GREMLIN Database
DUF3875 - Domain of unknown function, B. Theta Gene description (DUF3875)
PFAM: PF12991 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 53 (47)
Sequences: 1603 (823)
Seq/√Len: 120.0
META: 0.895

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
29_I37_L3.3951.00
21_C31_V2.6191.00
45_D51_L2.2961.00
24_S30_T2.1931.00
17_V22_I1.8471.00
6_K10_D1.8341.00
43_L51_L1.7881.00
7_N10_D1.7211.00
8_L12_F1.7041.00
11_I27_G1.6371.00
6_K11_I1.5891.00
24_S28_D1.5821.00
15_L25_K1.4491.00
21_C29_I1.4291.00
20_D32_A1.4091.00
44_S47_E1.3951.00
21_C35_V1.3251.00
16_G23_L1.1360.99
27_G42_T1.1350.99
47_E51_L1.1320.99
32_A35_V1.1180.99
26_Q41_F1.1120.99
35_V45_D1.0540.98
16_G26_Q1.0380.98
12_F30_T1.0130.98
14_I17_V0.8770.94
46_E51_L0.8620.94
12_F41_F0.8540.94
19_H32_A0.7970.91
22_I25_K0.7940.91
45_D49_E0.7900.91
41_F48_Y0.7660.89
33_F50_A0.7660.89
23_L51_L0.7660.89
8_L39_E0.7610.89
35_V51_L0.7610.89
6_K27_G0.7330.87
15_L22_I0.7280.87
14_I22_I0.7260.87
8_L42_T0.7150.86
20_D46_E0.6980.84
44_S52_H0.6930.84
26_Q36_E0.6900.84
8_L49_E0.6880.84
15_L26_Q0.6810.83
7_N36_E0.6770.83
17_V33_F0.6560.81
13_P38_P0.6560.81
16_G48_Y0.6470.80
10_D36_E0.6410.79
23_L28_D0.6400.79
11_I36_E0.6400.79
39_E42_T0.6380.79
7_N20_D0.6300.78
19_H26_Q0.6300.78
15_L41_F0.6250.77
40_I49_E0.6250.77
13_P37_L0.6180.77
21_C50_A0.6180.77
18_E39_E0.5830.72
40_I52_H0.5740.71
19_H50_A0.5730.71
16_G25_K0.5670.70
8_L22_I0.5480.68
26_Q34_E0.5460.67
37_L47_E0.5380.66
16_G37_L0.5110.62
33_F40_I0.5110.62
17_V50_A0.5090.62
7_N11_I0.5000.61
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  
4lb8A 2 0.9811 17.7 0.854 Contact Map
2x8kA 5 0.717 14.1 0.86 Contact Map
2iw2A 2 0.8113 5.4 0.884 Contact Map
3cmqA 1 0.9245 5 0.886 Contact Map
1r0vA 2 0.9811 4.7 0.888 Contact Map
1nltA 1 0.6226 4.4 0.889 Contact Map
3mx6A 1 0.8113 4.3 0.89 Contact Map
2rhqB 2 0.8679 4 0.892 Contact Map
4qxzA 2 0.9434 3.7 0.893 Contact Map
3s1sA 1 0.9811 3.7 0.894 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 0.004 seconds.