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ID: 1514462093 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 149 (125)
Sequences: 275 (134.8)
Seq/Len: 2.200
Nf(neff/√len): 12.1

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: 2.200).

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
108_L112_I2.4891.00
135_I139_L2.1651.00
98_L114_G2.1311.00
106_R115_D1.7010.97
85_A88_L1.6780.96
68_V80_L1.6270.96
42_S50_P1.5930.95
126_I129_G1.5300.93
126_I130_G1.5190.93
103_I107_H1.5010.92
90_L105_P1.4720.91
85_A89_E1.4650.91
59_K62_T1.4530.91
126_I131_V1.4290.90
125_T130_G1.3860.88
79_I95_S1.3830.88
85_A93_N1.3700.87
39_V43_Q1.3680.87
73_A122_I1.3600.86
55_H62_T1.3420.86
96_K100_V1.3410.85
84_T103_I1.3310.85
130_G133_P1.3090.84
61_R64_S1.3000.83
96_K114_G1.2780.81
93_N97_D1.2560.80
87_V119_D1.2540.80
136_H139_L1.2400.79
35_K99_K1.2260.78
24_G27_A1.2220.77
56_R72_A1.2010.76
43_Q70_A1.1960.75
71_T122_I1.1940.75
102_R107_H1.1860.74
112_I119_D1.1550.71
125_T131_V1.1520.71
45_A51_V1.1510.71
46_G51_V1.1500.71
100_V114_G1.1490.71
55_H108_L1.1420.70
81_E116_E1.1400.70
45_A89_E1.1370.70
55_H128_G1.1350.70
41_R45_A1.1340.69
94_A111_A1.1300.69
44_R136_H1.1280.69
80_L83_L1.1210.68
120_S141_G1.1060.67
127_A130_G1.1050.67
39_V44_R1.1030.66
55_H63_T1.1010.66
108_L128_G1.0880.65
88_L93_N1.0840.64
135_I140_I1.0820.64
70_A137_K1.0800.64
62_T65_H1.0740.63
69_G72_A1.0680.63
81_E90_L1.0560.61
106_R110_L1.0510.61
102_R115_D1.0480.61
121_L133_P1.0380.59
99_K123_K1.0320.59
109_Q113_R1.0290.58
42_S46_G1.0190.57
39_V59_K1.0170.57
135_I141_G1.0080.56
105_P117_E1.0060.56
54_I80_L1.0060.56
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  
1f66C20.71811000.332Contact Map
2f8nK10.6981000.354Contact Map
1tzyA20.70471000.372Contact Map
2nqbC20.70471000.38Contact Map
2f8nG10.71811000.381Contact Map
4cayA10.57721000.383Contact Map
4jjnC20.71811000.402Contact Map
4m6bA20.87251000.43Contact Map
3ksyA10.83221000.458Contact Map
1f1eA10.61071000.535Contact 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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