DUF1523 - PFAM28P - GREMLIN Contacts

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DUF1523 - Protein of unknown function (DUF1523)

PFAM:	PF07509	Sequences: MRYVKWTFRLLLWLLVAAFLHYTLPQHDIVRITGTEVKRVDFGGNSIFWAQPDTGSGTATGPTRDVRFINTVRPNGKVMVYRNEDTGWGWPPYFKFDSSNLQAEAQDLASTKAAPQWVAVTHYGWRIEFLSIFPNAVSIKPVDGPDVRLIPWFNIVFLTLLAALLLAIWRRWRRFR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	176 (173)
Sequences:	908 (660)
Seq/√Len:	50.2
META:	0.749

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
153_F	157_F	5.770	1.00
27_H	149_L	4.592	1.00
100_N	128_E	3.758	1.00
150_I	155_I	3.033	1.00
142_V	147_V	2.949	1.00
169_W	173_R	2.942	1.00
166_L	170_R	2.710	1.00
26_Q	122_H	2.450	1.00
158_L	162_A	2.424	1.00
108_L	118_V	2.389	1.00
119_A	142_V	2.358	1.00
116_Q	141_P	2.357	1.00
171_R	174_R	2.327	1.00
119_A	140_K	2.273	1.00
167_A	171_R	2.221	1.00
34_G	106_Q	2.125	1.00
70_N	106_Q	2.098	1.00
71_T	79_M	1.945	0.99
28_D	122_H	1.933	0.99
10_L	14_L	1.922	0.99
166_L	171_R	1.913	0.99
3_Y	6_W	1.815	0.99
143_D	147_V	1.775	0.99
101_L	136_A	1.747	0.99
119_A	149_L	1.739	0.99
13_W	17_A	1.655	0.98
19_F	23_T	1.642	0.98
73_R	79_M	1.633	0.98
163_A	170_R	1.626	0.98
113_A	116_Q	1.608	0.98
167_A	170_R	1.585	0.98
170_R	173_R	1.585	0.98
169_W	172_W	1.565	0.97
28_D	81_Y	1.552	0.97
27_H	119_A	1.545	0.97
41_D	63_T	1.525	0.97
72_V	78_V	1.523	0.97
72_V	107_D	1.516	0.97
33_T	103_A	1.513	0.97
111_T	115_P	1.488	0.96
110_S	115_P	1.452	0.96
121_T	137_V	1.451	0.96
49_W	66_V	1.440	0.96
30_V	120_V	1.435	0.96
67_R	98_S	1.432	0.96
67_R	70_N	1.427	0.95
121_T	140_K	1.424	0.95
163_A	167_A	1.410	0.95
70_N	103_A	1.355	0.94
9_R	13_W	1.348	0.94
163_A	166_L	1.346	0.94
38_K	67_R	1.327	0.93
21_H	26_Q	1.300	0.93
119_A	147_V	1.285	0.92
38_K	68_F	1.281	0.92
80_V	100_N	1.270	0.92
172_W	175_F	1.255	0.91
151_P	154_N	1.254	0.91
37_V	70_N	1.248	0.91
38_K	70_N	1.235	0.91
33_T	78_V	1.223	0.90
167_A	174_R	1.219	0.90
49_W	68_F	1.215	0.90
170_R	174_R	1.209	0.90
3_Y	7_T	1.201	0.89
34_G	70_N	1.183	0.89
31_R	110_S	1.179	0.88
34_G	109_A	1.177	0.88
36_E	70_N	1.169	0.88
172_W	176_R	1.168	0.88
42_F	46_S	1.142	0.87
112_K	116_Q	1.133	0.86
160_L	164_L	1.127	0.86
80_V	103_A	1.125	0.86
118_V	139_I	1.111	0.85
26_Q	79_M	1.104	0.85
23_T	90_W	1.087	0.84
39_R	63_T	1.083	0.84
