DUF1847 - PFAM28P - GREMLIN Contacts

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DUF1847 - Protein of unknown function (DUF1847)

PFAM:	PF08901	Sequences: CPTKNEPELIEEALEEYEDPENREFARAAAIVEAEGYGKKTRVEEIIEFAKKMGYKKLGIAFCIGLRKEARILAEILEAHGFEVVSVCCKVGGIPKEEIGLPDEEKIRPGTFEAMCNPIGQAELLNEAGTDLNILLGLCVGHDSLFFKYSKAPVTVL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	157 (157)
Sequences:	3095 (2054)
Seq/√Len:	163.9
META:	0.907

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
147_F	156_V	2.848	1.00
58_L	82_F	2.771	1.00
43_V	73_L	2.569	1.00
41_T	44_E	2.530	1.00
135_L	147_F	2.516	1.00
103_D	110_G	2.503	1.00
61_A	125_L	2.201	1.00
35_E	52_K	2.123	1.00
150_S	154_V	2.065	1.00
57_K	83_E	1.957	1.00
60_I	74_A	1.931	1.00
16_E	19_D	1.898	1.00
36_G	40_K	1.859	1.00
130_T	133_N	1.853	1.00
57_K	85_V	1.813	1.00
133_N	150_S	1.795	1.00
147_F	154_V	1.766	1.00
14_L	98_E	1.701	1.00
73_L	77_L	1.698	1.00
46_I	140_V	1.663	1.00
40_K	48_E	1.655	1.00
132_L	144_S	1.646	1.00
73_L	136_L	1.643	1.00
97_E	106_K	1.633	1.00
50_A	82_F	1.626	1.00
134_I	155_T	1.623	1.00
74_A	78_E	1.610	1.00
47_I	80_H	1.603	1.00
43_V	157_L	1.599	1.00
144_S	147_F	1.580	1.00
91_V	120_G	1.574	1.00
64_I	88_C	1.569	1.00
56_K	131_D	1.568	1.00
126_N	151_K	1.567	1.00
103_D	106_K	1.554	1.00
123_E	151_K	1.547	1.00
47_I	76_I	1.533	1.00
51_K	80_H	1.477	1.00
50_A	58_L	1.476	1.00
46_I	134_I	1.474	1.00
58_L	134_I	1.461	1.00
16_E	123_E	1.452	1.00
60_I	73_L	1.447	1.00
25_F	49_F	1.441	1.00
22_N	149_Y	1.435	1.00
102_P	105_E	1.429	1.00
15_E	18_E	1.414	1.00
33_E	37_Y	1.411	1.00
77_L	134_I	1.403	1.00
24_E	28_A	1.380	1.00
55_Y	131_D	1.375	1.00
130_T	150_S	1.364	1.00
119_I	145_L	1.362	1.00
119_I	149_Y	1.340	1.00
68_K	71_R	1.324	1.00
56_K	83_E	1.309	1.00
85_V	128_A	1.298	1.00
66_L	137_G	1.294	1.00
12_E	123_E	1.281	1.00
6_E	127_E	1.267	1.00
62_F	67_R	1.256	1.00
146_F	150_S	1.242	1.00
62_F	86_S	1.234	1.00
23_R	27_R	1.220	1.00
135_L	156_V	1.215	1.00
9_L	13_A	1.205	1.00
12_E	127_E	1.195	1.00
50_A	132_L	1.187	1.00
133_N	152_A	1.181	1.00
24_E	27_R	1.168	1.00
18_E	23_R	1.162	1.00
44_E	48_E	1.156	1.00
94_I	117_N	1.143	1.00
61_A	146_F	1.143	1.00
28_A	31_I	1.137	1.00
73_L	157_L	1.119	1.00
93_G	114_A	1.094	1.00
14_L	94_I	1.090	1.00
19_D	22_N	1.074	0.99
31_I	105_E	1.069	0.99
130_T	152_A	1.064	0.99
32_V	40_K	1.057	0.99
96_K	113_E	1.055	0.99
123_E	127_E	1.041	0.99
22_N	148_K	1.039	0.99
99_I	115_M	1.037	0.99
62_F	70_A	1.037	0.99
31_I	52_K	1.022	0.99
28_A	53_M	1.021	0.99
129_G	151_K	1.005	0.99
140_V	144_S	1.004	0.99
28_A	32_V	1.002	0.99
44_E	80_H	1.000	0.99
124_L	128_A	0.992	0.99
68_K	72_I	0.990	0.99
148_K	151_K	0.988	0.99
47_I	77_L	0.985	0.99
27_R	31_I	0.981	0.99
66_L	136_L	0.974	0.99
48_E	52_K	0.966	0.99
11_E	14_L	0.963	0.99
91_V	124_L	0.954	0.99
71_R	75_E	0.936	0.99
108_R	111_T	0.935	0.99
25_F	153_P	0.931	0.99
76_I	80_H	0.928	0.98
97_E	103_D	0.923	0.98
30_A	33_E	0.921	0.98
16_E	149_Y	0.912	0.98
26_A	99_I	0.904	0.98
106_K	109_P	0.900	0.98
18_E	98_E	0.896	0.98
73_L	134_I	0.894	0.98
13_A	123_E	0.880	0.98
46_I	50_A	0.876	0.98
47_I	51_K	0.860	0.98
144_S	153_P	0.847	0.97
25_F	32_V	0.847	0.97
