DUF1453 - PFAM28P - GREMLIN Contacts

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DUF1453 - Protein of unknown function (DUF1453)

PFAM:	PF07301	Sequences: IISTLIAIVIAALVLALRMRRMRRPVPLKLWILPPLFMATGALMFLVPPFRVPWLWALAALLVGAALGWPLGRTSRIEVDDGHIYLKRSKAFLLILLGLLAVRLGLRGYLGQSLSVGQLTDLFFLLAFGMIVPWRLEMYLRYRRL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	145 (142)
Sequences:	1880 (1393)
Seq/√Len:	116.9
META:	0.716

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
61_L	129_G	4.144	1.00
94_L	98_G	3.641	1.00
53_P	56_W	2.633	1.00
33_L	37_F	2.537	1.00
82_G	85_Y	2.472	1.00
119_L	122_L	2.280	1.00
13_L	17_L	2.270	1.00
110_L	113_S	2.242	1.00
70_P	73_R	2.188	1.00
26_V	29_K	2.131	1.00
100_L	104_L	2.111	1.00
54_W	57_A	1.971	1.00
93_L	97_L	1.948	1.00
65_A	133_P	1.911	1.00
8_I	12_A	1.890	1.00
137_E	141_R	1.858	1.00
140_L	143_R	1.796	1.00
88_R	92_F	1.756	1.00
81_D	85_Y	1.749	1.00
33_L	36_L	1.737	1.00
30_L	34_P	1.722	1.00
32_I	139_Y	1.716	1.00
33_L	135_R	1.668	1.00
105_G	108_G	1.599	1.00
41_G	45_F	1.586	1.00
136_L	140_L	1.545	1.00
10_I	14_V	1.479	1.00
25_P	28_L	1.477	1.00
25_P	29_K	1.455	1.00
103_R	107_R	1.443	1.00
68_G	72_G	1.438	1.00
5_L	15_L	1.401	1.00
24_R	30_L	1.394	1.00
140_L	144_R	1.393	1.00
139_Y	143_R	1.391	1.00
106_L	110_L	1.388	1.00
104_L	107_R	1.382	1.00
31_W	138_M	1.376	1.00
11_A	15_L	1.366	1.00
76_R	141_R	1.363	1.00
54_W	58_L	1.355	1.00
20_R	23_R	1.352	1.00
43_L	47_V	1.346	1.00
12_A	16_A	1.343	1.00
30_L	35_P	1.313	1.00
9_V	13_L	1.309	1.00
22_M	27_P	1.308	1.00
101_A	104_L	1.295	1.00
37_F	40_T	1.268	0.99
98_G	105_G	1.208	0.99
17_L	21_R	1.198	0.99
122_L	125_L	1.182	0.99
89_S	92_F	1.169	0.99
52_V	125_L	1.150	0.99
7_A	10_I	1.132	0.99
136_L	141_R	1.129	0.99
56_W	60_A	1.122	0.99
79_V	82_G	1.116	0.99
74_T	95_I	1.112	0.99
7_A	11_A	1.111	0.99
66_A	70_P	1.105	0.98
61_L	125_L	1.094	0.98
80_D	85_Y	1.080	0.98
115_S	118_Q	1.069	0.98
19_M	22_M	1.067	0.98
31_W	34_P	1.058	0.98
13_L	16_A	1.058	0.98
4_T	7_A	1.058	0.98
12_A	32_I	1.058	0.98
47_V	50_F	1.056	0.98
39_A	42_A	1.054	0.98
78_E	87_K	1.036	0.98
18_R	21_R	1.030	0.98
123_F	127_A	1.017	0.97
6_I	13_L	1.016	0.97
77_I	138_M	1.011	0.97
22_M	25_P	1.009	0.97
45_F	48_P	1.003	0.97
81_D	84_I	1.002	0.97
79_V	84_I	0.990	0.97
23_R	28_L	0.983	0.97
57_A	125_L	0.981	0.97
101_A	105_G	0.969	0.97
22_M	28_L	0.967	0.97
84_I	88_R	0.959	0.96
91_A	95_I	0.947	0.96
57_A	122_L	0.946	0.96
43_L	46_L	0.941	0.96
67_L	134_W	0.935	0.96
24_R	29_K	0.935	0.96
128_F	135_R	0.920	0.95
4_T	8_I	0.917	0.95
15_L	20_R	0.892	0.95
118_Q	122_L	0.890	0.94
45_F	51_R	0.886	0.94
132_V	136_L	0.880	0.94
65_A	69_W	0.876	0.94
15_L	19_M	0.872	0.94
118_Q	121_D	0.872	0.94
13_L	20_R	0.856	0.93
133_P	137_E	0.845	0.93
134_W	138_M	0.829	0.92
90_K	94_L	0.829	0.92
18_R	22_M	0.827	0.92
14_V	17_L	0.827	0.92
110_L	114_L	0.825	0.92
91_A	103_R	0.825	0.92
90_K	95_I	0.823	0.92
