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ID: 1505532956 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 164 (161)
Sequences: 258 (157.1)
Seq/Len: 1.602
Nf(neff/√len): 12.4

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: 1.602).

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
61_T65_E2.4571.00
37_S46_Q2.2460.99
123_V130_L1.9330.98
34_Q50_E1.8410.97
33_I59_H1.8120.96
116_K120_E1.7780.96
23_E64_L1.6590.93
141_V145_L1.6470.93
5_S9_H1.6310.92
39_R44_G1.6070.92
58_A64_L1.5790.91
57_E64_L1.5510.90
143_D147_S1.5340.89
133_F145_L1.4860.87
31_K38_F1.4620.86
40_I46_Q1.4570.85
104_G107_I1.4510.85
66_E123_V1.4400.84
41_N45_S1.4030.82
71_M120_E1.3960.82
71_M115_L1.3590.79
10_C13_C1.3410.78
159_R162_D1.3320.77
37_S48_V1.3190.76
80_P87_Y1.2900.74
6_Q11_G1.2900.74
60_L65_E1.2790.73
74_Y115_L1.2610.72
38_F41_N1.2550.71
133_F150_T1.2480.71
154_D157_L1.2330.69
75_G90_V1.2310.69
107_I129_E1.2120.67
83_H135_S1.2110.67
34_Q48_V1.1870.65
53_Y56_S1.1830.65
34_Q122_I1.1810.65
51_V115_L1.1740.64
28_D54_A1.1720.64
73_E115_L1.1720.64
158_H161_H1.1700.63
65_E120_E1.1620.63
27_V55_R1.1560.62
65_E132_E1.1540.62
37_S42_P1.1380.60
35_M46_Q1.1340.60
152_L157_L1.1340.60
13_C146_C1.1290.59
35_M39_R1.1270.59
78_I87_Y1.1240.59
37_S59_H1.0950.56
101_D105_I1.0920.56
16_L22_W1.0850.55
37_S89_R1.0790.54
13_C19_E1.0710.53
3_R162_D1.0710.53
17_V37_S1.0700.53
152_L155_H1.0670.53
18_D22_W1.0670.53
155_H161_H1.0560.52
124_E127_E1.0560.52
33_I51_V1.0530.51
101_D104_G1.0490.51
15_A71_M1.0470.51
27_V37_S1.0450.51
3_R9_H1.0430.50
86_N96_E1.0370.50
45_S87_Y1.0360.50
13_C74_Y1.0310.49
123_V143_D1.0280.49
25_A82_T1.0260.49
83_H93_R1.0220.48
26_R29_P1.0210.48
76_E90_V1.0210.48
50_E54_A1.0100.47
15_A29_P1.0100.47
23_E26_R1.0070.47
39_R128_D1.0020.46
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  
2gtgA10.475688.50.903Contact Map
4uexA2087.10.906Contact Map
2qypA20.493986.80.906Contact Map
2js9A10.493984.70.909Contact Map
1l9lA10.451283.90.91Contact Map
3bqpA20.487882.30.911Contact Map
1nklA10.475677.30.916Contact Map
3s64A10.493972.90.918Contact Map
1of9A10.469567.70.921Contact Map
1n69A30.481762.70.924Contact 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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