DUF1375 - PFAM28P - GREMLIN Contacts

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DUF1375 - Protein of unknown function (DUF1375)

PFAM:	PF07119	Sequences: LLLLLLLSGCGTIATLTGGDPEGGPRVYSGVRLDVCALSGGGGGPAPDGFGAALPPLALLDLPFSAVADTLLLPYTL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	77 (73)
Sequences:	2572 (2032)
Seq/√Len:	237.8
META:	0.816

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
28_Y	70_T	5.941	1.00
15_T	29_S	3.791	1.00
16_L	76_T	3.519	1.00
61_D	65_S	2.975	1.00
12_T	68_A	2.200	1.00
31_V	66_A	2.164	1.00
11_G	34_D	2.052	1.00
27_V	77_L	1.770	1.00
15_T	72_L	1.764	1.00
30_G	68_A	1.728	1.00
16_L	72_L	1.699	1.00
34_D	65_S	1.646	1.00
29_S	76_T	1.584	1.00
54_L	58_A	1.554	1.00
37_A	58_A	1.480	1.00
35_V	39_S	1.441	1.00
27_V	73_L	1.384	1.00
16_L	29_S	1.370	1.00
35_V	62_L	1.295	1.00
30_G	65_S	1.278	1.00
38_L	58_A	1.240	1.00
12_T	29_S	1.237	1.00
60_L	63_P	1.222	1.00
27_V	76_T	1.221	1.00
12_T	72_L	1.185	1.00
63_P	66_A	1.143	1.00
30_G	64_F	1.126	1.00
68_A	71_L	1.020	1.00
32_R	36_C	0.999	1.00
12_T	30_G	0.998	1.00
30_G	76_T	0.972	1.00
11_G	33_L	0.953	1.00
4_L	7_L	0.951	1.00
72_L	75_Y	0.948	1.00
12_T	16_L	0.945	1.00
34_D	62_L	0.944	1.00
61_D	64_F	0.933	1.00
72_L	76_T	0.923	1.00
64_F	68_A	0.918	1.00
64_F	67_V	0.914	1.00
73_L	77_L	0.900	1.00
12_T	65_S	0.885	0.99
24_G	36_C	0.859	0.99
14_A	17_T	0.857	0.99
33_L	37_A	0.855	0.99
11_G	15_T	0.854	0.99
15_T	26_R	0.848	0.99
34_D	37_A	0.846	0.99
11_G	29_S	0.821	0.99
68_A	72_L	0.810	0.99
38_L	55_P	0.810	0.99
43_G	46_A	0.798	0.99
30_G	66_A	0.789	0.99
66_A	70_T	0.774	0.99
51_G	54_L	0.773	0.99
43_G	49_G	0.768	0.98
38_L	56_P	0.764	0.98
53_A	56_P	0.763	0.98
34_D	38_L	0.761	0.98
42_G	49_G	0.758	0.98
11_G	31_V	0.743	0.98
26_R	76_T	0.742	0.98
38_L	59_L	0.740	0.98
24_G	29_S	0.730	0.98
26_R	29_S	0.711	0.98
26_R	32_R	0.709	0.97
8_S	11_G	0.707	0.97
3_L	7_L	0.704	0.97
45_P	51_G	0.703	0.97
42_G	45_P	0.681	0.97
12_T	64_F	0.664	0.96
53_A	58_A	0.659	0.96
13_I	32_R	0.642	0.96
16_L	19_G	0.641	0.95
31_V	34_D	0.640	0.95
42_G	46_A	0.633	0.95
31_V	62_L	0.631	0.95
42_G	48_D	0.625	0.95
29_S	72_L	0.620	0.95
23_G	32_R	0.612	0.94
42_G	47_P	0.610	0.94
13_I	17_T	0.610	0.94
59_L	63_P	0.602	0.94
28_Y	66_A	0.600	0.94
45_P	48_D	0.591	0.93
7_L	39_S	0.588	0.93
17_T	20_D	0.587	0.93
5_L	51_G	0.582	0.93
15_T	30_G	0.581	0.92
44_G	51_G	0.575	0.92
18_G	33_L	0.575	0.92
18_G	22_E	0.574	0.92
52_A	55_P	0.574	0.92
55_P	62_L	0.572	0.92
43_G	48_D	0.560	0.91
16_L	30_G	0.554	0.91
69_D	74_P	0.551	0.90
19_G	22_E	0.548	0.90
39_S	48_D	0.542	0.90
32_R	60_L	0.540	0.89
70_T	73_L	0.536	0.89
56_P	59_L	0.535	0.89
56_P	60_L	0.532	0.89
6_L	39_S	0.525	0.88
5_L	38_L	0.524	0.88
19_G	44_G	0.524	0.88
47_P	51_G	0.520	0.88
46_A	53_A	0.517	0.87
44_G	49_G	0.513	0.87
46_A	50_F	0.500	0.86

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
3zbiC	1	0.3636	5.2	0.877	Contact Map
2x2zA	1	0	2	0.9	Contact Map
1ypfA	3	0.3506	1.9	0.901	Contact Map
2w7yA	1	0.7143	1.9	0.901	Contact Map
3uorA	1	0.8182	1.8	0.903	Contact Map
1hq0A	1	0.961	1.6	0.905	Contact Map
2gs0B	1	0.0649	1.6	0.905	Contact Map
3sgzA	4	0.3247	1.5	0.908	Contact Map
3ucpA	1	0.5974	1.5	0.908	Contact Map
2b3gB	2	0.2208	1.2	0.912	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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