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OPENSEQ.org

P0A7Y4

ID: 1487285653 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 155 (146)
Sequences: 7227 (4765.9)
Seq/Len: 49.500
Nf(neff/√len): 394.4

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: 49.500).

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
66_I119_E3.5851.00
72_Q76_Q3.5101.00
54_V57_E3.2701.00
86_K108_D3.0281.00
52_A74_V2.9421.00
7_I55_A2.9231.00
101_V105_Q2.9201.00
57_E106_R2.7811.00
126_G131_E2.5781.00
64_E115_Q2.3881.00
9_T69_T2.2271.00
69_T75_R2.2141.00
52_A67_L2.1121.00
34_T132_R2.0371.00
14_L142_M1.9561.00
50_M54_V1.9501.00
14_L138_R1.9381.00
24_A35_F1.8891.00
84_N88_R1.8581.00
12_S141_A1.8331.00
6_E68_S1.8261.00
22_Y54_V1.7971.00
14_L141_A1.7941.00
4_Q64_E1.7641.00
76_Q80_Q1.7361.00
4_Q66_I1.7321.00
66_I117_K1.7111.00
68_S119_E1.7021.00
46_R102_D1.6701.00
6_E66_I1.6351.00
57_E110_A1.6131.00
132_R135_E1.5981.00
8_F68_S1.5621.00
75_R118_W1.5591.00
72_Q120_W1.5281.00
22_Y37_A1.4971.00
138_R141_A1.4931.00
53_I106_R1.4771.00
59_L65_V1.4551.00
77_G104_W1.4251.00
21_G141_A1.3810.99
53_I107_L1.3530.99
12_S137_A1.2880.99
84_N87_K1.2600.99
82_I108_D1.2510.99
136_L140_A1.2490.99
23_G140_A1.2420.98
60_K113_Q1.2410.98
111_L118_W1.2360.98
49_L74_V1.2180.98
9_T51_A1.2120.98
45_N73_Y1.2030.98
122_K125_A1.1860.98
12_S138_R1.1840.98
24_A58_A1.1760.98
135_E139_A1.1510.97
8_F129_E1.1260.97
42_T46_R1.1140.96
130_N134_D1.1110.96
127_H131_E1.0980.96
20_G42_T1.0810.95
138_R142_M1.0700.95
69_T74_V1.0560.95
25_I133_C1.0520.95
78_I118_W1.0510.94
8_F127_H1.0250.93
83_H87_K1.0250.93
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  
1jl1A10.98061000.047Contact Map
3h08A20.90971000.079Contact Map
2e4lA10.99351000.086Contact Map
1rilA10.94191000.087Contact Map
2qkbA20.922699.90.144Contact Map
4ibnA10.993599.90.158Contact Map
4mh8A1099.90.161Contact Map
2lsnA10.935599.90.166Contact Map
3qioA10.819499.90.184Contact Map
3p1gA10.877499.90.267Contact 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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