DUF2630 - PFAM28P - GREMLIN Contacts

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DUF2630 - Protein of unknown function (DUF2630)

PFAM:	PF10944	Sequences: DDEDILARIEELVAEEHELREREAAGGLSDDDERARLRELEVELDQCWDLLRQRRARREAGQDPDEAQVRPADTVEGYLQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	80 (79)
Sequences:	7926 (4528)
Seq/√Len:	509.5
META:	0.953

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
15_E	36_R	2.948	1.00
57_R	62_Q	2.575	1.00
42_V	72_A	2.311	1.00
38_R	41_E	2.227	1.00
10_E	14_A	2.081	1.00
47_C	69_V	2.004	1.00
73_D	77_G	1.954	1.00
71_P	74_T	1.944	1.00
18_E	22_R	1.799	1.00
53_Q	67_A	1.769	1.00
29_S	32_D	1.729	1.00
35_A	39_E	1.702	1.00
62_Q	66_E	1.672	1.00
8_R	11_E	1.666	1.00
20_R	41_E	1.595	1.00
6_L	55_R	1.548	1.00
3_E	7_A	1.518	1.00
57_R	67_A	1.506	1.00
57_R	66_E	1.473	1.00
39_E	43_E	1.421	1.00
74_T	79_L	1.414	1.00
7_A	11_E	1.348	1.00
74_T	77_G	1.341	1.00
14_A	18_E	1.334	1.00
53_Q	57_R	1.267	1.00
6_L	10_E	1.264	1.00
38_R	42_V	1.250	1.00
31_D	35_A	1.246	1.00
34_R	38_R	1.227	1.00
69_V	72_A	1.217	1.00
53_Q	70_R	1.178	1.00
8_R	43_E	1.175	1.00
56_A	59_E	1.151	1.00
2_D	58_R	1.147	1.00
20_R	37_L	1.144	1.00
4_D	43_E	1.115	1.00
35_A	38_R	1.112	1.00
57_R	60_A	1.085	1.00
23_E	34_R	1.084	1.00
14_A	17_H	1.072	1.00
17_H	21_E	1.057	1.00
4_D	7_A	1.045	1.00
28_L	32_D	1.032	1.00
23_E	29_S	1.027	1.00
8_R	47_C	1.025	1.00
36_R	39_E	1.009	1.00
3_E	8_R	1.001	1.00
7_A	10_E	0.977	1.00
23_E	28_L	0.957	1.00
21_E	24_A	0.945	1.00
46_Q	72_A	0.944	1.00
55_R	59_E	0.936	1.00
63_D	66_E	0.916	1.00
21_E	25_A	0.906	1.00
15_E	18_E	0.888	1.00
69_V	79_L	0.870	1.00
23_E	26_G	0.853	1.00
43_E	46_Q	0.847	1.00
18_E	21_E	0.845	1.00
10_E	13_V	0.838	1.00
16_E	51_L	0.835	1.00
15_E	40_L	0.832	1.00
20_R	34_R	0.827	1.00
12_L	40_L	0.819	1.00
1_D	4_D	0.804	1.00
39_E	42_V	0.804	1.00
17_H	48_W	0.794	1.00
22_R	32_D	0.785	1.00
70_R	74_T	0.781	1.00
7_A	14_A	0.753	1.00
32_D	35_A	0.737	1.00
20_R	23_E	0.732	1.00
43_E	47_C	0.725	1.00
22_R	26_G	0.716	1.00
22_R	27_G	0.714	1.00
28_L	34_R	0.711	1.00
11_E	18_E	0.701	1.00
8_R	12_L	0.700	1.00
56_A	60_A	0.688	1.00
6_L	43_E	0.675	1.00
37_L	40_L	0.673	1.00
39_E	72_A	0.672	1.00
46_Q	69_V	0.670	1.00
11_E	15_E	0.662	1.00
12_L	15_E	0.658	1.00
30_D	35_A	0.658	1.00
6_L	13_V	0.645	1.00
51_L	54_R	0.645	1.00
13_V	17_H	0.637	1.00
13_V	40_L	0.636	1.00
30_D	34_R	0.630	1.00
52_R	79_L	0.628	1.00
23_E	27_G	0.627	1.00
68_Q	71_P	0.627	1.00
42_V	76_E	0.625	1.00
17_H	20_R	0.618	1.00
36_R	40_L	0.616	1.00
73_D	79_L	0.603	0.99
42_V	75_V	0.593	0.99
23_E	30_D	0.584	0.99
3_E	6_L	0.581	0.99
8_R	69_V	0.561	0.99
3_E	11_E	0.555	0.99
11_E	14_A	0.552	0.99
47_C	51_L	0.550	0.99
44_L	47_C	0.545	0.99
13_V	16_E	0.542	0.99
67_A	78_Y	0.540	0.99
16_E	54_R	0.537	0.99
5_I	50_L	0.533	0.99
59_E	65_D	0.529	0.99
20_R	24_A	0.526	0.99
44_L	51_L	0.526	0.99
10_E	52_R	0.522	0.99
13_V	48_W	0.518	0.98
42_V	74_T	0.506	0.98
25_A	28_L	0.504	0.98
6_L	47_C	0.500	0.98

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
4tp9Y	1	0.675	6	0.911	Contact Map
4rb62	1	0.675	5.3	0.913	Contact Map
4pxjA	2	0.5875	4.9	0.914	Contact Map
3j3wX	1	0.65	3.9	0.919	Contact Map
3wo8A	2	0.7375	3.7	0.92	Contact Map
2zjrV	1	0.7	3.2	0.922	Contact Map
1r73A	1	0.7125	3.1	0.923	Contact Map
1vq8V	1	0.6625	3	0.923	Contact Map
3j21W	1	0.775	2.9	0.924	Contact Map
2r2yA	1	0.1875	2.7	0.925	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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