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hs_asyn_P37840

ID: 1506965171 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 140 (127)
Sequences: 1341 (1254.9)
Seq/Len: 10.559
Nf(neff/√len): 111.4

Jackhmmer Results: (2016_04)
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: 10.559).

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
51_G54_T2.1391.00
32_K43_K1.8711.00
64_T75_T1.8191.00
121_D124_A1.7001.00
73_G76_A1.6951.00
36_G47_G1.6951.00
110_E113_L1.6411.00
30_A41_G1.6211.00
78_A82_V1.5781.00
65_N76_A1.5711.00
31_G42_S1.5581.00
22_T44_T1.4761.00
69_A80_K1.4741.00
91_A94_F1.4631.00
20_E31_G1.4161.00
110_E121_D1.3800.99
67_G89_A1.3500.99
23_K34_K1.3240.99
108_P119_D1.3190.99
106_G117_P1.3180.99
114_E117_P1.3010.99
16_V27_A1.2950.99
75_T86_G1.2930.99
52_V74_V1.2810.99
29_A40_V1.2540.99
67_G71_V1.2380.98
12_K16_V1.2300.98
22_T88_I1.2280.98
51_G73_G1.2020.98
54_T76_A1.1950.98
60_K82_V1.1940.98
25_G28_E1.1920.98
75_T78_A1.1900.98
86_G97_K1.1870.98
69_A91_A1.1690.97
36_G39_Y1.1630.97
56_A60_K1.1590.97
20_E53_A1.1490.97
84_G87_S1.1480.97
71_V82_V1.1450.97
65_N87_S1.1410.97
18_A21_K1.1400.97
25_G36_G1.1390.97
29_A32_K1.1360.97
59_T81_T1.1210.97
36_G40_V1.1210.97
111_G122_N1.1190.96
64_T86_G1.1190.96
21_K43_K1.1130.96
14_G36_G1.1130.96
35_E46_E1.0850.96
23_K27_A1.0800.95
33_T44_T1.0680.95
24_Q35_E1.0650.95
58_K80_K1.0620.95
62_Q84_G1.0600.95
78_A89_A1.0500.94
34_K45_K1.0480.94
67_G70_V1.0470.94
105_E116_M1.0370.94
19_A30_A1.0300.94
80_K91_A1.0290.94
19_A41_G1.0280.94
123_E126_E1.0220.93
9_S12_K1.0200.93
81_T103_N1.0190.93
68_G90_A1.0170.93
28_E39_Y1.0130.93
88_I91_A1.0120.93
116_M123_E1.0060.93
127_M130_E1.0060.93
14_G25_G1.0040.93
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  
1xq8A1198.30.559Contact Map
3s84A2196.30.694Contact Map
2a01A30.971495.50.714Contact Map
2lemA10.971493.60.74Contact Map
1nfnA10.764392.50.75Contact Map
2l7bA10.992992.40.75Contact Map
3r2pA10.971490.60.762Contact Map
1gs9A10.928688.80.77Contact Map
2x43S10.478680.20.794Contact Map
1eq1A10.928669.10.812Contact 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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