DUF3632 - PFAM28P - GREMLIN Contacts

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DUF3632 - Protein of unknown function (DUF3632)

PFAM:	PF12311	Sequences: WDLIIDAAKQIPYSQDRLVDLLLALREDPETGGALTVDGGRLWSDLPLFGADLREAWTDDSEADAESAARWLNLNAFLARLTAAGVCDDSLYALWALRDALEDEEDDEREESGEVLDALVPAAAQWILYAGERLYELSEEGEDDDPSDGDGRAGRGGPLWKGFSPERWEFWKERL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	175 (172)
Sequences:	580 (508)
Seq/√Len:	38.7
META:	0.181

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
71_W	75_N	4.138	1.00
102_E	167_R	4.087	1.00
101_L	174_R	3.823	1.00
127_I	131_G	3.187	1.00
93_A	134_L	3.160	1.00
15_Q	80_R	3.115	1.00
16_D	80_R	2.960	1.00
124_A	175_L	2.866	1.00
123_A	175_L	2.736	1.00
53_L	78_L	2.692	1.00
21_L	24_A	2.667	1.00
15_Q	73_N	2.648	1.00
127_I	175_L	2.644	1.00
49_F	81_L	2.567	1.00
48_L	51_A	2.441	1.00
168_W	171_W	2.253	1.00
9_K	42_L	2.186	0.99
12_P	15_Q	1.958	0.99
43_W	47_P	1.936	0.98
167_R	170_F	1.905	0.98
41_R	45_D	1.888	0.98
95_W	98_R	1.827	0.98
76_A	125_Q	1.753	0.97
92_Y	96_A	1.741	0.97
120_V	124_A	1.731	0.97
72_L	125_Q	1.695	0.96
102_E	170_F	1.671	0.96
162_G	167_R	1.655	0.96
116_L	121_P	1.631	0.95
170_F	174_R	1.607	0.95
94_L	163_F	1.564	0.94
72_L	121_P	1.550	0.94
167_R	171_W	1.524	0.93
98_R	102_E	1.484	0.93
123_A	126_W	1.453	0.92
156_G	159_L	1.421	0.91
92_Y	95_W	1.397	0.90
79_A	130_A	1.346	0.88
127_I	168_W	1.343	0.88
138_S	163_F	1.316	0.87
19_V	84_A	1.312	0.87
165_P	173_E	1.301	0.87
8_A	77_F	1.292	0.86
164_S	174_R	1.277	0.85
122_A	125_Q	1.272	0.85
75_N	92_Y	1.268	0.85
54_R	98_R	1.251	0.84
93_A	126_W	1.233	0.83
134_L	163_F	1.225	0.83
11_I	15_Q	1.207	0.82
19_V	53_L	1.195	0.81
8_A	73_N	1.192	0.81
125_Q	129_Y	1.187	0.81
54_R	92_Y	1.177	0.80
5_I	52_D	1.174	0.80
91_L	95_W	1.168	0.80
54_R	95_W	1.162	0.80
13_Y	129_Y	1.151	0.79
160_W	170_F	1.148	0.79
21_L	164_S	1.141	0.78
84_A	137_L	1.135	0.78
94_L	162_G	1.130	0.78
29_P	32_G	1.125	0.77
1_W	47_P	1.122	0.77
4_I	13_Y	1.119	0.77
80_R	83_A	1.115	0.77
2_D	6_D	1.112	0.76
169_E	173_E	1.106	0.76
39_G	97_L	1.105	0.76
94_L	154_G	1.104	0.76
45_D	55_E	1.098	0.76
10_Q	13_Y	1.097	0.75
15_Q	76_A	1.095	0.75
49_F	92_Y	1.093	0.75
167_R	174_R	1.081	0.74
45_D	70_R	1.077	0.74
6_D	9_K	1.077	0.74
139_E	173_E	1.076	0.74
