GREMLIN Database
DUF4006 - Family of unknown function (DUF4006)
PFAM: PF13179 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 65 (65)
Sequences: 690 (378)
Seq/√Len: 46.9
META: 0.897

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_A33_V3.3871.00
30_F34_W3.2661.00
17_M21_T3.0161.00
8_V14_I2.7151.00
14_I18_L2.5701.00
7_S10_G2.4701.00
42_N45_N2.4061.00
51_D54_N2.3441.00
34_W38_V2.2191.00
59_S62_N2.1071.00
61_D64_K1.8440.99
20_A23_L1.7960.99
18_L22_V1.7780.99
14_I17_M1.7520.98
33_V37_G1.6030.97
11_L15_T1.5220.96
26_S30_F1.4030.94
42_N46_F1.3850.94
18_L21_T1.3540.93
32_T36_I1.3260.92
42_N48_D1.2810.91
9_F14_I1.2510.90
49_I52_L1.2500.90
23_L27_I1.2440.89
25_L29_A1.2160.88
55_I58_I1.2060.88
60_T63_A1.2030.88
28_L32_T1.0830.81
50_K54_N0.9920.75
38_V42_N0.9600.73
42_N52_L0.9200.70
38_V41_A0.9020.68
49_I55_I0.8830.67
14_I21_T0.8820.66
7_S15_T0.8730.66
58_I61_D0.8340.62
51_D60_T0.8250.61
58_I62_N0.8180.61
24_L28_L0.8050.59
29_A34_W0.8040.59
52_L55_I0.7940.58
22_V25_L0.7890.58
5_N10_G0.7870.58
22_V26_S0.7790.57
53_N58_I0.7540.54
35_A40_Q0.7520.54
56_K59_S0.7480.54
20_A24_L0.7440.53
9_F18_L0.7310.52
1_M4_T0.7110.50
50_K65_H0.6970.49
15_T19_I0.6930.48
21_T24_L0.6740.46
51_D55_I0.6740.46
31_L56_K0.6710.46
49_I54_N0.6560.45
41_A45_N0.6540.44
49_I53_N0.6520.44
29_A37_G0.6490.44
11_L19_I0.6370.43
2_N5_N0.6300.42
44_T48_D0.6270.42
26_S29_A0.6240.42
24_L27_I0.6120.40
9_F13_G0.6110.40
52_L62_N0.6100.40
43_A46_F0.6070.40
32_T35_A0.6010.39
10_G15_T0.5990.39
20_A28_L0.5970.39
36_I40_Q0.5960.39
30_F49_I0.5940.39
55_I65_H0.5830.38
48_D54_N0.5810.37
22_V37_G0.5750.37
5_N8_V0.5710.37
48_D55_I0.5710.37
37_G41_A0.5700.36
3_N6_R0.5680.36
13_G16_G0.5640.36
1_M6_R0.5620.36
59_S64_K0.5540.35
9_F39_Q0.5410.34
35_A38_V0.5400.34
37_G43_A0.5330.33
46_F52_L0.5270.33
10_G14_I0.5210.32
3_N8_V0.5190.32
40_Q43_A0.5170.32
11_L14_I0.5160.32
30_F35_A0.5100.31
28_L31_L0.5080.31
2_N7_S0.5070.31
23_L32_T0.5050.31
1_M50_K0.5040.31
56_K65_H0.5030.31
50_K53_N0.5010.30
33_V36_I0.5000.30
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  
2e84A 1 0.4308 34 0.874 Contact Map
1z1nX 1 0.3231 22.8 0.884 Contact Map
2x2zA 1 0.1077 8.3 0.905 Contact Map
2yewB 4 0.4769 6.3 0.91 Contact Map
2cvcA 1 0.3385 5.3 0.913 Contact Map
3j0fE 4 0.5077 4.3 0.917 Contact Map
2kluA 1 0.8308 4.3 0.917 Contact Map
4um9B 2 0 4 0.918 Contact Map
3s8fC 1 0.4769 3.7 0.92 Contact Map
1oahA 2 0.2 3.7 0.92 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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