20_L	161_L	1.070	0.83
119_A	144_G	1.060	0.82
40_V	131_S	1.049	0.82
154_N	157_F	1.044	0.81
38_K	66_V	1.036	0.81
168_I	172_W	1.031	0.81
167_A	173_R	1.018	0.80
46_S	49_W	1.003	0.79
86_T	91_P	0.999	0.78
120_V	139_I	0.997	0.78
33_T	133_F	0.996	0.78
67_R	99_S	0.995	0.78
165_L	169_W	0.986	0.77
89_G	96_F	0.985	0.77
127_I	130_L	0.982	0.77
37_V	67_R	0.977	0.77
29_I	119_A	0.950	0.75
38_K	49_W	0.937	0.74
163_A	171_R	0.926	0.73
121_T	153_F	0.920	0.72
40_V	66_V	0.919	0.72
42_F	47_I	0.919	0.72
34_G	37_V	0.895	0.70
6_W	10_L	0.882	0.69
72_V	76_G	0.867	0.68
121_T	138_S	0.861	0.67
156_V	159_T	0.857	0.67
127_I	132_I	0.852	0.66
67_R	133_F	0.852	0.66
40_V	67_R	0.842	0.66
36_E	98_S	0.838	0.65
44_G	49_W	0.833	0.65
21_H	122_H	0.828	0.64
73_R	81_Y	0.826	0.64
36_E	109_A	0.823	0.64
12_L	81_Y	0.817	0.63
108_L	116_Q	0.812	0.63
146_D	149_L	0.811	0.63
106_Q	109_A	0.809	0.62
45_N	50_A	0.807	0.62
57_G	60_T	0.805	0.62
32_I	71_T	0.804	0.62
40_V	68_F	0.794	0.61
34_G	38_K	0.794	0.61
47_I	51_Q	0.786	0.60
66_V	133_F	0.786	0.60
7_T	11_L	0.780	0.60
2_R	176_R	0.779	0.60
31_R	107_D	0.778	0.59
40_V	63_T	0.771	0.59
19_F	92_P	0.770	0.59
69_I	136_A	0.770	0.59
45_N	67_R	0.763	0.58
23_T	92_P	0.760	0.58
46_S	50_A	0.753	0.57
147_V	151_P	0.752	0.57
9_R	169_W	0.745	0.56
43_G	46_S	0.745	0.56
157_F	160_L	0.739	0.55
27_H	121_T	0.735	0.55
70_N	98_S	0.732	0.55
57_G	63_T	0.728	0.54
37_V	96_F	0.725	0.54
99_S	131_S	0.714	0.53
17_A	20_L	0.711	0.53
165_L	170_R	0.709	0.52
27_H	154_N	0.709	0.52
42_F	67_R	0.706	0.52
159_T	166_L	0.702	0.52
64_R	84_E	0.701	0.52
43_G	66_V	0.701	0.52
109_A	112_K	0.700	0.52
166_L	169_W	0.695	0.51
107_D	112_K	0.690	0.50
78_V	104_E	0.687	0.50
111_T	114_A	0.684	0.50
7_T	10_L	0.681	0.50
37_V	68_F	0.678	0.49
99_S	115_P	0.675	0.49
119_A	143_D	0.673	0.49
98_S	107_D	0.672	0.49
78_V	100_N	0.670	0.48
39_R	89_G	0.667	0.48
81_Y	122_H	0.666	0.48
30_V	81_Y	0.660	0.47
9_R	12_L	0.659	0.47
24_L	30_V	0.655	0.47
8_F	14_L	0.655	0.47
37_V	41_D	0.655	0.47
159_T	176_R	0.652	0.47
97_D	100_N	0.649	0.46
40_V	44_G	0.648	0.46
102_Q	106_Q	0.642	0.46
4_V	7_T	0.638	0.45
167_A	172_W	0.638	0.45
38_K	133_F	0.637	0.45
29_I	149_L	0.635	0.45
20_L	158_L	0.635	0.45
33_T	38_K	0.627	0.44
42_F	45_N	0.626	0.44
162_A	170_R	0.625	0.44
161_L	164_L	0.621	0.43
169_W	176_R	0.616	0.43
