00
129_G	132_R	0.892	1.00
197_L	201_A	0.891	1.00
139_E	177_I	0.887	1.00
167_L	195_M	0.883	1.00
19_L	23_L	0.881	1.00
93_A	98_F	0.876	1.00
187_M	191_L	0.870	1.00
54_G	80_G	0.870	1.00
71_I	74_G	0.869	1.00
149_I	165_L	0.867	1.00
164_G	168_I	0.865	1.00
27_L	147_F	0.862	1.00
124_G	136_Q	0.858	1.00
114_A	148_A	0.842	1.00
43_L	47_A	0.838	1.00
153_L	162_L	0.838	1.00
28_A	104_A	0.831	1.00
13_Y	120_N	0.829	1.00
64_Y	67_E	0.827	1.00
176_F	179_F	0.821	1.00
146_L	173_G	0.819	1.00
81_G	85_G	0.816	1.00
99_L	164_G	0.815	1.00
4_F	10_I	0.814	1.00
50_L	54_G	0.812	1.00
161_Q	165_L	0.800	1.00
20_G	115_I	0.799	1.00
125_E	136_Q	0.799	1.00
31_R	107_P	0.798	1.00
171_G	195_M	0.795	1.00
42_D	46_W	0.794	1.00
25_L	29_R	0.791	1.00
171_G	199_G	0.790	1.00
70_A	74_G	0.787	1.00
28_A	40_V	0.785	1.00
44_L	48_V	0.782	1.00
177_I	180_L	0.777	1.00
83_I	87_L	0.776	1.00
93_A	96_L	0.774	1.00
46_W	92_Y	0.772	1.00
127_Y	135_T	0.763	1.00
23_L	111_L	0.759	1.00
84_G	87_L	0.755	1.00
47_A	89_A	0.753	1.00
42_D	92_Y	0.750	1.00
106_A	166_Y	0.746	1.00
6_I	9_A	0.737	1.00
113_Q	116_G	0.736	1.00
148_A	151_W	0.735	1.00
111_L	114_A	0.732	1.00
43_L	89_A	0.730	1.00
88_A	91_L	0.726	1.00
24_G	47_A	0.726	1.00
20_G	23_L	0.725	1.00
59_Y	77_S	0.723	1.00
143_G	146_L	0.723	1.00
127_Y	136_Q	0.720	1.00
23_L	26_W	0.710	1.00
4_F	9_A	0.708	1.00
150_L	166_Y	0.708	1.00
31_R	35_R	0.706	1.00
192_S	195_M	0.702	1.00
199_G	202_L	0.700	1.00
104_A	108_A	0.695	1.00
58_G	80_G	0.682	1.00
193_L	197_L	0.678	1.00
114_A	143_G	0.674	1.00
24_G	108_A	0.673	1.00
58_G	77_S	0.673	1.00
106_A	109_L	0.673	1.00
12_W	15_L	0.672	1.00
174_R	178_E	0.671	1.00
173_G	176_F	0.668	1.00
132_R	136_Q	0.666	1.00
65_N	68_I	0.665	1.00
86_L	89_A	0.664	1.00
113_Q	139_E	0.664	1.00
156_R	161_Q	0.657	1.00
47_A	85_G	0.648	1.00
195_M	199_G	0.646	1.00
86_L	98_F	0.645	1.00
60_V	64_Y	0.645	1.00
56_R	74_G	0.645	1.00
19_L	115_I	0.644	1.00
20_G	112_G	0.643	1.00
90_L	93_A	0.640	1.00
143_G	173_G	0.640	1.00
120_N	123_N	0.635	1.00
79_H	171_G	0.634	1.00
86_L	90_L	0.633	1.00
42_D	45_L	0.633	1.00
56_R	60_V	0.632	1.00
161_Q	164_G	0.631	1.00
185_L	189_Q	0.628	1.00
139_E	174_R	0.626	1.00
62_F	65_N	0.626	1.00
153_L	157_R	0.621	1.00
20_G	116_G	0.620	1.00
39_D	92_Y	0.617	1.00
