DUF4846 - PFAM28P - GREMLIN Contacts

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DUF4846 - Domain of unknown function (4846)

PFAM:	PF16138	Sequences: IETRFPPPEGYERVPVAEGSFAEYLRNLPLKPDGSPVLLYDGREKSNQDVHAAVLDIDVGKRDLQQCADAVMRLRAEYLYSQKRYDKIHFNFTSGFRADYSKWAKGYRPKVKGNKVSWVKTAKPDNSYESFRKYLDLVFTYAGTLSLSKELKPVDIKDIQIGDVFIQGGSPGHAVIVVDVAENKKGEKIFLLAQSYMPAQEIHILKNPNDPDLSPWYSLDEIGGELVTPEWTFEKGDLKR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	240 (239)
Sequences:	1708 (1424)
Seq/√Len:	92.1
META:	0.872

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
84_R	87_K	4.939	1.00
145_L	170_S	4.448	1.00
167_Q	237_D	3.095	1.00
102_K	107_Y	3.079	1.00
181_A	189_I	2.971	1.00
58_D	132_R	2.921	1.00
98_A	138_V	2.654	1.00
93_T	143_G	2.548	1.00
159_I	180_V	2.514	1.00
89_H	97_R	2.512	1.00
178_V	193_A	2.467	1.00
28_L	55_L	2.439	1.00
132_R	136_D	2.366	1.00
77_E	131_F	2.362	1.00
62_R	136_D	2.343	1.00
161_I	180_V	2.318	1.00
154_V	240_R	2.299	1.00
70_A	195_S	2.282	1.00
187_E	218_S	2.277	1.00
91_N	97_R	2.251	1.00
183_N	187_E	2.244	1.00
165_F	226_L	2.228	1.00
175_V	205_L	2.190	1.00
47_N	50_V	2.186	1.00
148_S	239_K	2.154	1.00
72_M	135_L	2.140	1.00
16_V	22_A	2.046	1.00
107_Y	120_K	2.013	1.00
104_A	126_N	1.961	1.00
16_V	26_R	1.958	1.00
31_K	201_E	1.899	1.00
100_Y	104_A	1.886	1.00
92_F	98_A	1.876	1.00
182_E	188_K	1.821	1.00
21_F	176_I	1.821	1.00
13_R	179_D	1.812	1.00
99_D	102_K	1.803	1.00
92_F	137_L	1.797	1.00
75_R	79_L	1.790	1.00
159_I	177_V	1.784	1.00
5_F	52_A	1.695	1.00
94_S	116_V	1.682	1.00
151_L	164_V	1.670	1.00
48_Q	51_H	1.667	1.00
187_E	220_D	1.657	1.00
7_P	189_I	1.646	1.00
102_K	105_K	1.628	1.00
38_L	44_E	1.592	1.00
128_Y	132_R	1.585	1.00
65_Q	73_R	1.572	1.00
76_A	135_L	1.570	1.00
75_R	90_F	1.554	1.00
62_R	140_T	1.553	1.00
98_A	109_P	1.549	1.00
71_V	176_I	1.539	1.00
79_L	84_R	1.525	1.00
190_F	226_L	1.494	1.00
176_I	193_A	1.473	1.00
109_P	137_L	1.473	1.00
193_A	202_I	1.454	1.00
31_K	56_D	1.453	1.00
145_L	168_G	1.450	1.00
12_E	184_K	1.443	0.99
125_D	130_S	1.407	0.99
128_Y	131_F	1.383	0.99
39_L	48_Q	1.368	0.99
111_V	116_V	1.365	0.99
221_E	226_L	1.358	0.99
65_Q	132_R	1.357	0.99
51_H	203_H	1.345	0.99
73_R	77_E	1.342	0.99
80_Y	85_Y	1.311	0.99
180_V	188_K	1.291	0.99
23_E	27_N	1.288	0.99
102_K	118_W	1.283	0.99
165_F	190_F	1.269	0.99
