OPENSEQ.org
Adhiron

ID: 1515520912 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 79 (79)
Sequences: 1273 (935)
Seq/Len: 16.114
Nf(neff/√len): 105.2

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: 16.114).

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_E2.8231.00
10_A27_F2.3301.00
16_E19_K2.3181.00
34_K44_Y2.3111.00
65_K70_F2.1591.00
42_M61_K2.0691.00
58_Y78_P1.8761.00
65_K68_E1.7791.00
32_K46_T1.7311.00
5_E64_V1.7291.00
42_M74_Q1.7061.00
33_A45_L1.6781.00
27_F47_L1.5991.00
35_E41_T1.5941.00
17_H60_A1.5851.00
16_E73_L1.5851.00
12_F73_L1.5441.00
10_A45_L1.5381.00
63_W70_F1.4621.00
17_H21_E1.4511.00
28_V50_K1.4341.00
42_M63_W1.4261.00
6_I33_A1.3910.99
64_V71_K1.3660.99
10_A47_L1.2750.99
9_L64_V1.2190.98
49_A58_Y1.2170.98
39_A65_K1.2170.98
25_L49_A1.2050.98
14_V18_N1.1820.98
47_L60_A1.1760.98
12_F71_K1.1690.97
36_Q42_M1.1600.97
61_K75_E1.1510.97
38_V42_M1.1470.97
31_V57_L1.1190.96
14_V49_A1.0970.96
49_A56_K1.0800.95
5_E9_L1.0800.95
33_A58_Y1.0700.95
46_T59_E1.0200.93
31_V48_E1.0130.93
28_V55_K1.0050.93
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  
2l4vA1199.80.01Contact Map
3ul5A4199.70.024Contact Map
1eqkA1199.70.039Contact Map
3imaB20.974799.70.05Contact Map
4n6tA1199.70.061Contact Map
4lziA1199.70.064Contact Map
5a0oB2099.70.087Contact Map
2kxgA10.974799.60.118Contact Map
3gaxA2199.60.123Contact Map
4n6oB1199.60.123Contact 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.

Page generated in 0.0126 seconds.