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ID: 1513892083 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 144 (140)
Sequences: 1595 (1141.3)
Seq/Len: 11.393
Nf(neff/√len): 96.5

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: 11.393).

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
42_A101_P3.5511.00
125_A135_N3.5351.00
99_V105_P2.7641.00
59_D91_Y2.7081.00
54_K93_D2.3391.00
53_L63_Y2.0461.00
126_D137_D2.0151.00
50_E140_S2.0001.00
71_S75_K1.9911.00
104_N127_G1.9891.00
35_D134_V1.9311.00
33_R36_E1.7531.00
111_P119_E1.7481.00
107_I121_I1.7341.00
34_P38_R1.7151.00
56_Y68_Q1.7001.00
56_Y62_M1.6931.00
41_K45_D1.6131.00
46_I140_S1.6081.00
66_T110_S1.5861.00
107_I123_L1.5831.00
101_P106_Y1.5741.00
7_F22_L1.4911.00
46_I120_I1.4561.00
139_K142_E1.4351.00
54_K63_Y1.4231.00
125_A136_A1.4060.99
24_T28_P1.4030.99
53_L120_I1.3810.99
39_V134_V1.3760.99
131_G137_D1.3650.99
102_W124_G1.3620.99
125_A131_G1.3620.99
47_K50_E1.3620.99
121_I139_K1.3440.99
45_D106_Y1.3290.99
119_E141_Y1.3210.99
123_L131_G1.3190.99
110_S118_Y1.3130.99
69_G73_L1.2860.99
112_G119_E1.2840.99
47_K51_S1.2510.99
8_S19_L1.2410.98
132_E135_N1.2280.98
45_D101_P1.2060.98
54_K118_Y1.2030.98
64_P108_Y1.2010.98
39_V138_I1.1850.98
52_A92_L1.1410.97
62_M68_Q1.1290.97
31_I34_P1.1200.96
130_G137_D1.1140.96
44_S48_T1.1060.96
50_E93_D1.0990.96
26_L30_I1.0880.96
23_A27_L1.0590.95
8_S11_E1.0370.94
36_E40_T1.0200.93
42_A106_Y1.0200.93
39_V42_A1.0140.93
72_A77_P1.0050.93
67_E73_L1.0020.92
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  
3g20A20.798699.90.388Contact Map
3gn9A30.756999.90.409Contact Map
2kepA10.763999.90.414Contact Map
1t92A20.743199.80.449Contact Map
3sokA20.861199.70.502Contact Map
2hi2A10.881999.70.516Contact Map
2m7gA10.423699.50.589Contact Map
1oqwA20.861199.20.649Contact Map
4noaA10.666781.40.876Contact Map
2m3kA10.694475.40.883Contact 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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