DUF4166 - PFAM28P - GREMLIN Contacts

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

DUF4166 - Domain of unknown function (DUF4166)

PFAM:	PF13761	Sequences: LPPAVRRRHGVRLGGAVVYRGRADVERGSGLLARLLARLLRLRGAPFPEAGRDVPVTVVTVTEDDAGGGETVTWTRTFGGRGFPRRFRSTMRFGGGRGLVERFGPGLGLALALVVSVDEDGGLRFRSGGYFLRWGGLGLPLPRWLAPRATARERADEDGRFRFDVEVRHPLFGLLVRYRGWF	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	182 (167)
Sequences:	4670 (3430)
Seq/√Len:	265.4
META:	0.858

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
22_R	53_D	3.655	1.00
77_T	80_G	3.647	1.00
160_R	181_W	3.416	1.00
166_E	174_L	3.067	1.00
51_G	54_V	3.041	1.00
24_D	52_R	3.041	1.00
129_G	140_P	2.641	1.00
8_R	19_Y	2.635	1.00
154_R	162_R	2.552	1.00
24_D	179_R	2.393	1.00
119_E	124_R	2.325	1.00
20_R	57_T	2.304	1.00
122_G	152_R	2.213	1.00
164_D	179_R	2.169	1.00
174_L	177_R	2.115	1.00
169_H	172_F	2.082	1.00
69_G	90_T	2.010	1.00
164_D	177_R	1.986	1.00
57_T	77_T	1.871	1.00
4_A	7_R	1.860	1.00
26_E	177_R	1.856	1.00
4_A	156_D	1.831	1.00
34_R	38_R	1.726	1.00
150_T	166_E	1.714	1.00
134_W	146_A	1.672	1.00
168_R	174_L	1.656	1.00
65_D	69_G	1.646	1.00
3_P	7_R	1.640	1.00
75_T	88_R	1.626	1.00
124_R	150_T	1.621	1.00
3_P	6_R	1.618	1.00
77_T	86_R	1.607	1.00
27_R	37_A	1.602	1.00
38_R	41_R	1.573	1.00
24_D	53_D	1.550	1.00
18_V	57_T	1.521	1.00
112_A	128_G	1.518	1.00
49_E	81_R	1.512	1.00
166_E	177_R	1.497	1.00
33_A	37_A	1.490	1.00
152_R	164_D	1.409	1.00
133_R	138_G	1.402	1.00
112_A	132_L	1.386	1.00
110_A	133_R	1.384	1.00
92_R	100_V	1.344	1.00
114_V	126_R	1.340	1.00
124_R	152_R	1.299	1.00
27_R	174_L	1.277	1.00
113_L	125_F	1.268	1.00
155_A	159_G	1.253	1.00
73_T	90_T	1.243	1.00
75_T	86_R	1.228	1.00
62_T	75_T	1.218	1.00
93_F	96_G	1.213	1.00
122_G	154_R	1.211	1.00
18_V	60_T	1.209	1.00
23_A	163_F	1.207	1.00
73_T	88_R	1.182	1.00
148_R	168_R	1.175	1.00
54_V	78_F	1.166	1.00
100_V	110_A	1.156	1.00
162_R	181_W	1.139	1.00
32_L	172_F	1.129	1.00
110_A	135_G	1.115	1.00
92_R	108_G	1.102	1.00
100_V	108_G	1.095	1.00
28_G	33_A	1.093	1.00
148_R	153_E	1.092	1.00
30_G	33_A	1.085	1.00
109_L	113_L	1.063	1.00
22_R	55_P	1.063	1.00
110_A	129_G	1.058	1.00
125_F	161_F	1.052	1.00
8_R	17_V	1.048	1.00
87_F	91_M	1.039	1.00
79_G	84_P	1.038	1.00
157_E	162_R	1.034	1.00
148_R	154_R	1.018	1.00
62_T	65_D	1.015	1.00
24_D	51_G	1.014	1.00
169_H	175_L	1.007	1.00
47_F	85_R	1.005	1.00
111_L	125_F	0.994	1.00
99_L	125_F	0.994	1.00
143_R	146_A	0.987	1.00
92_R	102_R	0.979	1.00
58_V	61_V	0.974	1.00
66_A	90_T	0.965	1.00
115_V	120_D	0.963	1.00
172_F	175_L	0.962	1.00
108_G	135_G	0.960	1.00
148_R	170_P	0.955	1.00
91_M	125_F	0.952	1.00
149_A	167_V	0.931	1.00
114_V	130_Y	0.923	1.00
158_D	162_R	0.919	1.00
98_G	110_A	0.917	1.00
151_A	165_V	0.912	1.00
2_P	121_G	0.908	1.00
8_R	61_V	0.906	1.00
66_A	69_G	0.899	1.00
25_V	179_R	0.896	1.00
143_R	148_R	0.894	1.00
26_E	179_R	0.893	1.00
162_R	179_R	0.890	1.00
58_V	161_F	0.890	1.00
123_L	153_E	0.883	1.00
22_R	54_V	0.878	1.00
57_T	60_T	0.871	1.00
51_G	55_P	0.868	1.00
103_F	107_L	0.867	1.00
74_W	151_A	0.866	1.00
51_G	80_G	0.865	1.00
108_G	131_F	0.855	1.00
119_E	126_R	0.847	1.00
25_V	56_V	0.844	1.00
32_L	35_L	0.843	0.99
27_R	38_R	0.842	0.99
114_V	119_E	0.839	0.99
115_V	121_G	0.836	0.99
102_R	108_G	0.829	0.99
47_F	176_V	0.826	0.99
119_E	122_G	0.814	0.99
