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ID: 1514547368 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 81 (81)
Sequences: 3420 (295.5)
Seq/Len: 42.222
Nf(neff/√len): 32.8

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: 42.222).

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
27_Y34_V2.6081.00
74_A77_V2.4761.00
1_M4_L2.2891.00
26_V33_I2.1991.00
44_D47_I2.1611.00
15_A18_L2.1301.00
1_M10_V1.8741.00
72_H75_P1.7851.00
4_L9_I1.7721.00
40_D43_L1.7131.00
61_Q74_A1.7121.00
29_E32_K1.5301.00
16_A20_I1.5001.00
34_V37_R1.4761.00
76_W79_D1.4751.00
4_L10_V1.4661.00
3_S9_I1.4421.00
74_A78_I1.4341.00
22_V25_I1.4341.00
69_E74_A1.4311.00
30_Y33_I1.4030.99
5_Y8_G1.3740.99
1_M9_I1.3080.99
15_A25_I1.3060.99
61_Q65_S1.2490.99
2_Q9_I1.2000.98
19_A33_I1.1960.98
12_L16_A1.1870.98
38_K43_L1.1850.98
34_V41_R1.1700.97
24_T27_Y1.1290.97
67_L76_W1.1220.97
9_I18_L1.1180.96
69_E76_W1.1040.96
3_S10_V1.0940.96
60_D63_E1.0930.96
76_W81_Q1.0730.95
24_T78_I1.0690.95
4_L12_L1.0320.94
18_L33_I1.0130.93
27_Y30_Y1.0090.93
62_E65_S1.0010.92
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  
4p6zV10.123599.90.238Contact Map
1pi7A10.2346990.614Contact Map
5a2fA1033.80.892Contact Map
2yiuB20.419833.30.893Contact Map
4p02B10.358320.894Contact Map
1zrtD20.469128.40.897Contact Map
4tllB20.03722.80.901Contact Map
2m8rA10.333317.10.907Contact Map
4um9B10170.907Contact Map
4oh3A20.543211.90.913Contact 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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