188_G	192_S	0.616	1.00
13_Y	126_L	0.615	1.00
168_I	172_L	0.614	1.00
45_L	49_I	0.610	1.00
110_P	150_L	0.608	1.00
100_R	104_A	0.607	1.00
143_G	166_Y	0.607	1.00
13_Y	125_E	0.603	1.00
58_G	191_L	0.602	1.00
86_L	102_A	0.600	1.00
56_R	59_Y	0.599	1.00
69_F	72_W	0.598	1.00
185_L	190_L	0.596	1.00
32_A	104_A	0.596	1.00
3_L	9_A	0.595	1.00
55_A	76_L	0.595	1.00
31_R	151_W	0.592	1.00
5_S	8_L	0.589	1.00
110_P	143_G	0.588	1.00
124_G	134_P	0.585	1.00
198_A	202_L	0.585	1.00
179_F	186_T	0.583	1.00
164_G	167_L	0.582	1.00
27_L	31_R	0.582	1.00
142_E	145_L	0.579	1.00
13_Y	17_Y	0.578	1.00
117_R	120_N	0.578	1.00
112_G	116_G	0.577	1.00
99_L	102_A	0.577	1.00
119_G	122_I	0.576	1.00
150_L	165_L	0.575	1.00
87_L	90_L	0.575	1.00
107_P	162_L	0.573	1.00
142_E	177_I	0.572	1.00
134_P	137_L	0.570	1.00
175_F	192_S	0.569	1.00
114_A	118_I	0.567	1.00
35_R	100_R	0.566	1.00
27_L	111_L	0.565	1.00
38_D	42_D	0.562	1.00
137_L	140_A	0.557	1.00
78_F	166_Y	0.556	1.00
59_Y	63_Y	0.556	1.00
124_G	127_Y	0.553	1.00
188_G	191_L	0.551	1.00
171_G	192_S	0.548	1.00
107_P	111_L	0.547	1.00
139_E	142_E	0.547	1.00
143_G	170_Y	0.547	1.00
189_Q	193_L	0.547	1.00
187_M	190_L	0.545	1.00
110_P	147_F	0.542	1.00
4_F	7_G	0.541	1.00
99_L	202_L	0.540	1.00
16_M	115_I	0.531	1.00
162_L	165_L	0.531	1.00
28_A	32_A	0.529	1.00
99_L	163_F	0.526	1.00
47_A	51_G	0.525	1.00
69_F	73_E	0.525	1.00
33_K	36_G	0.522	1.00
126_L	135_T	0.519	1.00
11_R	123_N	0.516	1.00
17_Y	21_F	0.515	1.00
12_W	16_M	0.514	1.00
117_R	139_E	0.511	1.00
50_L	91_L	0.507	1.00
17_Y	20_G	0.505	1.00
45_L	48_V	0.505	1.00
89_A	102_A	0.504	1.00
46_W	91_L	0.503	1.00
9_A	12_W	0.502	1.00
107_P	154_R	0.501	1.00
167_L	171_G	0.500	1.00
124_G	132_R	0.500	1.00

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
2i68A	2	0.3707	8.6	0.941	Contact Map
3b5dA	2	0.4829	5.6	0.946	Contact Map
3dh4A	3	0.878	4.7	0.947	Contact Map
4qncA	2	0.4	3.1	0.952	Contact Map
2xq2A	2	0.878	2.9	0.953	Contact Map
2qi9A	2	0.4244	1.8	0.957	Contact Map
4x5mA	2	0.4585	1.5	0.959	Contact Map
3ga2A	1	0.239	1.5	0.96	Contact Map
3m73A	3	0.9073	1.4	0.96	Contact Map
3tqgA	2	0.2927	1.3	0.961	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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