126_R	150_T	0.810	0.99
95_G	98_G	0.809	0.99
156_D	162_R	0.808	0.99
87_F	103_F	0.801	0.99
49_E	85_R	0.797	0.99
19_Y	61_V	0.791	0.99
134_W	141_L	0.786	0.99
6_R	10_G	0.778	0.99
35_L	38_R	0.776	0.99
40_L	107_L	0.773	0.99
156_D	181_W	0.772	0.99
115_V	119_E	0.770	0.99
62_T	66_A	0.769	0.99
5_V	123_L	0.762	0.99
57_T	78_F	0.757	0.99
153_E	161_F	0.748	0.99
8_R	161_F	0.746	0.99
27_R	50_A	0.745	0.99
89_S	101_E	0.745	0.99
25_V	28_G	0.744	0.99
101_E	107_L	0.738	0.99
11_V	15_G	0.735	0.99
1_L	5_V	0.728	0.99
31_L	35_L	0.727	0.99
131_F	149_A	0.716	0.98
23_A	26_E	0.716	0.98
103_F	161_F	0.715	0.98
16_A	62_T	0.712	0.98
60_T	77_T	0.707	0.98
41_R	46_P	0.706	0.98
11_V	18_V	0.706	0.98
97_R	112_A	0.704	0.98
35_L	39_L	0.702	0.98
22_R	181_W	0.700	0.98
69_G	73_T	0.695	0.98
26_E	174_L	0.695	0.98
94_G	100_V	0.693	0.98
90_T	102_R	0.691	0.98
85_R	89_S	0.689	0.98
155_A	158_D	0.689	0.98
65_D	70_E	0.685	0.98
91_M	111_L	0.679	0.98
151_A	155_A	0.676	0.98
97_R	100_V	0.671	0.97
40_L	151_A	0.670	0.97
149_A	153_E	0.667	0.97
99_L	115_V	0.665	0.97
11_V	61_V	0.664	0.97
5_V	125_F	0.660	0.97
11_V	16_A	0.659	0.97
51_G	79_G	0.654	0.97
40_L	167_V	0.652	0.97
66_A	73_T	0.651	0.97
65_D	68_G	0.650	0.97
55_P	58_V	0.650	0.97
89_S	161_F	0.648	0.97
5_V	8_R	0.647	0.97
148_R	151_A	0.642	0.97
74_W	147_P	0.640	0.97
113_L	123_L	0.637	0.97
125_F	146_A	0.637	0.97
61_V	125_F	0.634	0.96
23_A	87_F	0.634	0.96
67_G	70_E	0.631	0.96
104_G	167_V	0.631	0.96
93_F	100_V	0.630	0.96
137_L	140_P	0.625	0.96
154_R	157_E	0.620	0.96
69_G	92_R	0.619	0.96
28_G	176_V	0.612	0.96
40_L	87_F	0.608	0.96
32_L	39_L	0.607	0.96
157_E	160_R	0.605	0.95
25_V	50_A	0.602	0.95
23_A	54_V	0.596	0.95
27_R	30_G	0.595	0.95
123_L	161_F	0.595	0.95
10_G	17_V	0.594	0.95
14_G	18_V	0.593	0.95
149_A	168_R	0.590	0.95
19_Y	151_A	0.589	0.95
5_V	17_V	0.584	0.94
110_A	140_P	0.583	0.94
93_F	99_L	0.577	0.94
25_V	52_R	0.576	0.94
11_V	17_V	0.574	0.94
150_T	153_E	0.574	0.94
167_V	176_V	0.573	0.94
5_V	10_G	0.570	0.94
26_E	52_R	0.569	0.94
28_G	34_R	0.566	0.94
33_A	172_F	0.563	0.93
150_T	168_R	0.562	0.93
114_V	128_G	0.556	0.93
19_Y	23_A	0.555	0.93
4_A	161_F	0.554	0.93
89_S	163_F	0.552	0.93
23_A	103_F	0.551	0.93
30_G	34_R	0.549	0.92
121_G	156_D	0.549	0.92
11_V	14_G	0.546	0.92
79_G	83_F	0.543	0.92
153_E	178_Y	0.543	0.92
37_A	176_V	0.542	0.92
148_R	152_R	0.541	0.92
143_R	170_P	0.541	0.92
128_G	140_P	0.540	0.92
48_P	85_R	0.540	0.92
93_F	97_R	0.539	0.92
144_W	147_P	0.539	0.92
17_V	65_D	0.537	0.92
5_V	154_R	0.533	0.91
159_G	163_F	0.533	0.91
153_E	157_E	0.533	0.91
94_G	110_A	0.533	0.91
151_A	154_R	0.532	0.91
105_P	128_G	0.532	0.91
61_V	91_M	0.529	0.91
120_D	124_R	0.528	0.91
139_L	144_W	0.523	0.91
126_R	129_G	0.523	0.91
51_G	81_R	0.512	0.90
149_A	152_R	0.512	0.90
94_G	98_G	0.507	0.89
5_V	156_D	0.505	0.89
103_F	153_E	0.501	0.89
100_V	131_F	0.500	0.89

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
2l66A	2	0.1813	2.2	0.954	Contact Map
3or1C	1	0.2418	2.1	0.955	Contact Map
1ji8A	1	0.2418	2.1	0.955	Contact Map
1xcrA	1	0.5824	2	0.955	Contact Map
2mvhA	1	0.1429	2	0.955	Contact Map
1k77A	1	0.3516	1.9	0.956	Contact Map
1mvfD	1	0.1538	1.9	0.956	Contact Map
3ffvA	1	0.4835	1.8	0.956	Contact Map
1g92A	1	0.0714	1.8	0.957	Contact Map
3nqzA	1	0.4451	1.7	0.957	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 0.0069 seconds.