GREMLIN Database
DUF3874 - Domain of unknonw function from B. Theta Gene description (DUF3874)
PFAM: PF12990 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 71 (68)
Sequences: 1072 (808)
Seq/√Len: 98.0
META: 0.906

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
13_R19_E3.7811.00
62_H66_G2.7901.00
62_H67_N2.6261.00
12_F32_R2.5921.00
8_F49_L2.5591.00
30_L49_L2.4091.00
11_C37_Y2.2971.00
59_E70_L2.2911.00
7_L37_Y1.9031.00
48_K51_R1.8021.00
12_F24_L1.7551.00
7_L38_P1.5871.00
30_L41_L1.5351.00
8_F58_F1.4911.00
8_F53_L1.4561.00
61_K68_V1.4000.99
65_R68_V1.3980.99
28_E31_E1.3780.99
39_I44_S1.3640.99
24_L32_R1.3220.99
39_I42_S1.3010.99
8_F52_A1.2950.99
54_K60_R1.2920.99
25_S28_E1.2760.99
15_P58_F1.2300.99
5_E52_A1.2020.98
4_E33_L1.2000.98
11_C33_L1.1660.98
11_C32_R1.1540.98
28_E68_V1.0530.96
29_I53_L1.0520.96
34_Q40_K1.0510.96
43_H47_V1.0430.96
31_E34_Q1.0320.96
49_L58_F0.9740.94
5_E55_K0.9620.94
39_I54_K0.9430.93
21_G32_R0.9120.92
42_S54_K0.8900.91
26_A46_K0.8840.91
63_T68_V0.8790.91
61_K67_N0.8700.90
23_W29_I0.8450.89
14_K58_F0.8350.88
23_W70_L0.8310.88
63_T66_G0.8290.88
4_E10_A0.8230.88
6_E27_T0.8170.87
15_P19_E0.8120.87
8_F12_F0.8000.86
16_E21_G0.7840.85
47_V50_G0.7720.84
17_E20_E0.7520.83
23_W61_K0.7480.82
13_R18_G0.7440.82
45_T55_K0.7400.82
39_I55_K0.7260.80
9_L56_L0.6940.77
36_K44_S0.6720.75
41_L45_T0.6670.74
12_F69_Y0.6670.74
7_L11_C0.6650.74
18_G59_E0.6530.73
4_E27_T0.6530.73
47_V65_R0.6480.72
5_E53_L0.6420.72
22_E68_V0.6390.71
18_G35_K0.6340.71
14_K59_E0.6320.70
14_K19_E0.6270.70
47_V58_F0.6260.70
3_P16_E0.6250.70
6_E46_K0.6230.69
10_A27_T0.6200.69
3_P6_E0.6190.69
53_L67_N0.6150.68
15_P59_E0.6090.68
31_E47_V0.6080.67
44_S47_V0.6000.66
15_P18_G0.5990.66
52_A55_K0.5960.66
63_T67_N0.5940.66
33_L41_L0.5930.66
4_E43_H0.5920.65
23_W28_E0.5760.63
13_R16_E0.5750.63
16_E36_K0.5720.63
45_T48_K0.5670.62
6_E59_E0.5580.61
3_P31_E0.5540.60
34_Q45_T0.5520.60
30_L56_L0.5460.59
17_E22_E0.5420.59
3_P14_K0.5380.58
25_S60_R0.5370.58
10_A28_E0.5360.58
21_G29_I0.5310.57
4_E7_L0.5160.55
9_L55_K0.5130.55
3_P17_E0.5090.54
27_T32_R0.5070.54
13_R70_L0.5000.53
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  
1nhaA 1 0.8873 49.8 0.823 Contact Map
1i27A 1 0.8873 48.6 0.824 Contact Map
3lapA 6 0.8028 29.3 0.844 Contact Map
4mtdA 2 0.9014 28 0.846 Contact Map
3zqjA 1 0.9859 27.3 0.846 Contact Map
3mwmA 2 0.9155 26.9 0.847 Contact Map
3pihA 2 0.5493 23.8 0.851 Contact Map
2o4cA 2 0.8592 21.4 0.854 Contact Map
1mzbA 4 0.9155 20.7 0.855 Contact Map
2r6fA 2 0.5493 20.7 0.855 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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