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1xob

ID: 1515770893 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 108 (105)
Sequences: 7509 (4844.9)
Seq/Len: 71.514
Nf(neff/√len): 472.8

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: 71.514).

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
86_V89_T2.8691.00
44_E96_K2.4721.00
59_N62_Q2.4081.00
9_D65_G2.2751.00
88_A102_F2.2301.00
9_D66_T2.1981.00
100_K104_D2.0651.00
79_L86_V2.0611.00
13_D69_K2.0141.00
48_E100_K1.9211.00
48_E96_K1.8971.00
7_L56_A1.8891.00
60_I75_I1.8371.00
98_Q101_E1.7911.00
21_G54_T1.7831.00
38_I78_L1.7711.00
11_S15_D1.7521.00
49_Y104_D1.7441.00
42_L55_V1.7421.00
80_L106_N1.7171.00
79_L89_T1.6851.00
95_S98_Q1.6841.00
15_D54_T1.6151.00
94_L98_Q1.5851.00
49_Y100_K1.5571.00
30_E59_N1.5411.00
13_D18_K1.5371.00
41_I44_E1.4451.00
90_K94_L1.3740.99
78_L99_L1.3610.99
31_W61_D1.3610.99
102_F106_N1.3350.99
70_Y81_F1.3330.99
88_A106_N1.2790.99
26_D57_K1.2780.99
37_M93_A1.2620.99
8_T11_S1.2540.99
101_E105_A1.2480.99
38_I99_L1.2440.98
88_A105_A1.2270.98
45_I55_V1.2260.98
96_K100_K1.2180.98
45_I100_K1.2100.98
102_F105_A1.2070.98
9_D63_N1.1830.98
32_C35_C1.1760.98
101_E104_D1.1320.97
38_I93_A1.1250.97
27_F60_I1.1200.96
7_L15_D1.1000.96
58_L67_A1.0920.96
49_Y53_L1.0790.95
14_T18_K1.0730.95
64_P68_P1.0510.94
94_L102_F1.0470.94
82_K87_A1.0150.93
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  
4kcaA20.972299.90.193Contact Map
3f8uA20.981599.90.196Contact Map
3bj5A10.972299.90.199Contact Map
2qgvA100.990799.90.202Contact Map
3apoA10.916799.90.203Contact Map
2av4A10.981599.90.203Contact Map
4cdoA20.990799.90.206Contact Map
2r2jA10.953799.90.207Contact Map
2qsiA20.96399.90.211Contact Map
2b5eA10.990799.90.213Contact 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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