GREMLIN Database
DUF1854 - Domain of unknown function (DUF1854)
PFAM: PF08909 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 131 (129)
Sequences: 3832 (2806)
Seq/√Len: 247.1
META: 0.936

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
43_R47_E3.4811.00
63_L77_E3.2531.00
14_A17_E2.9821.00
121_D124_S2.9601.00
39_P42_S2.9181.00
61_R77_E2.7411.00
75_E82_P2.6691.00
76_V85_F2.5541.00
63_L82_P2.5461.00
17_E34_D2.5451.00
6_P21_L2.5431.00
34_D37_D2.5431.00
75_E84_R2.5231.00
116_D119_A2.4881.00
58_E115_P2.3781.00
16_D47_E2.3731.00
77_E82_P2.3521.00
60_T77_E2.2881.00
100_G116_D2.1861.00
44_A48_E2.0491.00
63_L75_E1.9621.00
16_D36_A1.9021.00
40_P44_A1.9021.00
23_D27_K1.8241.00
73_T86_V1.8111.00
64_S75_E1.8071.00
101_R113_L1.7701.00
100_G118_R1.7481.00
20_S28_E1.7341.00
38_L46_L1.5511.00
78_T81_G1.4991.00
61_R121_D1.4451.00
18_Y31_W1.4331.00
6_P46_L1.4281.00
33_E37_D1.4271.00
67_E72_S1.4161.00
42_S45_L1.4161.00
59_I76_V1.4011.00
21_L32_I1.3911.00
41_E44_A1.3751.00
6_P19_I1.3651.00
49_E52_R1.3551.00
9_A31_W1.3081.00
73_T84_R1.3061.00
44_A47_E1.2651.00
123_K127_L1.2291.00
58_E113_L1.2121.00
88_R93_D1.1631.00
17_E33_E1.1491.00
89_G92_E1.1471.00
3_G24_A1.1251.00
105_T111_R1.0841.00
32_I37_D1.0701.00
60_T79_D1.0571.00
35_L46_L1.0291.00
87_L104_I1.0271.00
61_R124_S0.9831.00
58_E79_D0.9771.00
125_R129_E0.9711.00
62_I127_L0.9671.00
64_S127_L0.9621.00
83_T108_D0.9441.00
68_E73_T0.9401.00
7_V22_R0.9391.00
74_W85_F0.9351.00
8_R50_L0.9131.00
45_L48_E0.9071.00
71_P86_V0.9021.00
98_G101_R0.8941.00
97_L103_L0.8851.00
23_D29_L0.8811.00
32_I38_L0.8791.00
57_P79_D0.8730.99
40_P43_R0.8560.99
40_P47_E0.8360.99
76_V83_T0.8340.99
5_V26_G0.8300.99
45_L49_E0.8270.99
74_W87_L0.8080.99
60_T63_L0.8060.99
106_D110_N0.7920.99
56_V113_L0.7870.99
65_V127_L0.7830.99
100_G117_L0.7740.99
106_D113_L0.7720.99
56_V106_D0.7710.99
72_S91_E0.7680.99
49_E53_R0.7680.99
2_E5_V0.7580.99
62_I128_L0.7580.99
57_P80_R0.7490.98
70_G86_V0.7460.98
104_I114_I0.7280.98
62_I124_S0.7260.98
38_L42_S0.7190.98
19_I50_L0.7160.98
117_L125_R0.7140.98
106_D129_E0.7040.98
54_Y110_N0.7020.98
102_L114_I0.6990.98
23_D26_G0.6960.97
101_R115_P0.6880.97
21_L29_L0.6870.97
7_V53_R0.6860.97
88_R107_V0.6850.97
12_I111_R0.6750.97
106_D112_Y0.6660.97
60_T82_P0.6630.97
35_L43_R0.6630.97
2_E24_A0.6540.96
88_R91_E0.6530.96
59_I112_Y0.6500.96
67_E93_D0.6480.96
114_I117_L0.6440.96
26_G80_R0.6400.96
9_A15_P0.6390.96
8_R16_D0.6380.96
48_E52_R0.6270.95
47_E51_A0.6230.95
85_F107_V0.6170.95
18_Y33_E0.6100.95
69_F107_V0.6060.94
9_A18_Y0.6040.94
125_R128_L0.6040.94
56_V129_E0.6030.94
16_D34_D0.6030.94
73_T99_D0.6010.94
123_K126_R0.5990.94
126_R129_E0.5990.94
122_R125_R0.5970.94
95_R128_L0.5940.94
56_V103_L0.5920.94
122_R127_L0.5890.94
18_Y22_R0.5880.94
94_I128_L0.5860.93
68_E89_G0.5860.93
75_E85_F0.5850.93
35_L38_L0.5820.93
44_A119_A0.5790.93
31_W54_Y0.5780.93
87_L96_R0.5770.93
72_S89_G0.5750.93
87_L94_I0.5700.93
51_A79_D0.5680.92
8_R19_I0.5660.92
96_R102_L0.5650.92
83_T87_L0.5630.92
68_E127_L0.5630.92
56_V69_F0.5630.92
84_R107_V0.5620.92
101_R117_L0.5620.92
88_R101_R0.5610.92
53_R109_G0.5610.92
4_V85_F0.5610.92
65_V70_G0.5590.92
10_F13_S0.5590.92
87_L109_G0.5560.92
53_R86_V0.5550.91
56_V68_E0.5540.91
31_W66_S0.5490.91
93_D129_E0.5490.91
66_S73_T0.5480.91
55_F113_L0.5470.91
91_E108_D0.5420.91
74_W104_I0.5390.90
41_E47_E0.5350.90
67_E89_G0.5330.90
39_P43_R0.5310.90
49_E56_V0.5300.90
6_P49_E0.5290.89
87_L91_E0.5260.89
87_L102_L0.5240.89
12_I22_R0.5240.89
69_F110_N0.5230.89
46_L89_G0.5230.89
59_I85_F0.5220.89
52_R110_N0.5220.89
99_D117_L0.5200.89
86_V107_V0.5180.88
101_R111_R0.5180.88
1_H29_L0.5180.88
35_L47_E0.5150.88
65_V74_W0.5130.88
58_E122_R0.5130.88
24_A33_E0.5120.88
74_W81_G0.5120.88
34_D42_S0.5100.88
54_Y91_E0.5100.88
87_L95_R0.5100.88
99_D111_R0.5060.87
2_E6_P0.5060.87
117_L120_L0.5030.87
54_Y70_G0.5030.87
14_A18_Y0.5000.87
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  
3pgvA 3 0.2366 27.1 0.923 Contact Map
3pcoA 2 0.6489 17.3 0.93 Contact Map
3daoA 1 0.313 16.3 0.931 Contact Map
4p72C 2 0.6489 10.9 0.936 Contact Map
3u1wA 3 0.8626 10.1 0.937 Contact Map
1b7yA 2 0.7099 8.5 0.939 Contact Map
1xy7A 2 0.2519 8.2 0.94 Contact Map
3itwA 4 0.313 6.1 0.943 Contact Map
2qvwA 3 0.5038 5.6 0.944 Contact Map
1xmkA 1 0.5344 4.5 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.

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