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Xtln

ID: 1518123914 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 173 (171)
Sequences: 888 (456.2)
Seq/Len: 5.193
Nf(neff/√len): 34.9

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: 5.193).

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
43_M56_F2.2491.00
4_T17_E2.1441.00
134_E141_R2.0811.00
4_T38_D1.9401.00
5_L18_C1.8371.00
7_E11_F1.8101.00
143_Y156_W1.7021.00
129_S144_L1.6100.99
2_K17_E1.5800.99
25_L29_L1.5800.99
111_L166_L1.5530.99
131_V142_Q1.5520.99
88_R103_E1.5480.99
98_R105_T1.5360.99
55_Y70_G1.5260.99
129_S147_P1.5080.99
24_N27_P1.4800.98
93_E103_E1.4640.98
125_V128_G1.4580.98
122_S125_V1.4540.98
89_I125_V1.4490.98
3_I37_V1.4340.98
13_G34_S1.4010.98
35_A44_L1.3650.97
93_E97_Y1.3490.97
55_Y72_S1.3490.97
53_L56_F1.3320.96
3_I7_E1.3260.96
96_D109_S1.3120.96
84_S87_H1.3080.96
165_S169_V1.2900.96
143_Y158_A1.2820.95
45_Y60_G1.2790.95
35_A68_W1.2700.95
6_Y11_F1.2410.94
133_Y142_Q1.2380.94
153_Y171_D1.2370.94
42_W130_W1.2330.94
34_S37_V1.2240.94
165_S168_R1.2240.94
109_S138_Y1.2120.93
130_W165_S1.2100.93
44_L79_R1.2090.93
64_D76_R1.1980.93
6_Y13_G1.1860.92
142_Q145_L1.1840.92
7_E19_S1.1760.92
134_E140_G1.1660.91
143_Y157_G1.1650.91
57_L63_A1.1550.91
5_L16_Y1.1520.91
50_Y77_S1.1400.90
118_N162_R1.1360.90
44_L58_R1.1340.90
39_S59_R1.1300.89
123_L132_L1.1280.89
90_R126_L1.1270.89
151_R155_D1.1220.89
62_Y81_I1.1120.88
60_G77_S1.1100.88
5_L8_D1.1070.88
106_E125_V1.0960.87
4_T7_E1.0960.87
28_Y39_S1.0860.87
29_L71_L1.0830.87
143_Y150_Y1.0780.86
62_Y77_S1.0720.86
104_F108_C1.0710.86
94_R97_Y1.0710.86
112_Q117_F1.0690.86
73_D76_R1.0480.84
152_R156_W1.0460.84
45_Y133_Y1.0440.84
47_Q53_L1.0440.84
99_G122_S1.0410.84
52_G60_G1.0390.83
43_M58_R1.0360.83
62_Y70_G1.0330.83
109_S115_F1.0250.82
131_V144_L1.0220.82
47_Q59_R1.0160.81
54_Q62_Y1.0150.81
17_E22_H1.0140.81
107_D168_R1.0100.81
18_C29_L1.0100.81
138_Y141_R1.0080.81
82_P147_P1.0040.80
35_A57_L1.0000.80
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  
1h4aX111000.056Contact Map
2m3cA10.99421000.068Contact Map
2jdgA10.98271000.084Contact Map
1ytqA111000.088Contact Map
1zwmA10.98841000.093Contact Map
3qk3A30.98841000.093Contact Map
1okiA20.99421000.094Contact Map
3lwkA10.97111000.104Contact Map
1bd7A20.97691000.132Contact Map
4iauA10.87861000.204Contact 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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