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ID: 1513311451 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 121 (100)
Sequences: 253 (98.4)
Seq/Len: 2.530
Nf(neff/√len): 9.8

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: 2.530).

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
48_I51_S2.2991.00
29_S48_I1.9610.99
101_A107_Q1.8660.99
41_L64_F1.8310.99
32_Y38_G1.6770.97
62_R97_M1.6740.97
99_K105_E1.5220.95
44_D91_R1.5190.95
33_S39_Y1.5050.94
62_R65_N1.4910.94
80_I85_C1.4310.92
35_D39_Y1.4020.91
89_C92_H1.3960.91
86_C89_C1.3960.91
27_L37_L1.3880.90
22_V26_Q1.3840.90
22_V59_C1.3760.90
76_L86_C1.3710.90
88_H91_R1.3400.88
28_L31_D1.3290.88
27_L30_Q1.3150.87
68_V106_A1.2800.85
99_K111_D1.2610.84
109_I114_K1.2490.83
98_D105_E1.2240.81
21_S25_L1.2080.80
44_D88_H1.2070.80
47_C51_S1.1990.79
51_S59_C1.1870.78
42_I98_D1.1800.78
29_S42_I1.1520.75
78_Q90_P1.1480.75
27_L113_Q1.1290.73
62_R109_I1.1100.71
66_A109_I1.1060.71
36_T44_D1.0970.70
66_A95_T1.0940.70
96_G103_E1.0940.70
47_C109_I1.0870.69
65_N70_S1.0850.69
35_D71_T1.0810.68
31_D35_D1.0590.66
23_K112_V1.0570.66
96_G105_E1.0570.66
52_R68_V1.0420.64
63_H69_E1.0410.64
86_C92_H1.0390.64
74_S108_N1.0370.64
94_T103_E1.0360.63
60_R67_R1.0240.62
56_E83_P1.0180.61
68_V94_T1.0160.61
53_N59_C1.0160.61
101_A104_Q1.0140.61
65_N68_V1.0090.60
31_D71_T1.0080.60
84_C89_C1.0080.60
100_Q103_E1.0060.60
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  
4w8yA20.55375.40.966Contact Map
3x1lA1050.966Contact Map
4mbeH40.10744.70.967Contact Map
3dc7A30.49593.90.968Contact Map
1x6eA10.42983.80.968Contact Map
3pdeA40.45453.80.968Contact Map
3qkyA10.85953.60.969Contact Map
4p0gA10.51243.20.969Contact Map
3nsjA10.884330.97Contact Map
1zlpA20.52072.70.97Contact 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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