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ID: 1499263039 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 131 (103)
Sequences: 58 (21.6)
Seq/Len: 0.563
Nf(neff/√len): 2.1

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: 0.563).

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
36_F119_L2.0780.90
85_G89_S1.7730.78
102_I111_E1.6690.72
30_F74_I1.5850.66
72_D104_K1.5050.60
42_R111_E1.4940.59
47_Q82_A1.4830.59
103_I112_R1.4670.57
36_F40_F1.4660.57
27_K68_D1.4550.56
78_M82_A1.4060.53
96_D117_K1.4000.52
35_E120_K1.3850.51
49_E122_M1.3750.50
55_K111_E1.3730.50
30_F65_L1.3570.49
65_L74_I1.3570.49
36_F96_D1.3540.48
38_R89_S1.3330.47
42_R104_K1.3300.46
72_D75_K1.3160.45
80_V83_I1.2900.43
40_F47_Q1.2850.43
50_I116_S1.2520.40
53_V89_S1.2460.40
80_V108_L1.2360.39
80_V91_K1.2120.37
49_E81_E1.2120.37
104_K115_I1.1990.36
46_L82_A1.1950.36
49_E83_I1.1820.35
42_R55_K1.1760.35
36_F47_Q1.1740.35
64_V98_V1.1620.34
55_K84_Q1.1610.34
29_S80_V1.1570.33
102_I116_S1.1500.33
42_R102_I1.1450.33
54_E115_I1.1180.31
57_I113_R1.1140.30
50_I102_I1.1090.30
68_D91_K1.1000.29
84_Q102_I1.1000.29
55_K82_A1.0900.29
57_I101_Y1.0860.29
39_L91_K1.0750.28
53_V114_D1.0710.28
71_S121_A1.0640.27
33_V38_R1.0620.27
45_K109_S1.0550.27
61_Q118_K1.0470.26
33_V120_K1.0430.26
54_E88_A1.0360.25
51_Q88_A1.0320.25
33_V50_I1.0280.25
72_D77_G1.0250.25
108_L115_I1.0210.25
31_Q78_M1.0200.24
37_V95_E1.0170.24
49_E71_S1.0130.24
76_P92_G1.0090.24
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  
2kldA10.534454.10.943Contact Map
1q08A20.4809200.955Contact Map
1xahA20.511517.10.957Contact Map
2gsvA20.519115.50.957Contact Map
3gpvA20.717614.20.958Contact Map
3hh0A40.8168140.958Contact Map
2xppA10.358812.70.959Contact Map
2bnxA20.671811.50.96Contact Map
2vz4A10.68710.50.96Contact Map
3ojaB10.717610.10.961Contact 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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