96_F	109_P	1.256	0.99
210_D	214_S	1.250	0.99
153_P	239_K	1.247	0.98
44_E	48_Q	1.242	0.98
65_Q	77_E	1.239	0.98
22_A	161_I	1.234	0.98
234_E	237_D	1.232	0.98
159_I	219_L	1.218	0.98
71_V	164_V	1.214	0.98
148_S	168_G	1.214	0.98
159_I	190_F	1.213	0.98
189_I	213_L	1.205	0.98
110_K	119_V	1.200	0.98
88_I	134_Y	1.195	0.98
28_L	178_V	1.194	0.98
11_Y	189_I	1.184	0.98
38_L	201_E	1.165	0.98
80_Y	128_Y	1.160	0.98
161_I	178_V	1.160	0.98
2_E	27_N	1.156	0.98
2_E	26_R	1.143	0.97
189_I	218_S	1.141	0.97
45_K	230_E	1.141	0.97
89_H	150_E	1.137	0.97
221_E	235_K	1.132	0.97
26_R	179_D	1.129	0.97
19_G	23_E	1.102	0.97
190_F	219_L	1.094	0.97
47_N	230_E	1.091	0.96
36_P	44_E	1.090	0.96
137_L	140_T	1.078	0.96
59_V	65_Q	1.074	0.96
155_D	158_D	1.058	0.96
70_A	202_I	1.051	0.96
103_W	137_L	1.037	0.95
109_P	116_V	1.031	0.95
33_D	53_A	1.011	0.95
86_D	101_S	1.006	0.94
16_V	161_I	1.001	0.94
67_C	144_T	0.987	0.94
39_L	51_H	0.985	0.94
80_Y	100_Y	0.981	0.94
225_E	234_E	0.974	0.93
92_F	116_V	0.973	0.93
77_E	128_Y	0.963	0.93
91_N	150_E	0.961	0.93
39_L	45_K	0.946	0.92
223_G	226_L	0.944	0.92
142_A	146_S	0.940	0.92
154_V	160_Q	0.939	0.92
1_I	178_V	0.934	0.92
108_R	124_P	0.926	0.92
59_V	201_E	0.925	0.92
57_I	132_R	0.921	0.91
7_P	181_A	0.921	0.91
98_A	116_V	0.920	0.91
122_A	125_D	0.920	0.91
85_Y	100_Y	0.916	0.91
20_S	23_E	0.914	0.91
108_R	122_A	0.913	0.91
58_D	128_Y	0.905	0.91
85_Y	104_A	0.897	0.90
98_A	137_L	0.895	0.90
89_H	99_D	0.890	0.90
35_S	201_E	0.884	0.90
147_L	166_I	0.883	0.90
101_S	105_K	0.880	0.89
65_Q	201_E	0.879	0.89
94_S	118_W	0.877	0.89
57_I	202_I	0.865	0.89
224_G	236_G	0.864	0.89
5_F	191_L	0.857	0.88
50_V	230_E	0.851	0.88
79_L	87_K	0.847	0.88
52_A	206_K	0.846	0.87
60_G	63_D	0.846	0.87
57_I	65_Q	0.846	0.87
210_D	218_S	0.843	0.87
11_Y	187_E	0.843	0.87
125_D	128_Y	0.839	0.87
13_R	26_R	0.839	0.87
104_A	125_D	0.836	0.87
69_D	144_T	0.832	0.87
93_T	146_S	0.830	0.86
24_Y	33_D	0.827	0.86
39_L	44_E	0.826	0.86
96_F	111_V	0.825	0.86
55_L	202_I	0.822	0.86
92_F	109_P	0.822	0.86
72_M	93_T	0.817	0.86
4_R	53_A	0.813	0.85
210_D	213_L	0.812	0.85
17_A	23_E	0.811	0.85
60_G	136_D	0.808	0.85
227_V	232_T	0.807	0.85
35_S	38_L	0.803	0.85
218_S	221_E	0.802	0.85
16_V	20_S	0.800	0.84
167_Q	231_W	0.800	0.84
143_G	168_G	0.796	0.84
1_I	204_I	0.792	0.84
105_K	120_K	0.790	0.84
