GREMLIN Database
DUF4099 - Protein of unknown function (DUF4099)
PFAM: PF13351 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 82 (80)
Sequences: 1249 (837)
Seq/√Len: 93.5
META: 0.861

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
5_E60_R3.3331.00
30_L36_T3.2371.00
26_D37_P3.1401.00
61_D65_K3.1211.00
9_E12_E3.0771.00
57_S71_H2.7201.00
60_R66_V2.1691.00
2_D5_E2.1551.00
7_P10_Q1.8081.00
42_S51_R1.7411.00
30_L56_L1.7341.00
17_S20_M1.6871.00
11_L58_L1.6861.00
29_A34_R1.6811.00
41_I54_A1.6191.00
1_F33_G1.5601.00
36_T58_L1.5381.00
40_P53_D1.5271.00
44_K49_T1.3920.99
8_W21_L1.3890.99
18_R22_E1.3490.99
7_P65_K1.3430.99
22_E27_L1.2840.99
5_E66_V1.2720.99
19_E22_E1.2250.98
35_K57_S1.1920.98
3_E6_I1.1850.98
26_D29_A1.1820.98
29_A32_N1.1810.98
8_W18_R1.1570.98
48_E52_T1.1440.97
36_T47_G1.1400.97
13_K48_E1.1120.97
35_K55_R1.0890.97
33_G72_P1.0860.97
42_S49_T1.0770.96
11_L68_L1.0670.96
1_F5_E1.0630.96
8_W35_K1.0130.95
30_L58_L1.0130.95
1_F66_V1.0000.95
12_E17_S0.9820.94
16_L21_L0.9700.94
35_K71_H0.9680.93
19_E23_K0.9600.93
20_M39_L0.9520.93
38_L55_R0.9350.92
16_L20_M0.9120.91
27_L31_L0.8850.90
58_L68_L0.8820.90
61_D67_V0.8780.90
71_H74_R0.8710.89
45_L50_I0.8690.89
47_G56_L0.8460.88
8_W25_G0.8250.87
33_G66_V0.8240.87
33_G60_R0.7910.84
25_G29_A0.7720.83
74_R77_P0.7690.82
41_I51_R0.7590.82
40_P51_R0.7590.82
58_L66_V0.7550.81
11_L22_E0.7420.80
6_I31_L0.7270.79
28_D67_V0.7270.79
37_P40_P0.7200.78
26_D39_L0.7160.78
24_S28_D0.7150.78
71_H77_P0.7100.77
27_L49_T0.6990.76
17_S37_P0.6950.76
44_K47_G0.6910.75
43_I55_R0.6900.75
28_D69_A0.6820.74
50_I76_E0.6790.74
31_L71_H0.6740.73
10_Q16_L0.6680.73
1_F60_R0.6650.72
41_I52_T0.6640.72
57_S64_G0.6570.72
20_M40_P0.6550.71
29_A33_G0.6500.71
39_L78_E0.6440.70
39_L43_I0.6410.70
53_D57_S0.6390.69
14_L33_G0.6340.69
5_E36_T0.6340.69
11_L79_L0.6270.68
56_L68_L0.6170.67
68_L71_H0.6140.66
43_I52_T0.6130.66
13_K49_T0.6130.66
10_Q52_T0.6010.65
9_E13_K0.6000.65
10_Q68_L0.5920.64
43_I51_R0.5910.63
13_K69_A0.5860.63
28_D48_E0.5860.63
21_L24_S0.5850.63
64_G71_H0.5760.61
14_L55_R0.5740.61
25_G62_E0.5740.61
14_L70_I0.5610.59
50_I68_L0.5470.58
9_E42_S0.5360.56
9_E50_I0.5350.56
63_D67_V0.5300.55
35_K38_L0.5270.55
52_T55_R0.5270.55
67_V72_P0.5250.55
30_L68_L0.5210.54
15_G36_T0.5190.54
6_I34_R0.5140.53
69_A72_P0.5130.53
8_W22_E0.5080.52
24_S64_G0.5070.52
51_R59_R0.5060.52
10_Q40_P0.5040.52
54_A77_P0.5030.51
11_L66_V0.5000.51
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  
1khyA 1 0.3415 8.9 0.887 Contact Map
1t62A 2 0.9878 5.9 0.896 Contact Map
3rh7A 2 0.4024 5.8 0.896 Contact Map
2rr8A 1 0.3902 5.2 0.899 Contact Map
4irfA 1 0.3902 4.7 0.9 Contact Map
1x40A 1 0.5488 4.7 0.9 Contact Map
1q87A 1 0.8659 4.7 0.9 Contact Map
4ylfA 1 0.378 4.7 0.9 Contact Map
4bedB 3 1 4.5 0.902 Contact Map
4tp9L 1 0.0244 4.4 0.902 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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