24_A	75_N	1.074	0.74
116_L	170_F	1.068	0.73
73_N	77_F	1.067	0.73
171_W	175_L	1.067	0.73
75_N	78_L	1.066	0.73
33_G	36_T	1.060	0.73
116_L	120_V	1.035	0.71
20_D	84_A	1.029	0.71
159_L	170_F	1.022	0.70
22_L	46_L	1.013	0.69
8_A	18_L	1.010	0.69
118_A	129_Y	1.003	0.69
135_Y	138_S	0.994	0.68
47_P	125_Q	0.992	0.68
59_D	97_L	0.992	0.68
5_I	78_L	0.986	0.67
82_T	160_W	0.976	0.67
118_A	138_S	0.966	0.66
28_D	31_T	0.952	0.65
57_W	61_S	0.944	0.64
79_A	126_W	0.942	0.64
57_W	62_E	0.939	0.63
25_L	85_G	0.939	0.63
4_I	92_Y	0.936	0.63
95_W	110_E	0.910	0.61
8_A	175_L	0.901	0.60
113_G	158_P	0.900	0.60
74_L	78_L	0.895	0.60
1_W	46_L	0.894	0.60
121_P	125_Q	0.892	0.59
12_P	130_A	0.884	0.59
121_P	174_R	0.882	0.59
4_I	128_L	0.876	0.58
76_A	175_L	0.871	0.58
46_L	49_F	0.866	0.57
124_A	168_W	0.865	0.57
82_T	90_S	0.861	0.57
171_W	174_R	0.849	0.56
48_L	53_L	0.842	0.55
69_A	172_K	0.823	0.53
115_V	119_L	0.821	0.53
19_V	60_D	0.820	0.53
52_D	55_E	0.818	0.53
9_K	27_E	0.814	0.53
166_E	169_E	0.812	0.52
43_W	46_L	0.808	0.52
82_T	89_D	0.801	0.51
7_A	15_Q	0.796	0.51
22_L	171_W	0.794	0.51
43_W	82_T	0.788	0.50
96_A	122_A	0.780	0.49
2_D	21_L	0.774	0.49
5_I	9_K	0.773	0.49
93_A	102_E	0.766	0.48
121_P	126_W	0.766	0.48
13_Y	80_R	0.764	0.48
24_A	142_E	0.763	0.48
90_S	163_F	0.762	0.48
78_L	82_T	0.756	0.47
61_S	65_A	0.755	0.47
79_A	167_R	0.743	0.46
75_N	126_W	0.742	0.46
116_L	139_E	0.738	0.46
22_L	36_T	0.738	0.46
4_I	82_T	0.735	0.45
163_F	166_E	0.730	0.45
22_L	42_L	0.717	0.44
130_A	163_F	0.715	0.44
24_A	119_L	0.713	0.43
46_L	55_E	0.713	0.43
50_G	166_E	0.702	0.42
20_D	23_L	0.702	0.42
116_L	129_Y	0.697	0.42
13_Y	125_Q	0.693	0.42
100_A	167_R	0.691	0.42
14_S	21_L	0.690	0.41
62_E	115_V	0.689	0.41
141_G	157_G	0.684	0.41
23_L	85_G	0.679	0.40
74_L	116_L	0.673	0.40
26_R	126_W	0.673	0.40
1_W	164_S	0.672	0.40
69_A	72_L	0.671	0.40
9_K	125_Q	0.670	0.40
101_L	161_K	0.669	0.40
1_W	172_K	0.666	0.39
90_S	97_L	0.665	0.39
3_L	135_Y	0.664	0.39
55_E	92_Y	0.652	0.38
154_G	157_G	0.646	0.38
41_R	159_L	0.643	0.37
93_A	167_R	0.642	0.37
46_L	101_L	0.641	0.37
79_A	171_W	0.637	0.37
41_R	135_Y	0.635	0.37
51_A	55_E	0.635	0.37
55_E	88_D	0.635	0.37
22_L	125_Q	0.635	0.37
21_L	25_L	0.633	0.37
117_D	120_V	0.627	0.36
151_G	154_G	0.622	0.36
108_E	111_E	0.621	0.36