37_V	54_V	0.785	0.83
149_K	166_I	0.779	0.83
66_Q	69_D	0.778	0.83
192_L	228_T	0.777	0.83
110_K	117_S	0.776	0.83
127_S	130_S	0.776	0.83
18_E	23_E	0.774	0.82
150_E	166_I	0.772	0.82
209_N	213_L	0.771	0.82
124_P	130_S	0.769	0.82
96_F	116_V	0.766	0.82
224_G	235_K	0.765	0.82
74_L	176_I	0.765	0.82
205_L	229_P	0.761	0.81
67_C	197_M	0.756	0.81
57_I	201_E	0.755	0.81
178_V	204_I	0.751	0.80
82_Q	87_K	0.750	0.80
151_L	166_I	0.750	0.80
143_G	170_S	0.747	0.80
110_K	121_T	0.747	0.80
156_I	165_F	0.743	0.80
109_P	118_W	0.740	0.79
48_Q	203_H	0.740	0.79
55_L	178_V	0.733	0.79
65_Q	136_D	0.728	0.78
130_S	133_K	0.727	0.78
30_L	34_G	0.724	0.78
96_F	138_V	0.722	0.78
5_F	53_A	0.722	0.78
39_L	50_V	0.720	0.78
67_C	173_H	0.719	0.78
101_S	104_A	0.714	0.77
176_I	202_I	0.709	0.77
96_F	99_D	0.707	0.76
19_G	82_Q	0.698	0.75
108_R	125_D	0.696	0.75
71_V	166_I	0.695	0.75
111_V	114_N	0.695	0.75
71_V	174_A	0.694	0.75
58_D	136_D	0.693	0.75
31_K	35_S	0.691	0.75
57_I	139_F	0.684	0.74
96_F	118_W	0.679	0.73
182_E	186_G	0.677	0.73
11_Y	183_N	0.675	0.73
165_F	238_L	0.674	0.73
29_P	55_L	0.673	0.73
104_A	127_S	0.670	0.72
1_I	5_F	0.668	0.72
45_K	196_Y	0.668	0.72
32_P	35_S	0.667	0.72
135_L	202_I	0.666	0.72
50_V	208_P	0.662	0.72
208_P	217_Y	0.654	0.71
80_Y	104_A	0.651	0.70
131_F	135_L	0.647	0.70
174_A	231_W	0.643	0.69
166_I	239_K	0.643	0.69
194_Q	197_M	0.642	0.69
55_L	193_A	0.642	0.69
105_K	124_P	0.641	0.69
220_D	235_K	0.640	0.69
163_D	240_R	0.640	0.69
126_N	130_S	0.639	0.69
36_P	51_H	0.639	0.69
93_T	168_G	0.637	0.69
103_W	109_P	0.634	0.68
37_V	45_K	0.628	0.68
28_L	57_I	0.628	0.68
177_V	180_V	0.626	0.67
14_V	26_R	0.626	0.67
24_Y	81_S	0.626	0.67
45_K	50_V	0.623	0.67
67_C	172_G	0.616	0.66
25_L	178_V	0.616	0.66
145_L	148_S	0.610	0.65
70_A	75_R	0.609	0.65
94_S	114_N	0.607	0.65
196_Y	230_E	0.606	0.65
93_T	148_S	0.606	0.65
24_Y	100_Y	0.605	0.65
147_L	151_L	0.602	0.64
68_A	171_P	0.601	0.64
207_N	213_L	0.601	0.64
100_Y	124_P	0.599	0.64
134_Y	150_E	0.598	0.64
190_F	218_S	0.596	0.63
68_A	146_S	0.595	0.63
68_A	147_L	0.595	0.63
50_V	201_E	0.593	0.63
168_G	171_P	0.590	0.63
58_D	65_Q	0.589	0.63
92_F	141_Y	0.589	0.63
12_E	182_E	0.587	0.62
192_L	205_L	0.586	0.62
165_F	177_V	0.586	0.62
85_Y	126_N	0.586	0.62
33_D	52_A	0.585	0.62
93_T	140_T	0.585	0.62
5_F	8_P	0.581	0.62
24_Y	109_P	0.581	0.62
