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DUF115

ID: 1517323768 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 50% gaps before running GREMLIN.
Length: 181 (148)
Sequences: 545 (388.4)
Seq/Len: 3.682
Nf(neff/√len): 31.9

Jackhmmer Results: (2016_04)
Sequences per length for each position, BEFORE the coverage/gap filter was applied

Legend: Dots above the red line, indicates positions where there is > 5 sequences per length (if visible, green bar = 20 seq/len). Point of this graphic is to give you an idea if resubmitting a sub-portion of your sequence might help increase the overall Seq/Len (which after applying the coverage filter is at: 3.682).

Sequences per length for each position, AFTER the coverage/gap filter was applied
Legend: If visible, the positions blocked in grey are regions that have > 50% gaps and were automatically trimmed and excluded in the GREMLIN analysis.

Trim query Generate MSA using: Filter MSA GREMLIN
Start: End: E-value: Iterations: Coverage: Remove gaps: Prior:

GREMLIN Results:
Residue pairs sorted by coevolution strength:

Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] covarying residues with sequence seperation > 3. The i and j are positions as given in the input sequence.

ij Scaled score Prob
39_I55_I2.5701.00
24_L50_R2.5691.00
52_K143_S2.4201.00
15_F19_I2.2201.00
5_I39_I2.2071.00
53_R57_R2.0471.00
60_K63_E1.9961.00
20_N23_Q1.8451.00
26_L41_V1.8330.99
54_L58_R1.7400.99
52_K140_L1.7180.99
3_I52_K1.7060.99
29_V168_Y1.6860.99
19_I22_Q1.6680.99
20_N54_L1.6410.99
3_I48_I1.4450.96
159_A168_Y1.3570.94
10_N63_E1.3550.94
12_K16_K1.3380.93
36_Y141_I1.3030.92
165_V178_F1.2810.91
146_V150_N1.2610.91
26_L43_G1.2540.90
170_Q175_L1.2520.90
118_T121_D1.2290.89
69_E72_D1.2220.89
31_V169_L1.2210.89
17_I55_I1.2140.88
164_E168_Y1.2040.88
18_D22_Q1.2010.87
168_Y172_H1.1960.87
37_N44_K1.1940.87
4_Y36_Y1.1900.87
170_Q176_H1.1900.87
27_T42_E1.1800.86
54_L59_I1.1650.85
14_I159_A1.1620.85
16_K20_N1.1590.85
13_H34_V1.1550.85
37_N40_I1.1420.84
157_I167_D1.1370.83
15_F51_Y1.1360.83
115_N119_Q1.1340.83
73_D108_D1.1250.82
33_T36_Y1.1210.82
20_N59_I1.1150.82
55_I138_C1.1110.81
73_D110_S1.1100.81
38_F169_L1.1070.81
107_A110_S1.1060.81
73_D109_T1.1040.81
27_T149_K1.1040.81
71_E110_S1.0920.80
44_K47_S1.0920.80
26_L48_I1.0910.80
40_I169_L1.0880.79
73_D107_A1.0830.79
14_I163_M1.0800.79
18_D154_W1.0780.78
12_K18_D1.0630.77
110_S117_D1.0590.77
41_V51_Y1.0590.77
110_S113_K1.0590.77
23_Q54_L1.0580.77
157_I160_K1.0570.77
26_L47_S1.0550.76
15_F54_L1.0550.76
10_N30_C1.0540.76
112_I115_N1.0470.76
5_I17_I1.0430.75
4_Y35_L1.0400.75
17_I138_C1.0280.74
70_E73_D1.0220.73
70_E110_S1.0200.73
140_L180_I1.0170.73
72_D109_T1.0120.72
33_T162_E1.0110.72
16_K59_I1.0080.72
15_F50_R1.0020.71
Legend: Only predictions with Scaled Score > 1 are listed. For all 3L/2 predictions, click on one of the links below.
Prob = P(contact | scaled_score, seq/len).
Scaled Score = (raw_score/average(raw_scores)).
NEW Features
HHsearch Results: (06Aug15)
GREMLIN results overlayed on top 10 PDB hits:
Legend: Blue filled circles are GREMLIN results (Scaled Score > 1). The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on 10 HHsearch results which uses the overall probability and per-position alignment confidence. Inter oligomeric contacts in the pdb are in shades of red.
PDB M Cov P(%) HHΔ  
4yhvA101000.22Contact Map
4yhuA301000.225Contact Map
1x0pA100.591294.50.886Contact Map
2hfnA100.591294.50.886Contact Map
2iygA20.535994.10.888Contact Map
4hh0A20.591292.80.893Contact Map
1yrxA30.580192.20.895Contact Map
2bycA20.585688.80.903Contact Map
1urrA10.475178.90.915Contact Map
1apsA10.475174.20.918Contact Map
M = number of chains, if homo-oligomer
Cov = coverage of hit
P(%) = probability

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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