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Adhiron

ID: 1515521529 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 79 (79)
Sequences: 2421 (1731.2)
Seq/Len: 30.646
Nf(neff/√len): 194.8

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: 30.646).

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_E3.4191.00
34_K44_Y2.4181.00
35_E41_T2.3961.00
58_Y78_P2.2941.00
42_M61_K2.1591.00
16_E19_K2.1161.00
47_L60_A2.0901.00
10_A45_L1.9081.00
65_K70_F1.8581.00
42_M63_W1.8111.00
32_K46_T1.7241.00
65_K68_E1.7211.00
10_A27_F1.5371.00
28_V50_K1.5251.00
38_V42_M1.4771.00
33_A45_L1.4571.00
31_V48_E1.4531.00
14_V18_N1.3990.99
49_A58_Y1.3710.99
6_I33_A1.3590.99
25_L49_A1.3230.99
31_V57_L1.3200.99
36_Q42_M1.3160.99
63_W70_F1.3120.99
17_H60_A1.3020.99
6_I9_L1.2840.99
25_L58_Y1.2730.99
46_T59_E1.2630.99
64_V71_K1.2420.98
27_F47_L1.2250.98
10_A14_V1.1890.98
17_H21_E1.1730.98
42_M74_Q1.1600.97
5_E64_V1.1150.96
6_I10_A1.1080.96
16_E73_L1.0910.96
36_Q40_G1.0650.95
61_K75_E1.0300.94
45_L60_A1.0270.94
37_V41_T1.0250.93
5_E9_L1.0160.93
9_L64_V1.0040.93
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  
2l4vA1199.6-0.053Contact Map
3ul5A4199.6-0.042Contact Map
1eqkA1199.6-0.028Contact Map
4lziA1199.6-0.005Contact Map
3imaB20.974799.6-0.005Contact Map
4n6tA1199.6-0.001Contact Map
5a0oB2099.50.027Contact Map
2kxgA10.974799.50.058Contact Map
3gaxA2199.50.06Contact Map
4n6oB1199.40.067Contact 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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