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1EI0

ID: 1515666499 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 38 (38)
Sequences: 197 (133.4)
Seq/Len: 5.184
Nf(neff/√len): 21.6

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: 5.184).

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
8_A11_Q3.8871.00
10_I21_E2.0811.00
3_C7_A1.8401.00
32_K38_Y1.7891.00
27_V36_A1.6851.00
26_A36_A1.6510.99
5_K32_K1.5660.99
6_Q33_K1.3450.97
28_I31_L1.2940.96
1_D5_K1.2420.94
16_A31_L1.1830.92
30_E38_Y1.1690.91
10_I18_S1.1310.89
16_A30_E1.1050.88
18_S21_E1.0910.87
9_E21_E1.0530.84
31_L38_Y1.0480.84
20_L29_Q1.0170.82
1_D4_Q1.0130.81
18_S36_A1.0120.81
21_E25_Q1.0100.81
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  
1hp8A11990.225Contact Map
1ei0A1198.60.342Contact Map
2lqtA1194.50.623Contact Map
5aj3m1086.40.691Contact Map
2lqlA1135.70.786Contact Map
3v9mA20.86842.20.88Contact Map
4ntwC10.81582.10.882Contact Map
1u96A1120.882Contact Map
3vbzA20.86841.80.886Contact Map
2l0yB10.44741.70.887Contact 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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