GREMLIN Database
DUF4113 - Domain of unknown function (DUF4113)
PFAM: PF13438 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 51 (50)
Sequences: 14094 (8970)
Seq/√Len: 1268.6
META: 0.878

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
34_R37_L2.7291.00
44_R47_E2.5341.00
20_R24_Q2.3901.00
40_R47_E2.2091.00
21_L24_Q1.9641.00
20_R26_L1.8581.00
40_R44_R1.8001.00
45_W48_L1.7911.00
37_L40_R1.6771.00
17_G24_Q1.6081.00
10_I19_V1.5111.00
8_D11_N1.4571.00
28_R31_K1.3881.00
14_Y18_T1.3581.00
2_R5_K1.3061.00
10_I14_Y1.3001.00
7_L21_L1.2881.00
5_K9_A1.2861.00
40_R43_T1.2851.00
15_G18_T1.2361.00
9_A13_R1.2271.00
4_M7_L1.2001.00
11_N18_T1.1911.00
31_K34_R1.1481.00
25_G28_R1.1161.00
23_A26_L1.0521.00
9_A12_R1.0371.00
6_A10_I1.0091.00
20_R23_A0.9941.00
6_A9_A0.9781.00
39_P50_V0.9631.00
20_R25_G0.9211.00
41_Y49_P0.9161.00
26_L29_K0.9091.00
25_G31_K0.8961.00
32_M37_L0.8441.00
6_A19_V0.8141.00
46_D49_P0.8101.00
17_G20_R0.8081.00
42_T49_P0.7871.00
4_M8_D0.7741.00
7_L19_V0.7681.00
41_Y47_E0.7571.00
2_R6_A0.7441.00
5_K12_R0.7291.00
39_P47_E0.7231.00
30_W33_R0.7201.00
45_W49_P0.7011.00
2_R9_A0.6851.00
3_L6_A0.6801.00
6_A14_Y0.6651.00
21_L45_W0.6431.00
17_G29_K0.6321.00
15_G43_T0.6301.00
12_R15_G0.6281.00
11_N16_R0.6051.00
37_L47_E0.6041.00
4_M21_L0.5841.00
30_W45_W0.5821.00
11_N19_V0.5811.00
4_M9_A0.5781.00
28_R32_M0.5641.00
24_Q28_R0.5571.00
25_G29_K0.5521.00
18_T21_L0.5371.00
7_L11_N0.5351.00
14_Y42_T0.5301.00
7_L10_I0.5281.00
12_R16_R0.5241.00
22_A25_G0.5201.00
4_M22_A0.5191.00
4_M30_W0.5121.00
30_W34_R0.5101.00
27_K31_K0.5021.00
2_R12_R0.5001.00
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  
1zkeA 3 0.4314 19 0.833 Contact Map
3hr8A 1 0.8627 12.4 0.846 Contact Map
4udxX 2 1 7.2 0.861 Contact Map
4p8nA 1 0.8627 6.7 0.864 Contact Map
3aafA 1 0.9804 6.3 0.866 Contact Map
2p3pA 1 0.8627 6.3 0.866 Contact Map
1oaoA 2 1 6.2 0.866 Contact Map
1jqkA 3 1 6 0.867 Contact Map
3nb2A 2 1 5.9 0.867 Contact Map
1qe5A 3 1 5.9 0.867 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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