110_E	113_G	0.621	0.36
50_G	54_R	0.621	0.36
95_W	102_E	0.620	0.35
53_L	79_A	0.620	0.35
66_E	82_T	0.619	0.35
17_R	165_P	0.619	0.35
68_A	114_E	0.618	0.35
16_D	87_C	0.617	0.35
46_L	120_V	0.613	0.35
152_R	156_G	0.613	0.35
2_D	93_A	0.612	0.35
17_R	44_S	0.611	0.35
56_A	69_A	0.607	0.34
21_L	121_P	0.605	0.34
82_T	126_W	0.601	0.34
41_R	100_A	0.600	0.34
93_A	125_Q	0.600	0.34
42_L	134_L	0.599	0.34
146_P	149_G	0.598	0.34
61_S	75_N	0.597	0.34
55_E	67_S	0.596	0.33
24_A	27_E	0.595	0.33
5_I	77_F	0.595	0.33
114_E	175_L	0.590	0.33
21_L	87_C	0.590	0.33
161_K	164_S	0.590	0.33
140_E	143_D	0.589	0.33
127_I	134_L	0.588	0.33
131_G	135_Y	0.588	0.33
73_N	152_R	0.587	0.33
25_L	38_D	0.586	0.33
71_W	122_A	0.583	0.32
118_A	128_L	0.582	0.32
36_T	48_L	0.577	0.32
91_L	154_G	0.576	0.32
99_D	130_A	0.576	0.32
1_W	167_R	0.574	0.32
56_A	173_E	0.571	0.32
72_L	168_W	0.561	0.31
63_A	67_S	0.561	0.31
160_W	164_S	0.553	0.30
81_L	91_L	0.552	0.30
23_L	27_E	0.551	0.30
6_D	70_R	0.550	0.30
30_E	35_L	0.550	0.30
24_A	52_D	0.548	0.30
14_S	17_R	0.547	0.30
81_L	163_F	0.547	0.30
14_S	129_Y	0.546	0.30
136_E	165_P	0.546	0.30
26_R	80_R	0.546	0.30
49_F	165_P	0.544	0.29
124_A	128_L	0.543	0.29
22_L	27_E	0.542	0.29
71_W	93_A	0.538	0.29
106_D	166_E	0.536	0.29
39_G	47_P	0.532	0.29
113_G	151_G	0.531	0.28
134_L	155_R	0.530	0.28
20_D	129_Y	0.529	0.28
76_A	129_Y	0.529	0.28
83_A	94_L	0.528	0.28
73_N	138_S	0.526	0.28
97_L	101_L	0.525	0.28
26_R	46_L	0.524	0.28
134_L	156_G	0.523	0.28
83_A	163_F	0.521	0.28
72_L	172_K	0.521	0.28
83_A	91_L	0.518	0.28
85_G	92_Y	0.513	0.27
5_I	71_W	0.512	0.27
129_Y	136_E	0.506	0.27
51_A	166_E	0.503	0.26
68_A	122_A	0.503	0.26
74_L	139_E	0.503	0.26
38_D	49_F	0.501	0.26
23_L	33_G	0.501	0.26
97_L	127_I	0.500	0.26

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
4c9bB	1	0.8	5	0.939	Contact Map
1h2vC	1	0.8629	4.3	0.941	Contact Map
1s4kA	2	0.4229	4.1	0.942	Contact Map
4chkA	2	0.2114	3.1	0.945	Contact Map
1y9bA	4	0.1314	2.9	0.946	Contact Map
4a4aA	1	0.76	2.2	0.949	Contact Map
1hlbA	1	0.4457	2	0.951	Contact Map
4a14A	1	0.3371	1.9	0.951	Contact Map
4cekA	1	0.8686	1.8	0.951	Contact Map
2nszA	1	0.48	1.8	0.951	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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