DUF3073 - PFAM28P - GREMLIN Contacts

Home
GREMLIN
- Submit - Monomer
- Submit - Complex
Contacts
Metagenomics
- Contacts
- Structures
Structures
- List
Old Projects
- Complexes (2014)
- PFAM (2013)

DUF3073 - Protein of unknown function (DUF3073)

PFAM:	PF11273	Sequences: GRGRAKAKQTKVARELKYSSPDTDLDALQRELGGGSSSDDDDDDDDDDDDDYDDDYDDYADWA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	63 (60)
Sequences:	3783 (2569)
Seq/√Len:	331.6
META:	0.844

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
26_D	29_Q	3.104	1.00
5_A	25_L	2.571	1.00
55_D	58_D	2.466	1.00
29_Q	33_G	2.237	1.00
5_A	9_Q	2.192	1.00
12_V	16_L	1.963	1.00
5_A	19_S	1.918	1.00
12_V	18_Y	1.821	1.00
27_A	30_R	1.712	1.00
44_D	47_D	1.709	1.00
19_S	22_D	1.685	1.00
23_T	31_E	1.651	1.00
15_E	22_D	1.609	1.00
45_D	48_D	1.521	1.00
10_T	15_E	1.517	1.00
6_K	10_T	1.506	1.00
56_Y	59_Y	1.406	1.00
8_K	12_V	1.359	1.00
39_D	42_D	1.322	1.00
18_Y	23_T	1.307	1.00
9_Q	24_D	1.285	1.00
21_P	29_Q	1.282	1.00
22_D	25_L	1.272	1.00
19_S	23_T	1.244	1.00
12_V	23_T	1.187	1.00
10_T	21_P	1.185	1.00
21_P	27_A	1.140	1.00
9_Q	12_V	1.120	1.00
43_D	46_D	1.083	1.00
44_D	48_D	1.052	1.00
37_S	40_D	1.048	1.00
57_D	60_A	1.045	1.00
9_Q	16_L	1.005	1.00
27_A	31_E	0.984	1.00
10_T	19_S	0.977	1.00
19_S	26_D	0.933	1.00
29_Q	34_G	0.905	1.00
19_S	25_L	0.898	1.00
49_D	52_Y	0.856	1.00
15_E	19_S	0.849	1.00
22_D	33_G	0.848	1.00
39_D	43_D	0.839	1.00
19_S	27_A	0.837	1.00
40_D	43_D	0.830	1.00
55_D	59_Y	0.813	1.00
15_E	21_P	0.810	1.00
21_P	25_L	0.800	1.00
19_S	33_G	0.799	1.00
35_G	38_S	0.795	1.00
38_S	41_D	0.762	1.00
56_Y	60_A	0.744	0.99
1_G	4_R	0.726	0.99
26_D	33_G	0.710	0.99
20_S	27_A	0.709	0.99
23_T	29_Q	0.707	0.99
54_D	59_Y	0.691	0.99
27_A	33_G	0.685	0.99
38_S	43_D	0.684	0.99
23_T	32_L	0.679	0.99
22_D	27_A	0.675	0.99
36_S	39_D	0.675	0.99
53_D	60_A	0.666	0.99
53_D	56_Y	0.661	0.99
48_D	51_D	0.625	0.98
13_A	16_L	0.620	0.98
52_Y	55_D	0.614	0.98
23_T	27_A	0.605	0.98
50_D	53_D	0.600	0.98
5_A	27_A	0.599	0.98
55_D	60_A	0.592	0.97
11_K	15_E	0.585	0.97
41_D	46_D	0.580	0.97
38_S	44_D	0.569	0.97
24_D	27_A	0.560	0.96
41_D	45_D	0.557	0.96
42_D	45_D	0.545	0.96
26_D	30_R	0.545	0.96
50_D	54_D	0.542	0.96
42_D	47_D	0.540	0.95
53_D	57_D	0.536	0.95
24_D	30_R	0.523	0.95
15_E	30_R	0.521	0.94
15_E	26_D	0.519	0.94
53_D	59_Y	0.518	0.94
53_D	58_D	0.512	0.94
37_S	42_D	0.511	0.94
41_D	48_D	0.509	0.94
38_S	42_D	0.500	0.93
11_K	16_L	0.500	0.93
43_D	47_D	0.500	0.93

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
4kblA	2	0	9.7	0.897	Contact Map
2ezdA	1	0.127	7.5	0.902	Contact Map
3mwyW	2	0	2.5	0.922	Contact Map
4u7aA	1	0	2.4	0.923	Contact Map
3huuA	2	0.4127	2.3	0.924	Contact Map
1g2rA	1	0.6984	2.2	0.924	Contact Map
2qx5A	1	0.4762	2.2	0.925	Contact Map
2c8mA	1	0.4444	2.2	0.925	Contact Map
3cmuA	1	0.3968	2.1	0.926	Contact Map
4n78D	1	0.4921	1.9	0.928	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.

Page generated in 0.0038 seconds.