SUZ - PFAM28P - GREMLIN Contacts

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SUZ - SUZ domain

PFAM:	PF12752	Sequences: EQPKVKILKRPSTASSSSSPSKATSEAGSSGKKKSKPSKSLEEREAEYAEARARIFGSSE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	60 (54)
Sequences:	887 (674)
Seq/√Len:	91.7
META:	0.337

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
46_A	50_E	3.410	1.00
39_K	47_E	3.378	1.00
49_A	53_A	2.302	1.00
45_E	49_A	2.291	1.00
53_A	56_F	2.068	1.00
43_E	47_E	1.969	1.00
40_S	44_R	1.804	1.00
47_E	50_E	1.716	1.00
53_A	58_S	1.671	1.00
2_Q	5_V	1.569	1.00
47_E	51_A	1.520	1.00
29_S	32_K	1.490	1.00
5_V	9_K	1.476	1.00
3_P	8_L	1.437	0.99
32_K	35_S	1.372	0.99
9_K	12_S	1.280	0.99
40_S	43_E	1.278	0.99
8_L	47_E	1.278	0.99
41_L	45_E	1.183	0.98
6_K	9_K	1.180	0.98
49_A	56_F	1.152	0.97
12_S	45_E	1.133	0.97
21_S	25_S	1.053	0.96
14_A	19_S	1.044	0.95
8_L	11_P	1.035	0.95
4_K	46_A	1.019	0.95
28_G	34_K	0.976	0.93
24_T	27_A	0.966	0.93
49_A	59_S	0.935	0.92
14_A	17_S	0.934	0.92
31_G	34_K	0.927	0.92
50_E	57_G	0.906	0.91
25_S	28_G	0.903	0.90
53_A	57_G	0.898	0.90
35_S	38_S	0.889	0.90
18_S	21_S	0.867	0.89
15_S	19_S	0.857	0.88
30_S	33_K	0.854	0.88
6_K	41_L	0.826	0.86
43_E	46_A	0.820	0.86
41_L	47_E	0.812	0.85
26_E	30_S	0.811	0.85
15_S	18_S	0.811	0.85
29_S	33_K	0.801	0.84
38_S	42_E	0.793	0.84
42_E	50_E	0.781	0.83
38_S	54_R	0.774	0.82
18_S	30_S	0.772	0.82
14_A	20_P	0.765	0.82
16_S	24_T	0.742	0.80
51_A	54_R	0.733	0.79
5_V	46_A	0.716	0.77
11_P	57_G	0.696	0.75
35_S	58_S	0.679	0.73
29_S	34_K	0.672	0.72
17_S	27_A	0.651	0.70
37_P	54_R	0.648	0.70
21_S	27_A	0.638	0.69
16_S	19_S	0.627	0.67
9_K	39_K	0.611	0.65
7_I	12_S	0.609	0.65
20_P	33_K	0.609	0.65
15_S	35_S	0.608	0.65
16_S	20_P	0.606	0.65
50_E	53_A	0.601	0.64
12_S	19_S	0.593	0.63
26_E	31_G	0.592	0.63
5_V	42_E	0.590	0.63
14_A	18_S	0.587	0.62
31_G	54_R	0.577	0.61
7_I	11_P	0.575	0.61
41_L	46_A	0.564	0.59
3_P	6_K	0.563	0.59
8_L	43_E	0.543	0.56
46_A	55_I	0.534	0.55
18_S	31_G	0.526	0.54
7_I	41_L	0.514	0.52
53_A	59_S	0.503	0.51
5_V	38_S	0.502	0.51
42_E	49_A	0.500	0.50
20_P	25_S	0.500	0.50

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
5aj3i	1	0.3333	9	0.835	Contact Map
4my6A	1	0.3167	2.1	0.879	Contact Map
3syyA	3	0.2667	1.9	0.882	Contact Map
2iaiA	2	0.4	1.4	0.891	Contact Map
3axjA	1	0.6	1.3	0.892	Contact Map
2zjrL	1	0.25	1.1	0.897	Contact Map
2hs5A	1	0.3333	1	0.9	Contact Map
3h8kB	1	0.45	1	0.9	Contact Map
1g8lA	2	0.2667	0.9	0.903	Contact Map
3wamA	2	0.4667	0.9	0.903	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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