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odoratant

ID: 1506564757 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 141 (141)
Sequences: 3113 (1969.2)
Seq/Len: 22.078
Nf(neff/√len): 165.8

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: 22.078).

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
30_T37_N3.1381.00
80_K83_E3.1301.00
22_F42_T2.8591.00
115_K134_D2.8531.00
2_H28_N2.6201.00
32_E35_N2.5691.00
63_Q75_Y2.5441.00
121_D125_R2.4401.00
5_T8_L2.3381.00
120_E124_N2.3351.00
37_N52_Y2.1401.00
35_N56_F2.0371.00
128_R131_N1.9711.00
6_V105_G1.9501.00
88_I127_F1.9471.00
112_N116_K1.9341.00
2_H26_I1.9001.00
103_L118_F1.8601.00
78_S84_Y1.8571.00
121_D124_N1.8381.00
101_A132_I1.7831.00
78_S121_D1.7321.00
114_I117_R1.7311.00
86_K118_F1.7161.00
27_Q40_F1.6971.00
84_Y114_I1.6891.00
116_K120_E1.6821.00
105_G110_L1.6771.00
115_K119_E1.6691.00
101_A122_F1.6331.00
35_N54_T1.5561.00
111_S114_I1.5471.00
119_E129_R1.5411.00
28_N41_L1.4531.00
118_F121_D1.4211.00
41_L48_C1.4141.00
86_K121_D1.4060.99
30_T39_F1.3820.99
78_S117_R1.3560.99
103_L110_L1.3260.99
74_V87_F1.3000.99
79_S85_A1.2630.99
123_M129_R1.2610.99
6_V110_L1.2260.98
32_E37_N1.2040.98
78_S86_K1.1850.98
4_H137_E1.1820.98
57_K61_A1.1610.97
129_R132_I1.1550.97
117_R121_D1.1510.97
78_S118_F1.1460.97
23_R136_S1.1380.97
4_H108_P1.1340.97
39_F52_Y1.1340.97
76_Y79_S1.1310.97
86_K110_L1.1040.96
8_L25_F1.1020.96
86_K122_F1.0980.96
43_R46_G1.0650.95
56_F71_T1.0360.94
112_N115_K1.0250.93
41_L50_P1.0200.93
56_F65_K1.0180.93
82_N85_A1.0160.93
120_E123_M1.0080.93
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  
2ra6A4199.90.07Contact Map
1e5pA40.992999.90.073Contact Map
3l4rA1199.90.082Contact Map
1ew3A1199.90.085Contact Map
1dzkA20.985899.90.085Contact Map
2a2uA4199.90.088Contact Map
2hlvA10.985899.90.092Contact Map
3kffA1199.90.095Contact Map
3saoA2199.90.098Contact Map
4r0bA1199.90.098Contact 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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