16_V	120_V	0.615	0.43
45_N	49_W	0.615	0.43
35_T	39_R	0.613	0.43
29_I	147_V	0.609	0.42
100_N	103_A	0.609	0.42
137_V	154_N	0.608	0.42
8_F	81_Y	0.606	0.42
40_V	58_T	0.605	0.42
2_R	5_K	0.604	0.42
51_Q	59_A	0.603	0.42
28_D	136_A	0.602	0.42
162_A	165_L	0.601	0.41
149_L	152_W	0.601	0.41
169_W	174_R	0.600	0.41
76_G	118_V	0.600	0.41
166_L	174_R	0.599	0.41
20_L	24_L	0.599	0.41
49_W	89_G	0.594	0.41
166_L	173_R	0.590	0.40
111_T	116_Q	0.588	0.40
48_F	152_W	0.587	0.40
149_L	155_I	0.585	0.40
164_L	168_I	0.583	0.40
33_T	72_V	0.577	0.39
11_L	77_K	0.575	0.39
67_R	102_Q	0.575	0.39
78_V	137_V	0.574	0.39
38_K	57_G	0.574	0.39
52_P	60_T	0.573	0.39
143_D	148_R	0.573	0.39
104_E	133_F	0.568	0.38
43_G	68_F	0.567	0.38
142_V	146_D	0.564	0.38
20_L	168_I	0.562	0.38
147_V	150_I	0.560	0.37
105_A	139_I	0.557	0.37
93_Y	137_V	0.555	0.37
45_N	51_Q	0.554	0.37
63_T	100_N	0.552	0.37
24_L	90_W	0.551	0.37
21_H	125_W	0.549	0.36
47_I	77_K	0.546	0.36
154_N	159_T	0.546	0.36
46_S	60_T	0.546	0.36
8_F	16_V	0.545	0.36
40_V	49_W	0.544	0.36
70_N	102_Q	0.544	0.36
162_A	169_W	0.542	0.36
68_F	133_F	0.541	0.36
51_Q	57_G	0.539	0.35
30_V	118_V	0.536	0.35
40_V	43_G	0.536	0.35
91_P	96_F	0.535	0.35
37_V	43_G	0.534	0.35
51_Q	60_T	0.531	0.35
29_I	98_S	0.530	0.35
43_G	67_R	0.527	0.34
66_V	103_A	0.525	0.34
140_K	147_V	0.524	0.34
156_V	160_L	0.524	0.34
49_W	133_F	0.522	0.34
24_L	27_H	0.521	0.34
36_E	67_R	0.520	0.34
109_A	115_P	0.517	0.33
150_I	163_A	0.513	0.33
28_D	64_R	0.512	0.33
15_L	139_I	0.512	0.33
96_F	100_N	0.511	0.33
37_V	40_V	0.511	0.33
38_K	99_S	0.511	0.33
50_A	100_N	0.510	0.33
37_V	98_S	0.509	0.33
20_L	148_R	0.508	0.33
44_G	66_V	0.508	0.33
53_D	63_T	0.507	0.32
100_N	104_E	0.506	0.32
38_K	43_G	0.503	0.32
4_V	11_L	0.500	0.32
38_K	46_S	0.500	0.32

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
2kncB	1	0.2216	6.8	0.968	Contact Map
1pfiA	7	0.1591	6.5	0.968	Contact Map
1m56D	1	0.1307	4	0.971	Contact Map
4m64A	1	0.2159	3.2	0.972	Contact Map
1t0fC	1	0.2727	3.2	0.972	Contact Map
4ymkA	1	0.4489	3.2	0.973	Contact Map
4tphA	2	0.1705	3.1	0.973	Contact Map
1qleD	1	0.1307	2.9	0.973	Contact Map
2ww9C	1	0.1136	2.7	0.973	Contact Map
2kncA	1	0.2045	2.4	0.974	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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