DUF802 - PFAM28P - GREMLIN Contacts

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DUF802 - Domain of unknown function (DUF802)

PFAM:	PF05650	Sequences: LSARFEATAATVADTWTAALARQQRASEALAADLRQALAAFAATFEQRSAALL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	53 (53)
Sequences:	1747 (1239)
Seq/√Len:	170.2
META:	0.719

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
23_Q	27_S	2.715	1.00
8_T	12_V	2.437	1.00
38_L	41_F	2.157	1.00
29_A	33_D	1.990	1.00
14_D	18_A	1.921	1.00
39_A	43_A	1.864	1.00
5_F	12_V	1.824	1.00
28_E	32_A	1.802	1.00
43_A	46_E	1.762	1.00
34_L	41_F	1.737	1.00
25_R	28_E	1.736	1.00
21_A	24_Q	1.722	1.00
17_T	22_R	1.682	1.00
35_R	39_A	1.638	1.00
10_A	14_D	1.602	1.00
22_R	25_R	1.522	1.00
24_Q	28_E	1.456	1.00
1_L	5_F	1.435	1.00
9_A	31_A	1.359	1.00
31_A	35_R	1.337	1.00
14_D	17_T	1.327	1.00
12_V	15_T	1.234	1.00
28_E	33_D	1.176	1.00
32_A	36_Q	1.130	1.00
36_Q	40_A	1.092	1.00
4_R	10_A	0.985	0.99
33_D	36_Q	0.982	0.99
34_L	37_A	0.982	0.99
16_W	19_A	0.969	0.99
3_A	6_E	0.954	0.99
44_T	48_R	0.935	0.99
19_A	48_R	0.864	0.98
37_A	41_F	0.844	0.98
46_E	50_A	0.837	0.97
36_Q	39_A	0.831	0.97
43_A	47_Q	0.826	0.97
6_E	9_A	0.822	0.97
22_R	27_S	0.808	0.97
32_A	35_R	0.792	0.96
20_L	53_L	0.789	0.96
7_A	11_T	0.781	0.96
31_A	34_L	0.777	0.96
41_F	48_R	0.769	0.96
18_A	26_A	0.751	0.95
31_A	51_A	0.747	0.95
29_A	35_R	0.734	0.94
6_E	10_A	0.731	0.94
11_T	15_T	0.718	0.94
46_E	49_S	0.712	0.94
44_T	49_S	0.707	0.93
27_S	30_L	0.695	0.93
9_A	20_L	0.695	0.93
15_T	27_S	0.692	0.93
35_R	40_A	0.688	0.92
9_A	53_L	0.677	0.92
44_T	51_A	0.671	0.91
8_T	15_T	0.670	0.91
1_L	6_E	0.645	0.90
17_T	24_Q	0.632	0.89
15_T	34_L	0.619	0.88
9_A	15_T	0.617	0.88
40_A	51_A	0.608	0.87
3_A	7_A	0.603	0.86
14_D	21_A	0.586	0.85
1_L	4_R	0.584	0.85
5_F	8_T	0.580	0.84
18_A	21_A	0.567	0.83
18_A	22_R	0.565	0.83
20_L	37_A	0.546	0.80
31_A	50_A	0.544	0.80
25_R	47_Q	0.542	0.80
1_L	29_A	0.541	0.80
45_F	48_R	0.535	0.79
28_E	39_A	0.530	0.79
45_F	49_S	0.526	0.78
20_L	45_F	0.521	0.77
5_F	21_A	0.507	0.75
12_V	49_S	0.506	0.75
1_L	8_T	0.502	0.75
5_F	41_F	0.500	0.74

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
3s84A	2	1	4.4	0.813	Contact Map
3hl6A	2	0.3208	3.3	0.824	Contact Map
4n3yB	2	0.9811	2.3	0.838	Contact Map
1r6nA	1	0.5094	1.7	0.849	Contact Map
2lr8A	1	0.5472	1.4	0.856	Contact Map
3ci9A	5	0.566	1.3	0.859	Contact Map
3tu3B	1	0.2075	1.1	0.864	Contact Map
3osqA	1	0.3208	1.1	0.866	Contact Map
3nftA	2	1	1.1	0.868	Contact Map
4j42A	2	0.9434	1	0.869	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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