105_G	112_Q	0.820	0.92
37_F	128_F	0.811	0.91
26_V	31_W	0.803	0.91
59_A	122_L	0.797	0.90
61_L	132_V	0.795	0.90
115_S	120_T	0.794	0.90
39_A	128_F	0.790	0.90
24_R	27_P	0.788	0.90
130_M	134_W	0.785	0.90
24_R	28_L	0.783	0.90
91_A	94_L	0.782	0.90
75_S	138_M	0.777	0.89
10_I	13_L	0.774	0.89
140_L	145_L	0.771	0.89
44_M	48_P	0.770	0.89
90_K	93_L	0.769	0.89
32_I	36_L	0.768	0.89
12_A	15_L	0.766	0.89
28_L	139_Y	0.764	0.89
72_G	77_I	0.757	0.88
133_P	138_M	0.751	0.88
75_S	86_L	0.750	0.88
114_L	122_L	0.749	0.88
137_E	142_Y	0.747	0.87
93_L	96_L	0.744	0.87
23_R	27_P	0.741	0.87
79_V	83_H	0.736	0.87
48_P	51_R	0.735	0.87
105_G	109_Y	0.729	0.86
9_V	12_A	0.724	0.86
104_L	116_V	0.721	0.86
87_K	91_A	0.721	0.86
133_P	136_L	0.718	0.85
10_I	21_R	0.716	0.85
22_M	96_L	0.714	0.85
82_G	88_R	0.700	0.84
31_W	35_P	0.700	0.84
102_V	106_L	0.700	0.84
14_V	20_R	0.690	0.83
45_F	125_L	0.687	0.83
12_A	116_V	0.685	0.82
52_V	124_F	0.681	0.82
75_S	131_I	0.680	0.82
130_M	138_M	0.679	0.82
96_L	99_L	0.677	0.82
36_L	141_R	0.669	0.81
67_L	70_P	0.667	0.81
6_I	10_I	0.666	0.81
69_W	73_R	0.663	0.80
44_M	99_L	0.661	0.80
69_W	72_G	0.651	0.79
16_A	20_R	0.640	0.78
8_I	13_L	0.640	0.78
137_E	144_R	0.638	0.78
86_L	89_S	0.628	0.77
117_G	121_D	0.623	0.76
103_R	127_A	0.620	0.76
21_R	24_R	0.619	0.76
22_M	29_K	0.612	0.75
20_R	27_P	0.611	0.75
35_P	39_A	0.604	0.74
11_A	70_P	0.600	0.73
66_A	133_P	0.599	0.73
111_G	115_S	0.591	0.72
121_D	124_F	0.591	0.72
76_R	87_K	0.590	0.72
124_F	132_V	0.585	0.72
42_A	125_L	0.584	0.71
139_Y	142_Y	0.583	0.71
53_P	118_Q	0.580	0.71
35_P	38_M	0.576	0.70
36_L	42_A	0.576	0.70
21_R	26_V	0.566	0.69
38_M	128_F	0.565	0.69
75_S	92_F	0.564	0.69
73_R	87_K	0.559	0.68
28_L	32_I	0.556	0.68
26_V	30_L	0.555	0.68
44_M	47_V	0.548	0.67
46_L	49_P	0.548	0.67
38_M	41_G	0.546	0.66
35_P	41_G	0.543	0.66
121_D	125_L	0.540	0.65
5_L	9_V	0.538	0.65
108_G	113_S	0.534	0.65
92_F	96_L	0.534	0.65
7_A	104_L	0.533	0.64
129_G	135_R	0.533	0.64
57_A	110_L	0.524	0.63
116_V	120_T	0.524	0.63
19_M	28_L	0.523	0.63
40_T	50_F	0.523	0.63
80_D	83_H	0.522	0.63
11_A	100_L	0.520	0.63
70_P	92_F	0.519	0.62
68_G	80_D	0.518	0.62
56_W	118_Q	0.516	0.62
60_A	125_L	0.515	0.62
70_P	109_Y	0.513	0.62
17_L	27_P	0.508	0.61
86_L	92_F	0.507	0.61
84_I	89_S	0.506	0.61
15_L	21_R	0.505	0.60
90_K	101_A	0.502	0.60
131_I	137_E	0.500	0.60

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
4o9uB	2	0.9517	23.8	0.895	Contact Map
4o93B	1	0.9448	12.6	0.908	Contact Map
2ks1B	1	0.1724	9.7	0.912	Contact Map
2jwaA	2	0.1862	9.4	0.912	Contact Map
3l1lA	2	0.5586	8.1	0.915	Contact Map
2l2tA	2	0.1793	7.3	0.917	Contact Map
4dx5A	3	0.9793	5.4	0.922	Contact Map
5a2fA	1	0	4.2	0.926	Contact Map
1pw4A	1	0.9586	3.7	0.928	Contact Map
2xq2A	2	0.931	3.2	0.93	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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