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ID: 1500029428 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 100 (99)
Sequences: 391 (274.1)
Seq/Len: 3.949
Nf(neff/√len): 27.5

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: 3.949).

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
29_Y63_T2.8051.00
70_I76_I2.5261.00
25_A66_F2.1981.00
67_F83_V2.1631.00
54_F58_I1.8831.00
87_M91_S1.6880.99
17_H81_G1.6760.99
68_D84_K1.6570.99
84_K91_S1.6520.99
58_I61_C1.5980.99
22_F69_I1.4820.97
1_I5_H1.4480.97
16_L85_A1.4390.97
57_F65_H1.4220.96
32_P58_I1.3990.96
21_D84_K1.3960.96
88_A91_S1.3890.96
6_C9_W1.3730.95
16_L81_G1.3630.95
72_L75_P1.3390.94
91_S94_T1.3140.93
71_T75_P1.3070.93
86_S90_V1.3000.93
1_I7_Y1.2500.91
93_I97_E1.2120.89
14_V72_L1.1560.86
87_M94_T1.1490.86
73_W77_Y1.1360.85
27_A76_I1.1010.82
4_G7_Y1.0890.81
58_I64_S1.0880.81
4_G8_L1.0790.80
55_S59_L1.0710.80
9_W77_Y1.0690.79
1_I14_V1.0560.78
39_L51_I1.0560.78
84_K94_T1.0450.77
46_P78_W1.0390.77
58_I65_H1.0390.77
46_P55_S1.0350.76
3_H8_L1.0350.76
60_C86_S1.0280.76
35_L51_I1.0130.74
49_N53_L1.0100.74
57_F62_G1.0010.73
84_K88_A1.0000.73
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  
4z0nA10.3710.932Contact Map
2jwaA20.410.90.935Contact Map
2ks1B10.430.80.937Contact Map
2kxrA10.340.80.937Contact Map
4tphA20.930.80.938Contact Map
2qp2A10.330.60.941Contact Map
1xqoA10.410.60.942Contact Map
5a63B100.60.942Contact Map
5a63C100.50.945Contact Map
4ys6A10.360.50.946Contact 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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