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T0799 240-408 30-100

ID: 1401512004 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 71 (68)
Sequences: 131 (117.5)
Seq/Len: 1.926
Nf(neff/√len): 14.2

HHblits Results: (2013_03)
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: 1.926).

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
5_I51_H1.8010.97
26_A30_I1.7200.96
29_A65_S1.6870.96
29_A66_F1.6010.94
16_V40_K1.5350.92
30_I59_A1.4600.89
12_L39_W1.4360.88
55_T58_R1.3630.84
30_I54_L1.3530.83
37_W58_R1.3390.82
15_D40_K1.3350.82
10_A55_T1.3230.81
33_E41_E1.3020.80
7_T51_H1.2980.80
62_I69_D1.2690.78
23_E34_I1.2670.77
56_V59_A1.2540.76
25_E66_F1.2490.76
51_H63_M1.2480.76
7_T39_W1.2450.76
55_T60_I1.2260.74
27_A34_I1.2230.74
18_A65_S1.2050.72
28_K54_L1.2010.72
49_R67_G1.1970.71
14_N43_A1.1960.71
5_I39_W1.1890.71
30_I37_W1.1550.68
38_T48_I1.1430.66
34_I70_P1.1120.63
61_E64_E1.1050.63
64_E68_L1.0910.61
24_T27_A1.0880.61
10_A58_R1.0870.61
3_G37_W1.0860.61
7_T12_L1.0760.59
33_E58_R1.0700.59
23_E68_L1.0520.57
28_K34_I1.0470.56
4_T47_D1.0430.56
39_W62_I1.0410.56
36_F70_P1.0370.55
19_M28_K1.0280.54
17_R59_A1.0040.52
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: (24May14)
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  
3gw6A60.971899.80.21Contact Map
3gudA20.873299.80.261Contact Map
2xsuA10.873226.10.88Contact Map
1dmhA20.873214.10.894Contact Map
2azqA10.873212.10.897Contact Map
1gl4A1110.70.9Contact Map
3fndA10.92969.60.902Contact Map
4axnA20.88739.50.902Contact Map
3vgjA20.94378.80.904Contact Map
2cycA20.87328.80.904Contact 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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