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3ze3

ID: 1500381396 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 116 (115)
Sequences: 2536 (1848.7)
Seq/Len: 22.052
Nf(neff/√len): 172.4

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: 22.052).

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
74_V85_S3.3791.00
14_K86_G3.0721.00
20_W30_G2.9811.00
19_A65_L2.9091.00
63_V66_L2.4251.00
58_M102_D2.2881.00
33_V57_V2.2861.00
17_R21_I2.1111.00
76_R85_S1.9401.00
16_L94_A1.8851.00
73_V88_A1.8341.00
63_V99_A1.8121.00
62_I99_A1.8111.00
40_A50_R1.7851.00
45_V110_L1.7811.00
72_A87_R1.7231.00
108_A112_W1.6071.00
20_W31_V1.5701.00
60_V96_V1.5621.00
46_D49_T1.5221.00
68_S91_L1.4931.00
59_L99_A1.4881.00
49_T114_H1.4851.00
26_F61_M1.4721.00
48_V52_L1.4501.00
18_A87_R1.4491.00
44_D50_R1.4481.00
65_L91_L1.3780.99
65_L94_A1.3730.99
22_N87_R1.3580.99
26_F29_E1.3400.99
73_V77_I1.3280.99
19_A26_F1.3130.99
52_L56_S1.2850.99
19_A91_L1.2850.99
63_V95_A1.2810.99
54_I102_D1.2590.99
11_Y14_K1.2510.99
49_T110_L1.2300.98
7_K10_G1.2090.98
84_L88_A1.2030.98
37_V57_V1.1810.98
65_L98_I1.1710.98
5_I24_A1.1570.97
5_I28_Q1.1540.97
12_S93_S1.1480.97
5_I9_A1.1260.97
60_V103_A1.1070.96
38_V42_W1.1040.96
55_S102_D1.0890.96
23_E72_A1.0830.96
29_E96_V1.0630.95
45_V53_L1.0590.95
47_A51_V1.0210.93
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  
3ze3A61100-0.003Contact Map
4w25210.41389.40.927Contact Map
1rh5B10.37938.50.928Contact Map
4b03D30.56033.90.939Contact Map
3b8cA20.9312.80.943Contact Map
4k1cA20.90522.70.944Contact Map
2lzrA10.29312.60.944Contact Map
3mp7B10.46552.40.945Contact Map
4od4A60.78452.20.946Contact Map
1pi7A10.16381.90.948Contact 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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