GREMLIN Database
DUF3560 - Domain of unknown function (DUF3560)
PFAM: PF12083 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 124 (120)
Sequences: 2185 (1826)
Seq/√Len: 166.7
META: 0.886

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
54_H58_R3.4581.00
62_D66_R3.0561.00
51_E55_R3.0391.00
23_E71_A2.8411.00
34_I57_D2.3811.00
47_G51_E2.2931.00
42_Q45_L2.2901.00
35_A61_I2.2681.00
28_Y68_A2.1991.00
30_A64_A2.1771.00
21_E79_E2.0601.00
56_R59_E2.0421.00
27_A64_A1.9701.00
20_A74_K1.9501.00
114_E118_A1.7591.00
14_E86_E1.7401.00
54_H57_D1.7381.00
95_D101_R1.7311.00
59_E63_N1.7191.00
29_E33_E1.6721.00
20_A71_A1.5931.00
63_N66_R1.5661.00
16_Y78_Y1.5621.00
16_Y19_K1.5411.00
65_M69_V1.5381.00
44_I51_E1.4601.00
37_F57_D1.4181.00
16_Y20_A1.4121.00
13_L81_R1.4061.00
30_A33_E1.3981.00
13_L78_Y1.3661.00
32_R36_D1.3451.00
12_R16_Y1.3351.00
57_D61_I1.2731.00
20_A23_E1.2691.00
6_A10_A1.2571.00
73_E76_E1.2571.00
52_R56_R1.2481.00
77_Y80_R1.2061.00
113_Q116_M1.1951.00
34_I64_A1.1821.00
33_E36_D1.1561.00
34_I61_I1.1551.00
110_E114_E1.1491.00
59_E62_D1.1421.00
116_M119_G1.1401.00
15_E19_K1.1191.00
61_I64_A1.1101.00
97_E101_R1.1031.00
4_E8_A1.1021.00
46_V55_R1.1011.00
56_R60_R1.0961.00
46_V51_E1.0931.00
70_E73_E1.0620.99
31_A61_I1.0550.99
13_L16_Y1.0400.99
38_I42_Q1.0350.99
52_R59_E1.0260.99
31_A65_M1.0200.99
53_R57_D1.0190.99
66_R69_V1.0090.99
98_A101_R1.0070.99
68_A72_S0.9940.99
115_R119_G0.9810.99
10_A86_E0.9800.99
20_A78_Y0.9460.99
27_A67_K0.9420.99
105_K108_A0.9410.99
106_L109_L0.9400.99
27_A71_A0.9390.99
76_E80_R0.9370.99
10_A85_A0.9290.99
23_E27_A0.9270.99
25_E29_E0.9170.98
74_K78_Y0.9160.98
66_R70_E0.9130.98
114_E117_K0.9010.98
72_S76_E0.8930.98
69_V72_S0.8820.98
108_A112_K0.8810.98
77_Y81_R0.8810.98
7_E11_E0.8750.98
19_K23_E0.8710.98
34_I37_F0.8680.98
24_A72_S0.8660.98
19_K22_A0.8630.98
29_E32_R0.8560.98
13_L77_Y0.8510.97
105_K109_L0.8440.97
9_R85_A0.8320.97
28_Y32_R0.8310.97
58_R62_D0.8310.97
38_I45_L0.8210.97
45_L51_E0.8190.97
21_E75_A0.8170.97
36_D39_P0.8120.97
48_H51_E0.8060.97
57_D64_A0.7970.96
31_A64_A0.7960.96
69_V73_E0.7890.96
24_A28_Y0.7820.96
32_R35_A0.7810.96
78_Y81_R0.7810.96
111_R115_R0.7780.96
27_A30_A0.7750.96
2_Y92_S0.7730.96
35_A40_F0.7710.96
24_A68_A0.7700.95
44_I55_R0.7610.95
2_Y6_A0.7490.95
86_E89_A0.7450.95
107_E110_E0.7410.94
118_A121_K0.7400.94
19_K78_Y0.7340.94
99_I103_I0.7330.94
67_K70_E0.7270.94
13_L74_K0.7030.93
95_D98_A0.6870.92
5_R8_A0.6860.92
109_L113_Q0.6830.92
30_A34_I0.6800.91
103_I107_E0.6770.91
85_A88_N0.6670.91
45_L55_R0.6670.91
10_A14_E0.6650.91
31_A62_D0.6630.90
38_I54_H0.6590.90
34_I54_H0.6580.90
58_R61_I0.6540.90
37_F54_H0.6530.90
74_K77_Y0.6490.90
23_E26_A0.6480.89
17_A75_A0.6400.89
6_A89_A0.6370.89
107_E111_R0.6360.89
116_M120_N0.6340.88
57_D60_R0.6330.88
44_I48_H0.6290.88
45_L48_H0.6270.88
44_I54_H0.6250.88
99_I106_L0.6240.88
6_A85_A0.6230.88
10_A89_A0.6220.87
110_E113_Q0.6190.87
79_E83_A0.6190.87
88_N92_S0.6190.87
23_E74_K0.6180.87
44_I47_G0.6130.87
76_E79_E0.6120.87
85_A89_A0.6010.86
62_D65_M0.5990.85
64_A67_K0.5950.85
112_K116_M0.5900.85
17_A82_A0.5860.84
6_A9_R0.5820.84
47_G55_R0.5800.84
17_A79_E0.5770.83
7_E10_A0.5730.83
6_A88_N0.5730.83
21_E72_S0.5720.83
38_I58_R0.5670.82
45_L50_S0.5670.82
33_E37_F0.5630.82
83_A87_R0.5480.80
53_R56_R0.5460.80
11_E14_E0.5440.80
71_A74_K0.5430.79
112_K115_R0.5380.79
36_D61_I0.5340.78
46_V50_S0.5320.78
80_R83_A0.5320.78
26_A30_A0.5310.78
44_I49_H0.5300.78
39_P61_I0.5200.76
28_Y65_M0.5190.76
84_A88_N0.5180.76
93_S102_L0.5160.76
34_I60_R0.5130.75
113_Q117_K0.5030.74
14_E79_E0.5000.74
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  
3zqeA 1 0.4274 4.1 0.934 Contact Map
3ioxA 1 0.4355 3 0.939 Contact Map
3fb2A 1 0.5323 2.7 0.94 Contact Map
2nutC 1 0.0323 2.4 0.941 Contact Map
2uw1A 2 0.371 2.4 0.941 Contact Map
5bv0C 1 0.1613 2.2 0.942 Contact Map
2q2fA 2 0.4032 2.1 0.944 Contact Map
2l2lA 1 0.25 2.1 0.944 Contact Map
1sfcA 1 0.4355 1.9 0.944 Contact Map
1urqA 1 0.3065 1.7 0.946 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.

Page generated in 0.0056 seconds.