197_M	200_Q	0.579	0.61
55_L	203_H	0.578	0.61
30_L	53_A	0.578	0.61
92_F	96_F	0.576	0.61
225_E	232_T	0.576	0.61
25_L	74_L	0.574	0.61
16_V	23_E	0.574	0.61
63_D	72_M	0.572	0.60
44_E	51_H	0.571	0.60
99_D	118_W	0.569	0.60
181_A	213_L	0.568	0.60
103_W	130_S	0.567	0.60
104_A	130_S	0.566	0.60
100_Y	131_F	0.566	0.60
190_F	217_Y	0.564	0.59
194_Q	203_H	0.564	0.59
159_I	191_L	0.564	0.59
112_K	117_S	0.563	0.59
5_F	215_P	0.562	0.59
35_S	52_A	0.560	0.59
195_S	230_E	0.560	0.59
219_L	226_L	0.560	0.59
24_Y	27_N	0.559	0.59
94_S	111_V	0.558	0.58
225_E	236_G	0.557	0.58
25_L	176_I	0.556	0.58
125_D	133_K	0.554	0.58
65_Q	76_A	0.552	0.58
220_D	223_G	0.551	0.58
9_E	14_V	0.550	0.57
99_D	109_P	0.548	0.57
160_Q	180_V	0.547	0.57
113_G	116_V	0.546	0.57
100_Y	109_P	0.544	0.57
104_A	124_P	0.541	0.56
23_E	26_R	0.540	0.56
69_D	173_H	0.538	0.56
66_Q	144_T	0.538	0.56
39_L	230_E	0.537	0.56
144_T	173_H	0.536	0.55
228_T	233_F	0.535	0.55
15_P	185_K	0.532	0.55
73_R	139_F	0.529	0.54
22_A	160_Q	0.528	0.54
94_S	143_G	0.526	0.54
148_S	237_D	0.526	0.54
107_Y	118_W	0.526	0.54
196_Y	200_Q	0.525	0.54
70_A	151_L	0.525	0.54
59_V	202_I	0.524	0.54
65_Q	195_S	0.523	0.54
68_A	169_G	0.523	0.54
24_Y	57_I	0.520	0.53
224_G	227_V	0.519	0.53
10_G	183_N	0.516	0.53
91_N	166_I	0.514	0.52
173_H	194_Q	0.513	0.52
68_A	142_A	0.512	0.52
36_P	40_Y	0.511	0.52
104_A	131_F	0.508	0.52
37_V	50_V	0.508	0.52
121_T	124_P	0.506	0.51
18_E	27_N	0.506	0.51
33_D	36_P	0.505	0.51
45_K	194_Q	0.504	0.51
154_V	158_D	0.504	0.51
45_K	51_H	0.504	0.51
80_Y	131_F	0.504	0.51
100_Y	130_S	0.503	0.51
14_V	182_E	0.502	0.51
98_A	118_W	0.502	0.51
145_L	192_L	0.502	0.51
59_V	132_R	0.501	0.51
9_E	15_P	0.501	0.51
82_Q	85_Y	0.501	0.51
67_C	196_Y	0.501	0.51
9_E	18_E	0.500	0.50
165_F	237_D	0.500	0.50

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
2if6A	1	0.2875	43.1	0.959	Contact Map
2vobA	1	0.7458	35.5	0.961	Contact Map
2lktA	1	0.3083	27.7	0.963	Contact Map
4hz9A	1	0.4542	26.5	0.964	Contact Map
3vpiA	1	0.5042	21.3	0.965	Contact Map
4dpzX	1	0.25	17.8	0.966	Contact Map
2io8A	2	0.6542	17.5	0.967	Contact Map
4dotA	1	0.2125	17.4	0.967	Contact Map
1vr0A	2	0.3667	16	0.967	Contact Map
3h20A	2	0.4417	15.6	0.967	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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