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Adhiron

ID: 1515521190 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 79 (79)
Sequences: 1348 (987.8)
Seq/Len: 17.063
Nf(neff/√len): 111.1

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: 17.063).

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
29_R48_E3.1551.00
58_Y78_P2.6441.00
34_K44_Y2.3781.00
16_E19_K2.3141.00
10_A27_F2.2641.00
42_M61_K2.0761.00
65_K70_F2.0471.00
35_E41_T1.6721.00
32_K46_T1.5981.00
27_F47_L1.5961.00
16_E73_L1.5811.00
10_A45_L1.5771.00
42_M74_Q1.5441.00
12_F73_L1.5401.00
17_H60_A1.5321.00
65_K68_E1.5151.00
63_W70_F1.4871.00
42_M63_W1.4661.00
33_A45_L1.4611.00
5_E64_V1.4431.00
17_H21_E1.3840.99
6_I33_A1.3730.99
47_L60_A1.3350.99
12_F62_V1.2940.99
39_A65_K1.2920.99
33_A58_Y1.2680.99
28_V50_K1.2510.99
31_V57_L1.2260.98
38_V42_M1.2050.98
49_A58_Y1.2000.98
36_Q42_M1.1880.98
61_K75_E1.1820.98
9_L64_V1.1410.97
14_V18_N1.1370.97
25_L49_A1.1370.97
5_E9_L1.1310.97
64_V71_K1.1240.97
14_V49_A1.1070.96
46_T59_E1.1030.96
10_A47_L1.0930.96
12_F71_K1.0710.95
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  
2l4vA1199.7-0.001Contact Map
3ul5A4199.70.012Contact Map
1eqkA1199.70.027Contact Map
3imaB20.974799.70.043Contact Map
4lziA1199.70.053Contact Map
4n6tA1199.70.055Contact Map
5a0oB2099.60.072Contact Map
2kxgA10.974799.60.11Contact Map
3gaxA2199.60.112Contact Map
4n6oB1199.60.114Contact 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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