GREMLIN Database
DUF4404 - Domain of unknown function (DUF4404)
PFAM: PF14357 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 84 (84)
Sequences: 6264 (4733)
Seq/√Len: 516.4
META: 0.961

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
77_D81_N3.7361.00
19_D22_T3.0081.00
62_E69_A2.5721.00
3_E7_E2.4611.00
78_T82_M2.2961.00
73_R77_D2.2521.00
67_R70_A2.1111.00
70_A74_R1.8741.00
6_E10_A1.8001.00
68_L71_A1.7671.00
30_A34_E1.7621.00
54_L72_L1.7101.00
69_A73_R1.6751.00
74_R81_N1.6501.00
9_H34_E1.5871.00
59_E73_R1.5701.00
78_T81_N1.5231.00
9_H13_A1.5111.00
4_L7_E1.5081.00
55_E59_E1.4971.00
22_T60_R1.3951.00
51_L55_E1.3871.00
7_E10_A1.3271.00
58_V62_E1.3241.00
15_A18_L1.2941.00
59_E69_A1.2831.00
21_E24_E1.2651.00
32_D53_R1.2351.00
21_E25_L1.2271.00
24_E28_E1.2091.00
74_R78_T1.2061.00
73_R76_I1.2021.00
74_R77_D1.1851.00
7_E11_E1.1481.00
67_R74_R1.1331.00
70_A73_R1.1271.00
25_L28_E1.1241.00
75_I78_T1.1121.00
58_V76_I1.0961.00
67_R71_A1.0781.00
42_A45_E1.0741.00
77_D80_S1.0491.00
44_P47_D1.0331.00
25_L32_D1.0181.00
57_A60_R1.0111.00
42_A46_A0.9861.00
61_F65_H0.9741.00
34_E38_E0.9421.00
57_A64_S0.9321.00
22_T25_L0.9221.00
56_E59_E0.9141.00
11_E15_A0.9131.00
35_R39_R0.8901.00
30_A36_L0.8891.00
55_E76_I0.8881.00
71_A74_R0.8641.00
60_R64_S0.8461.00
42_A47_D0.8361.00
45_E48_E0.8341.00
53_R56_E0.8301.00
11_E14_Q0.8201.00
28_E32_D0.8171.00
20_E24_E0.7981.00
28_E31_A0.7971.00
34_E37_L0.7951.00
58_V72_L0.7951.00
23_R27_A0.7931.00
4_L12_L0.7921.00
3_E6_E0.7801.00
29_L36_L0.7681.00
50_L75_I0.7651.00
48_E52_E0.7631.00
7_E74_R0.7511.00
24_E27_A0.7471.00
80_S84_I0.7421.00
75_I81_N0.7411.00
43_A47_D0.7411.00
27_A34_E0.7371.00
27_A30_A0.7361.00
59_E63_A0.7341.00
58_V69_A0.7331.00
29_L32_D0.7311.00
52_E59_E0.7141.00
55_E73_R0.7101.00
71_A75_I0.7061.00
76_I82_M0.6871.00
36_L53_R0.6821.00
41_E45_E0.6701.00
58_V73_R0.6691.00
44_P49_S0.6661.00
22_T28_E0.6651.00
54_L76_I0.6581.00
31_A34_E0.6571.00
38_E41_E0.6491.00
20_E23_R0.6451.00
35_R38_E0.6271.00
39_R43_A0.6101.00
41_E44_P0.6081.00
43_A48_E0.6081.00
76_I80_S0.6041.00
23_R26_L0.6011.00
32_D36_L0.6000.99
49_S52_E0.5970.99
10_A14_Q0.5960.99
25_L29_L0.5920.99
51_L59_E0.5890.99
24_E31_A0.5810.99
50_L53_R0.5810.99
6_E9_H0.5800.99
8_L11_E0.5800.99
27_A31_A0.5700.99
11_E67_R0.5680.99
77_D82_M0.5630.99
29_L53_R0.5490.99
60_R67_R0.5440.99
12_L18_L0.5390.99
2_R12_L0.5350.99
61_F68_L0.5330.99
62_E73_R0.5320.99
39_R42_A0.5320.99
72_L75_I0.5230.99
25_L30_A0.5110.98
54_L57_A0.5100.98
73_R80_S0.5030.98
58_V81_N0.5010.98
10_A13_A0.5000.98
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

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  
3qwpA 1 1 75.5 0.734 Contact Map
4wuyA 1 1 47.1 0.778 Contact Map
3n71A 1 1 40.1 0.788 Contact Map
4wmuA 1 0.9881 37.7 0.791 Contact Map
3a6mA 2 1 29.1 0.803 Contact Map
4l6yA 2 1 27.4 0.805 Contact Map
4aniA 2 0.9167 25.8 0.808 Contact Map
4cr2Z 1 0.8929 21.9 0.814 Contact Map
3ojaB 1 1 19.3 0.819 Contact Map
4uxvA 1 0.9881 18.4 0.821 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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