GREMLIN Database
DUF2388 - Protein of unknown function (DUF2388)
PFAM: PF09498 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 70 (69)
Sequences: 878 (394)
Seq/√Len: 47.4
META: 0.517

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
31_F39_R3.1811.00
39_R44_E3.0921.00
30_S38_I2.9601.00
2_A6_D2.4371.00
9_S12_T2.3581.00
29_A69_L2.0180.99
34_S38_I1.9580.99
6_D10_S1.9010.99
11_T15_S1.8750.99
3_S7_A1.7690.99
6_D9_S1.7450.98
3_S11_T1.6780.98
12_T15_S1.6720.98
3_S6_D1.5950.97
5_G10_S1.5870.97
2_A5_G1.5260.96
24_A46_A1.4820.96
7_A11_T1.3130.92
41_A48_R1.2830.91
61_D64_L1.2300.89
39_R61_D1.2270.89
43_L50_L1.2210.89
26_D40_G1.1920.87
3_S10_S1.1660.86
5_G8_T1.1400.85
32_V67_A1.1240.84
12_T16_R1.0820.82
7_A10_S1.0700.81
32_V43_L1.0630.81
47_L62_L1.0140.77
35_D66_Q1.0030.77
50_L55_P0.9960.76
6_D11_T0.9780.75
23_A42_R0.9770.75
18_D49_H0.9710.74
11_T16_R0.9570.73
45_A69_L0.9450.72
6_D16_R0.9430.72
64_L67_A0.9360.71
28_A43_L0.9330.71
4_S13_S0.9250.71
8_T16_R0.9230.70
28_A40_G0.8990.68
54_N57_L0.8880.67
39_R59_A0.8750.66
30_S37_A0.8720.66
5_G58_Q0.8600.65
12_T29_A0.8500.64
7_A12_T0.8450.63
60_S63_E0.8440.63
46_A68_I0.8400.63
47_L61_D0.8400.63
44_E48_R0.8370.63
48_R52_Q0.8320.62
6_D15_S0.8240.62
51_R68_I0.8210.61
4_S70_A0.8200.61
43_L47_L0.8190.61
26_D62_L0.7840.58
59_A63_E0.7750.57
43_L59_A0.7710.56
24_A29_A0.7670.56
4_S33_A0.7560.55
28_A50_L0.7390.53
26_D67_A0.7250.52
8_T20_L0.7040.50
41_A66_Q0.7020.50
19_K50_L0.6950.49
60_S66_Q0.6940.49
14_S54_N0.6880.48
7_A15_S0.6870.48
29_A50_L0.6870.48
37_A59_A0.6860.48
49_H53_Q0.6750.47
51_R64_L0.6720.47
42_R48_R0.6700.46
32_V68_I0.6680.46
51_R61_D0.6570.45
15_S70_A0.6530.45
23_A32_V0.6370.43
41_A62_L0.6350.43
13_S49_H0.6260.42
25_R46_A0.6120.41
49_H63_E0.6100.40
4_S27_D0.6090.40
29_A45_A0.6060.40
5_G11_T0.5990.39
2_A48_R0.5940.39
40_G44_E0.5850.38
2_A7_A0.5810.38
22_L53_Q0.5740.37
47_L51_R0.5660.36
46_A70_A0.5480.35
19_K69_L0.5460.35
4_S9_S0.5380.34
65_A68_I0.5380.34
8_T17_D0.5330.33
35_D56_Q0.5310.33
20_L49_H0.5270.33
30_S40_G0.5200.32
14_S18_D0.5080.31
11_T14_S0.5070.31
62_L66_Q0.5010.31
8_T13_S0.5000.30
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  
1vq0A 2 0.6714 22 0.87 Contact Map
1vzyA 3 0.6571 18.8 0.873 Contact Map
1i7fA 2 0.6571 18.3 0.874 Contact Map
1hw7A 2 0.6571 16.2 0.877 Contact Map
3iwfA 2 0.4 6.5 0.898 Contact Map
2o3fA 1 0.3857 5.9 0.899 Contact Map
4ivnA 2 0.3714 3.6 0.909 Contact Map
2m6yA 1 0.8571 2.8 0.914 Contact Map
1wwpA 2 0.4143 2.8 0.914 Contact Map
3vu1A 2 0.3857 2.8 0.914 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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