GREMLIN Database
DUF4093 - Domain of unknown function (DUF4093)
PFAM: PF13331 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 83 (82)
Sequences: 3364 (2677)
Seq/√Len: 295.6
META: 0.708

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
36_L79_F3.6981.00
1_K6_H2.3551.00
76_R80_E2.2741.00
9_P13_R2.2541.00
14_E18_K2.2161.00
32_D76_R2.1461.00
30_K63_K1.9491.00
75_T78_E1.8831.00
58_G68_R1.8741.00
66_L70_N1.7761.00
13_R17_E1.7741.00
43_D46_E1.7141.00
45_A49_E1.7011.00
39_S62_A1.6881.00
52_G60_L1.6551.00
37_G41_G1.6541.00
8_S11_A1.6341.00
14_E17_E1.6211.00
28_I69_L1.5141.00
52_G65_L1.5131.00
26_E76_R1.4951.00
41_G44_S1.4401.00
33_L66_L1.3931.00
60_L68_R1.3821.00
60_L64_Q1.3521.00
29_T32_D1.3061.00
46_E50_K1.3041.00
36_L80_E1.2611.00
64_Q68_R1.2591.00
26_E70_N1.2461.00
77_E81_E1.2181.00
37_G47_R1.2101.00
30_K39_S1.1961.00
44_S47_R1.1951.00
30_K34_Y1.1761.00
46_E49_E1.1041.00
31_A35_E1.0861.00
52_G57_I1.0831.00
50_K54_K1.0731.00
64_Q67_K1.0691.00
30_K66_L1.0541.00
50_K53_K1.0381.00
15_A19_A1.0381.00
51_L65_L1.0171.00
43_D47_R1.0011.00
7_A12_I0.9891.00
32_D66_L0.9801.00
40_G44_S0.9721.00
32_D79_F0.9551.00
65_L69_L0.9401.00
2_L6_H0.9371.00
52_G58_G0.9341.00
49_E59_Y0.9321.00
18_K56_G0.9241.00
54_K82_A0.9121.00
78_E81_E0.8891.00
27_E76_R0.8871.00
11_A14_E0.8811.00
67_K71_M0.8691.00
33_L69_L0.8621.00
74_I78_E0.8531.00
10_E14_E0.8521.00
16_L19_A0.8421.00
4_V11_A0.8251.00
60_L65_L0.8181.00
15_A18_K0.8081.00
47_R50_K0.7900.99
33_L65_L0.7610.99
7_A11_A0.7600.99
68_R72_F0.7470.99
35_E80_E0.7390.99
9_P16_L0.7250.99
7_A16_L0.7250.99
68_R71_M0.7200.99
30_K62_A0.7140.99
77_E80_E0.7060.99
52_G59_Y0.6960.99
47_R54_K0.6960.99
49_E53_K0.6930.99
51_L55_L0.6800.98
32_D36_L0.6730.98
62_A65_L0.6700.98
69_L74_I0.6680.98
76_R79_F0.6680.98
51_L79_F0.6640.98
55_L82_A0.6550.98
2_L60_L0.6530.98
16_L59_Y0.6420.98
10_E13_R0.6420.98
10_E17_E0.6390.98
11_A15_A0.6380.98
79_F82_A0.6350.97
33_L39_S0.6350.97
45_A59_Y0.6340.97
27_E70_N0.6110.97
7_A15_A0.5960.96
4_V59_Y0.5940.96
35_E76_R0.5920.96
32_D80_E0.5900.96
37_G43_D0.5820.96
61_N68_R0.5800.96
13_R16_L0.5790.96
25_E73_G0.5760.96
6_H57_I0.5680.95
64_Q72_F0.5650.95
47_R51_L0.5590.95
54_K79_F0.5580.95
63_K67_K0.5560.95
55_L74_I0.5540.95
38_L44_S0.5540.95
12_I15_A0.5540.95
61_N74_I0.5320.93
59_Y64_Q0.5280.93
52_G56_G0.5280.93
28_I79_F0.5250.93
34_Y40_G0.5240.93
30_K33_L0.5220.93
32_D35_E0.5210.93
7_A19_A0.5190.92
12_I48_R0.5140.92
1_K59_Y0.5060.92
23_E53_K0.5020.91
20_E73_G0.5000.91
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  
2pvbA 1 0.8916 34 0.865 Contact Map
4mzjA 1 0.9157 28.7 0.87 Contact Map
1m45A 1 0.9157 28.3 0.871 Contact Map
1wdcC 1 0.9639 27.9 0.871 Contact Map
4ociA 2 0.9398 25.9 0.873 Contact Map
2fcjA 2 0.4096 24.6 0.874 Contact Map
2aaoA 2 0.8554 24.2 0.875 Contact Map
1bu3A 2 0.9036 23.6 0.875 Contact Map
4fp9B 2 0.759 23.2 0.876 Contact Map
1q80A 1 1 20.9 0.878 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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