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D melanogaster 149-350

ID: 1515092929 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 202 (196)
Sequences: 341 (204)
Seq/Len: 1.740
Nf(neff/√len): 14.6

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: 1.740).

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
114_M161_I2.1320.99
27_Q133_Y2.0800.99
18_L91_W1.8500.97
2_V6_M1.7760.96
9_M16_V1.7180.95
133_Y137_N1.7130.95
116_K133_Y1.6940.95
8_K13_T1.6710.94
4_R16_V1.6330.93
13_T16_V1.6300.93
5_D9_M1.6080.93
10_V13_T1.6080.93
6_M10_V1.6070.93
92_V116_K1.5770.92
91_W95_F1.5560.91
116_K132_A1.5510.91
6_M9_M1.5410.91
5_D8_K1.5260.90
10_V14_S1.5070.89
5_D13_T1.4780.88
5_D15_E1.4740.88
116_K136_K1.4600.87
27_Q132_A1.4590.87
2_V16_V1.4580.87
11_G15_E1.4540.87
27_Q116_K1.4460.86
3_Y9_M1.4380.86
6_M16_V1.4330.86
2_V10_V1.4120.85
10_V16_V1.3960.84
7_V13_T1.3940.84
2_V9_M1.3930.83
9_M13_T1.3850.83
4_R13_T1.3810.83
9_M14_S1.3800.83
52_W181_F1.3780.83
3_Y11_G1.3450.80
5_D16_V1.3400.80
184_A188_F1.3390.80
118_L165_F1.3340.80
12_D15_E1.3180.79
4_R8_K1.3060.78
147_P179_H1.3050.78
6_M11_G1.2860.76
3_Y6_M1.2820.76
107_C181_F1.2750.75
177_C188_F1.2730.75
8_K16_V1.2690.75
2_V8_K1.2650.74
132_A136_K1.2600.74
27_Q92_V1.2550.74
3_Y13_T1.2530.73
134_H188_F1.2500.73
188_F196_L1.2340.72
2_V7_V1.2320.72
11_G16_V1.2260.71
5_D14_S1.2260.71
10_V15_E1.2260.71
2_V5_D1.2160.70
9_M15_E1.2150.70
68_L91_W1.2090.70
7_V10_V1.2050.69
5_D10_V1.2040.69
24_F96_F1.2040.69
3_Y16_V1.2010.69
179_H196_L1.1850.67
6_M13_T1.1850.67
3_Y10_V1.1850.67
138_L142_E1.1850.67
3_Y14_S1.1830.67
8_K18_L1.1820.67
7_V15_E1.1810.67
177_C187_M1.1760.67
4_R9_M1.1700.66
8_K14_S1.1700.66
137_N152_W1.1530.64
111_C183_P1.1390.63
145_K167_Q1.1380.63
5_D12_D1.1360.63
39_P52_W1.1260.62
6_M15_E1.1250.61
53_P61_V1.1170.61
188_F191_K1.1080.60
133_Y136_K1.0960.58
7_V14_S1.0950.58
4_R15_E1.0930.58
8_K12_D1.0900.58
5_D11_G1.0860.57
103_L136_K1.0770.56
146_H180_Y1.0710.56
2_V14_S1.0670.55
6_M14_S1.0580.54
92_V132_A1.0570.54
71_K94_S1.0550.54
24_F185_L1.0540.54
2_V11_G1.0520.54
91_W165_F1.0520.54
2_V13_T1.0500.54
140_L153_D1.0480.53
3_Y15_E1.0450.53
142_E167_Q1.0420.53
166_L174_Y1.0380.52
9_M12_D1.0360.52
7_V11_G1.0350.52
53_P102_L1.0320.52
45_W65_G1.0300.51
18_L22_E1.0300.51
33_K98_A1.0290.51
152_W157_I1.0270.51
32_F141_Y1.0230.51
66_F108_R1.0190.50
8_K11_G1.0150.50
109_R132_A1.0150.50
11_G14_S1.0080.49
42_A65_G1.0060.49
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  
4o6aA20.94551000.283Contact Map
4levA20.94551000.284Contact Map
4woyA20.7971000.386Contact Map
4oagA20.78711000.402Contact Map
4xj5A1097.60.859Contact Map
1px5A20.821897.40.864Contact Map
4xj6A1097.20.867Contact Map
4xq7A1097.20.868Contact Map
4s3nA10.787196.80.875Contact Map
1r89A10.683261.30.931Contact 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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