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ID: 1517552860 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 134 (134)
Sequences: 470 (186.8)
Seq/Len: 3.507
Nf(neff/√len): 16.1

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: 3.507).

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
122_D129_S2.5771.00
122_D125_P2.2341.00
125_P129_S2.2091.00
48_N60_S2.1881.00
107_S111_A2.0901.00
122_D128_W1.8921.00
118_P121_D1.7970.99
27_N44_I1.7280.99
57_H61_S1.6530.99
6_H10_P1.6030.98
1_M4_S1.5720.98
26_R43_S1.5500.98
17_K20_H1.5500.98
125_P128_W1.5490.98
16_I20_H1.5370.97
32_V49_H1.5230.97
73_K78_Q1.5010.97
3_S12_T1.4160.95
12_T18_V1.3990.95
2_R22_E1.3750.94
1_M5_S1.3600.94
102_L111_A1.3150.92
124_T130_F1.3080.92
12_T104_H1.2880.91
113_V119_N1.2830.91
19_Q22_E1.2680.90
3_S19_Q1.2290.88
14_V18_V1.2280.88
111_A125_P1.2240.88
89_D97_Q1.2130.87
67_I107_S1.1990.86
21_R111_A1.1850.86
21_R26_R1.1830.85
107_S110_T1.1740.85
22_E25_R1.1720.85
124_T127_D1.1720.85
15_P18_V1.1680.84
55_G58_H1.1520.83
17_K23_A1.1490.83
99_P102_L1.1440.83
32_V40_Y1.1320.82
3_S8_I1.1310.82
7_L10_P1.1300.82
30_R70_G1.1270.81
56_T65_W1.1220.81
81_Q86_S1.1090.80
66_R69_L1.0970.79
52_T68_Y1.0910.78
113_V124_T1.0760.77
127_D130_F1.0690.76
47_H116_N1.0670.76
61_S65_W1.0630.76
59_C68_Y1.0550.75
74_S78_Q1.0540.75
108_S111_A1.0530.75
2_R19_Q1.0500.75
41_Y73_K1.0500.75
41_Y45_N1.0360.73
43_S70_G1.0350.73
129_S132_K1.0340.73
30_R63_R1.0310.73
30_R115_S1.0310.73
41_Y44_I1.0290.72
110_T117_L1.0270.72
17_K21_R1.0240.72
70_G122_D1.0220.72
104_H126_S1.0170.71
21_R24_K1.0110.71
3_S10_P1.0030.70
76_L96_D1.0030.70
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  
4uz8A20.365710.40.961Contact Map
3tirA10.41797.40.964Contact Map
3uitA40.58966.50.964Contact Map
3gv2A60.410460.965Contact Map
2d8sA10.56725.90.965Contact Map
3fhkA40.33584.90.966Contact Map
1w9nA10.16424.50.967Contact Map
4u0cA10.4034.40.967Contact Map
1d1dA10.34333.90.968Contact Map
1rsoB20.24633.80.968Contact 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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