GREMLIN Database
SPDY - Domain of unknown function (DUF317)
PFAM: PF03771 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 62 (60)
Sequences: 1029 (673)
Seq/√Len: 86.9
META: 0.115

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
40_F52_F5.6381.00
52_F56_L2.9461.00
38_A52_F2.7901.00
25_I52_F2.6601.00
25_I56_L2.3831.00
8_R26_W2.2061.00
23_W36_W1.9291.00
9_L25_I1.8231.00
41_T54_A1.6501.00
23_W35_L1.5451.00
28_R41_T1.4770.99
40_F44_T1.4300.99
7_A10_G1.3990.99
28_R34_P1.3970.99
6_R29_P1.3430.99
29_P35_L1.2670.98
9_L50_A1.2650.98
15_A21_A1.2220.98
51_A54_A1.1970.98
40_F54_A1.1830.97
30_P33_G1.1330.97
28_R31_G1.1050.96
10_G30_P1.0710.95
44_T58_D1.0690.95
5_G8_R1.0610.95
6_R27_A1.0490.95
7_A44_T1.0450.95
3_P55_A1.0330.94
7_A53_T1.0310.94
14_E22_A1.0250.94
19_E46_A1.0210.94
50_A57_A1.0170.94
10_G42_A0.9790.93
36_W52_F0.9760.92
19_E39_T0.9670.92
45_P48_L0.9560.92
37_H49_V0.9530.92
41_T55_A0.9460.91
9_L56_L0.9210.90
8_R48_L0.8790.88
38_A59_P0.8570.87
4_D55_A0.8100.83
17_P48_L0.8060.83
20_P57_A0.7930.82
4_D59_P0.7750.81
4_D44_T0.7680.80
48_L55_A0.7580.79
15_A42_A0.7420.78
47_E55_A0.7370.77
24_T41_T0.6970.73
40_F49_V0.6960.73
30_P43_H0.6940.73
17_P49_V0.6920.73
48_L53_T0.6910.72
19_E29_P0.6900.72
31_G50_A0.6680.70
9_L53_T0.6620.69
50_A55_A0.6580.69
19_E40_F0.6300.65
5_G57_A0.6290.65
10_G34_P0.6210.64
17_P43_H0.5980.61
7_A57_A0.5970.61
47_E58_D0.5900.60
47_E54_A0.5900.60
28_R32_G0.5880.60
28_R53_T0.5850.60
33_G39_T0.5790.59
38_A55_A0.5780.59
13_P21_A0.5770.59
11_F42_A0.5750.58
23_W56_L0.5700.58
22_A49_V0.5700.58
21_A41_T0.5550.56
46_A53_T0.5510.55
38_A45_P0.5500.55
50_A60_A0.5490.55
12_D24_T0.5460.55
48_L58_D0.5380.53
5_G23_W0.5370.53
32_G39_T0.5320.53
38_A49_V0.5260.52
21_A27_A0.5220.51
25_I57_A0.5110.50
24_T39_T0.5080.49
33_G57_A0.5060.49
14_E17_P0.5040.49
31_G41_T0.5030.49
2_S46_A0.5030.49
26_W34_P0.5000.48
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

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  
2d73A 2 0.8387 5.8 0.847 Contact Map
3a24A 1 0.8065 4.5 0.856 Contact Map
2g5xA 1 0.4839 3 0.868 Contact Map
4l4wA 1 0.9032 2.8 0.869 Contact Map
3hvmA 1 0.7903 2.5 0.873 Contact Map
2xn2A 4 0.9516 2.4 0.873 Contact Map
4w4lC 1 0.9032 2.3 0.875 Contact Map
4fnqA 4 0.9516 2.2 0.877 Contact Map
1t9kA 2 0.9355 2.1 0.878 Contact Map
1upkA 1 0.3065 2 0.879 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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