GREMLIN Database
DUF3873 - Domain of unknown function, B. Theta Gene description (DUF3873)
PFAM: PF12989 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 68 (64)
Sequences: 519 (330)
Seq/√Len: 41.2
META: 0.929

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
50_A59_K4.0131.00
21_T34_Y3.0481.00
4_T8_V2.7061.00
50_A56_C2.2731.00
26_H29_K1.9750.99
22_F49_V1.9420.99
44_E67_K1.9270.99
37_D47_S1.8190.98
3_M8_V1.7910.98
11_C18_Q1.7770.98
58_E62_E1.7510.98
17_E36_Y1.6260.96
4_T11_C1.5320.95
42_D67_K1.5210.94
37_D45_L1.4860.94
13_T16_Q1.4500.93
53_L56_C1.3990.91
52_T56_C1.3980.91
26_H31_K1.2200.85
11_C14_P1.2110.84
17_E46_F1.1980.84
10_T18_Q1.1680.82
4_T18_Q1.1620.82
36_Y46_F1.1580.81
21_T32_K1.1420.81
3_M20_E1.1140.79
19_Y53_L1.0970.78
34_Y56_C1.0930.77
24_S33_Y1.0740.76
3_M56_C1.0620.75
55_E58_E1.0540.75
40_H64_L1.0480.74
52_T55_E1.0280.73
5_K8_V0.9930.70
62_E66_K0.9580.68
59_K62_E0.9440.66
55_E59_K0.9430.66
6_N52_T0.9400.66
33_Y49_V0.9300.65
13_T40_H0.9210.64
35_Q47_S0.9080.63
22_F33_Y0.9030.63
4_T20_E0.8900.62
57_R61_D0.8760.61
24_S29_K0.8760.61
3_M10_T0.8570.59
35_Q39_R0.8480.58
23_T33_Y0.8160.55
54_E58_E0.8060.54
14_P18_Q0.8000.54
57_R60_R0.7980.53
23_T27_R0.7850.52
13_T21_T0.7840.52
8_V20_E0.7840.52
39_R45_L0.7830.52
37_D63_W0.7510.49
25_G29_K0.7410.48
41_T54_E0.7330.47
41_T64_L0.7250.47
16_Q33_Y0.7010.44
40_H67_K0.7000.44
10_T16_Q0.6970.44
23_T32_K0.6940.44
26_H65_K0.6780.42
5_K55_E0.6760.42
30_R58_E0.6680.41
3_M11_C0.6600.41
38_Y41_T0.6590.41
23_T26_H0.6460.39
9_S35_Q0.6360.39
54_E65_K0.6340.38
17_E57_R0.6310.38
7_G37_D0.6130.37
44_E66_K0.6020.36
35_Q49_V0.5970.35
22_F27_R0.5870.34
20_E45_L0.5690.33
4_T10_T0.5560.32
36_Y48_C0.5520.31
41_T65_K0.5420.31
38_Y51_P0.5400.31
23_T30_R0.5390.30
19_Y27_R0.5350.30
25_G28_R0.5330.30
27_R31_K0.5320.30
25_G30_R0.5320.30
39_R47_S0.5280.30
17_E48_C0.5270.30
31_K51_P0.5230.29
5_K58_E0.5150.29
30_R59_K0.5130.28
38_Y60_R0.5120.28
26_H48_C0.5120.28
20_E49_V0.5080.28
52_T67_K0.5020.28
60_R63_W0.5000.27
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  
3jtzA 2 0.9559 9.8 0.914 Contact Map
3ju0A 1 0.9559 7.1 0.919 Contact Map
3gf8A 1 0.2059 4.8 0.925 Contact Map
2l63A 1 0.4265 2.9 0.933 Contact Map
2iu4A 2 0.5294 2.6 0.935 Contact Map
3c64A 2 0.5588 2.5 0.935 Contact Map
4om7A 2 0.4853 2.4 0.936 Contact Map
3rx6A 2 0.3235 2.1 0.937 Contact Map
3lxrF 1 0.7059 2.1 0.938 Contact Map
1bx7A 1 0.25 2.1 0.938 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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