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ID: 1516996090 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 109 (105)
Sequences: 31428 (20741.7)
Seq/Len: 299.314
Nf(neff/√len): 2024.2

HHblits Results: (2016_02)
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: 299.314).

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 > 75% 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
87_V90_T2.2061.00
49_E101_K2.2011.00
24_I55_T2.0941.00
89_A103_F2.0671.00
61_I68_A2.0611.00
33_C36_C2.0461.00
45_E97_K2.0011.00
80_L90_T1.9511.00
101_K105_D1.9291.00
22_G55_T1.9191.00
61_I76_I1.8331.00
29_W58_K1.8011.00
103_F107_N1.7371.00
40_A58_K1.7281.00
14_D70_K1.7091.00
80_L87_V1.6531.00
10_D66_G1.6011.00
8_L57_A1.6001.00
50_Y105_D1.5861.00
39_I79_L1.5821.00
25_L79_L1.5301.00
50_Y101_K1.5101.00
12_S16_D1.5031.00
24_I57_A1.4981.00
27_D58_K1.4951.00
71_Y82_F1.4771.00
96_S99_Q1.4621.00
83_K88_A1.4101.00
82_F87_V1.3920.99
83_K86_E1.3650.99
10_D67_T1.3590.99
23_A81_L1.3540.99
27_D79_L1.3530.99
38_M94_A1.3460.99
42_I97_K1.3310.99
9_T12_S1.3200.99
97_K101_K1.3200.99
23_A83_K1.2950.99
31_E60_N1.2940.99
103_F106_A1.2800.99
26_V82_F1.2280.98
49_E97_K1.2190.98
73_I78_T1.1910.98
42_I45_E1.1880.98
10_D64_N1.1780.98
16_D55_T1.1540.97
95_L99_Q1.1480.97
27_D39_I1.1250.97
91_K95_L1.1190.96
99_Q102_E1.1130.96
81_L107_N1.1120.96
4_K48_D1.0930.96
27_D40_A1.0930.96
25_L43_L1.0870.96
78_T90_T1.0860.96
35_P38_M1.0820.96
44_D48_D1.0770.95
91_K103_F1.0760.95
30_A76_I1.0720.95
60_N63_Q1.0480.94
89_A107_N1.0140.93
102_E106_A1.0090.93
28_F71_Y1.0060.93
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  
3f8uA20.972599.7-0.011Contact Map
4kcaA20.963399.7-0.001Contact Map
2r2jA10.94599.7-0.001Contact Map
3apoA10.917499.70.013Contact Map
2b5eA10.990899.70.019Contact Map
1thxA10.990899.70.041Contact Map
4kcbA2099.70.042Contact Map
2o8vB10.990899.70.042Contact Map
4ekzA10.990899.70.047Contact Map
3ed3A2199.70.05Contact 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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