GREMLIN Database
DUF4129 - Domain of unknown function (DUF4129)
PFAM: PF13559 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 69 (67)
Sequences: 45163 (32936)
Seq/√Len: 4023.8
META: 0.947

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
20_E28_R4.0881.00
23_R47_E3.3251.00
17_R20_E2.1491.00
57_D60_E1.9301.00
5_L39_L1.8831.00
22_P47_E1.8411.00
16_R25_Y1.7291.00
26_A43_T1.6871.00
26_A40_R1.5981.00
22_P46_Y1.5621.00
43_T47_E1.5261.00
61_L65_R1.5251.00
8_R12_R1.4971.00
41_R67_A1.4931.00
48_R60_E1.4691.00
32_L35_L1.4251.00
21_T24_E1.4041.00
58_A62_R1.3911.00
6_L16_R1.3801.00
48_R54_R1.3751.00
20_E25_Y1.3711.00
38_A41_R1.3691.00
46_Y50_R1.3661.00
23_R44_R1.2011.00
63_R67_A1.1931.00
35_L38_A1.1451.00
26_A39_L1.1161.00
41_R63_R1.1021.00
22_P43_T1.0821.00
5_L9_L1.0771.00
41_R45_L1.0221.00
42_L64_L1.0031.00
45_L60_E0.9931.00
10_A16_R0.9911.00
16_R20_E0.9901.00
56_L60_E0.9851.00
40_R44_R0.9811.00
14_L28_R0.9791.00
45_L63_R0.9731.00
10_A15_P0.9611.00
2_Y43_T0.9281.00
9_L29_L0.9121.00
39_L43_T0.8971.00
9_L25_Y0.8971.00
60_E63_R0.8951.00
7_R10_A0.8871.00
36_A40_R0.8821.00
8_R11_R0.8551.00
25_Y29_L0.8421.00
56_L61_L0.8361.00
14_L29_L0.7891.00
59_E63_R0.7861.00
58_A61_L0.7831.00
62_R66_A0.7811.00
49_A56_L0.7761.00
3_R7_R0.7721.00
23_R26_A0.7661.00
2_Y6_L0.7501.00
3_R6_L0.7451.00
44_R47_E0.7441.00
5_L8_R0.7391.00
33_P36_A0.7301.00
29_L39_L0.7281.00
28_R31_A0.7241.00
7_R11_R0.7181.00
1_A5_L0.7101.00
48_R52_G0.6981.00
59_E62_R0.6981.00
15_P25_Y0.6871.00
21_T47_E0.6821.00
5_L42_L0.6811.00
4_R8_R0.6761.00
2_Y22_P0.6761.00
45_L48_R0.6611.00
38_A67_A0.6571.00
2_Y25_Y0.6531.00
22_P51_Y0.6531.00
27_R40_R0.6491.00
23_R43_T0.6451.00
27_R30_R0.6431.00
44_R48_R0.6431.00
45_L64_L0.6401.00
63_R66_A0.6401.00
6_L25_Y0.6321.00
23_R40_R0.6301.00
45_L67_A0.6251.00
31_A34_A0.6161.00
6_L9_L0.5941.00
42_L46_Y0.5881.00
1_A61_L0.5811.00
62_R65_R0.5761.00
6_L10_A0.5631.00
6_L51_Y0.5631.00
37_A41_R0.5481.00
30_R33_P0.5421.00
6_L22_P0.5331.00
9_L12_R0.5331.00
32_L36_A0.5281.00
4_R7_R0.5171.00
25_Y51_Y0.5001.00
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  
1o3uA 2 0.8986 33.2 0.757 Contact Map
1ufbA 3 0.9855 32.7 0.758 Contact Map
2hsbA 2 0.9855 28 0.766 Contact Map
4nqfA 2 1 26.1 0.769 Contact Map
1wolA 1 0.9565 26 0.769 Contact Map
2g5gX 1 1 12.3 0.802 Contact Map
3o10A 2 0.9855 10.6 0.807 Contact Map
3cuqB 1 0.9855 10.1 0.809 Contact Map
2l6pA 1 0.3913 8.9 0.813 Contact Map
2avuE 2 0.8406 7.1 0.822 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.

Page generated in 0.0039 seconds.