145_L	149_Y	0.841	0.97
94_I	98_E	0.841	0.97
123_E	126_N	0.840	0.97
87_V	91_V	0.839	0.97
33_E	96_K	0.828	0.97
10_I	120_G	0.811	0.96
126_N	152_A	0.806	0.96
4_K	7_P	0.801	0.96
46_I	73_L	0.787	0.96
10_I	14_L	0.778	0.96
59_G	125_L	0.771	0.95
21_E	24_E	0.766	0.95
55_Y	132_L	0.763	0.95
106_K	112_F	0.755	0.95
106_K	110_G	0.751	0.95
11_E	15_E	0.750	0.95
87_V	125_L	0.749	0.95
8_E	11_E	0.745	0.94
26_A	115_M	0.745	0.94
37_Y	65_G	0.741	0.94
22_N	119_I	0.740	0.94
148_K	153_P	0.731	0.94
33_E	65_G	0.731	0.94
67_R	88_C	0.727	0.94
95_P	114_A	0.726	0.94
135_L	150_S	0.711	0.93
9_L	127_E	0.706	0.93
101_L	115_M	0.705	0.93
16_E	119_I	0.702	0.92
46_I	136_L	0.699	0.92
37_Y	96_K	0.695	0.92
50_A	140_V	0.694	0.92
144_S	156_V	0.692	0.92
31_I	102_P	0.690	0.92
10_I	91_V	0.689	0.92
48_E	51_K	0.685	0.91
135_L	154_V	0.679	0.91
72_I	75_E	0.677	0.91
138_L	146_F	0.676	0.91
33_E	113_E	0.675	0.91
7_P	11_E	0.673	0.91
57_K	129_G	0.671	0.91
64_I	108_R	0.671	0.91
32_V	36_G	0.669	0.90
7_P	15_E	0.667	0.90
31_I	35_E	0.665	0.90
77_L	84_V	0.664	0.90
134_I	157_L	0.662	0.90
144_S	155_T	0.656	0.90
36_G	48_E	0.652	0.89
33_E	36_G	0.651	0.89
87_V	124_L	0.650	0.89
75_E	79_A	0.647	0.89
94_I	120_G	0.645	0.89
6_E	128_A	0.642	0.89
20_P	23_R	0.640	0.88
60_I	136_L	0.638	0.88
53_M	132_L	0.631	0.88
43_V	77_L	0.626	0.87
26_A	30_A	0.621	0.87
95_P	98_E	0.617	0.87
111_T	114_A	0.617	0.87
72_I	76_I	0.616	0.86
40_K	62_F	0.616	0.86
29_A	49_F	0.613	0.86
95_P	112_F	0.607	0.86
16_E	22_N	0.604	0.85
123_E	149_Y	0.603	0.85
47_I	81_G	0.602	0.85
40_K	44_E	0.597	0.85
43_V	76_I	0.595	0.85
64_I	67_R	0.594	0.84
29_A	33_E	0.589	0.84
11_E	18_E	0.588	0.84
90_K	96_K	0.587	0.84
6_E	9_L	0.585	0.84
103_D	109_P	0.584	0.83
139_C	142_H	0.584	0.83
19_D	24_E	0.578	0.83
70_A	136_L	0.578	0.83
12_E	15_E	0.578	0.83
32_V	48_E	0.572	0.82
49_F	53_M	0.571	0.82
67_R	70_A	0.571	0.82
109_P	112_F	0.570	0.82
46_I	77_L	0.568	0.82
13_A	92_G	0.565	0.81
28_A	52_K	0.562	0.81
119_I	123_E	0.560	0.81
6_E	124_L	0.552	0.80
9_L	120_G	0.551	0.80
126_N	129_G	0.547	0.79
32_V	35_E	0.547	0.79
9_L	12_E	0.540	0.78
6_E	11_E	0.535	0.78
46_I	58_L	0.534	0.78
37_Y	113_E	0.533	0.78
24_E	53_M	0.530	0.77
10_I	13_A	0.530	0.77
108_R	112_F	0.530	0.77
150_S	153_P	0.529	0.77
35_E	105_E	0.527	0.77
78_E	81_G	0.527	0.77
49_F	55_Y	0.525	0.77
9_L	14_L	0.525	0.77
21_E	148_K	0.525	0.77
12_E	16_E	0.520	0.76
20_P	24_E	0.520	0.76
101_L	113_E	0.514	0.75
17_Y	22_N	0.513	0.75
124_L	127_E	0.513	0.75
22_N	145_L	0.510	0.74
6_E	14_L	0.507	0.74
65_G	69_E	0.503	0.73
40_K	45_E	0.502	0.73
14_L	18_E	0.501	0.73
26_A	29_A	0.501	0.73
126_N	130_T	0.500	0.73

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
1k77A	1	0.7834	61.2	0.937	Contact Map
3m3pA	1	0.6497	58.1	0.938	Contact Map
3ngfA	1	0.8217	36.5	0.946	Contact Map
2ywjA	1	0.5605	24.4	0.95	Contact Map
1qtwA	1	0.7643	23.6	0.951	Contact Map
1fy2A	1	0.8217	22.9	0.951	Contact Map
3lzdA	2	0.6879	22	0.951	Contact Map
3u0hA	3	0.7516	20.7	0.952	Contact Map
3gonA	1	0.5669	20.5	0.952	Contact Map
2ywdA	1	0.586	19.7	0.952	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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