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ID: 1515063368 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 105 (103)
Sequences: 29038 (18837.2)
Seq/Len: 281.922
Nf(neff/√len): 1856.1

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: 281.922).

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
84_R87_S2.2881.00
86_E100_S2.1991.00
21_V52_A2.1201.00
46_E98_T1.9941.00
58_T65_A1.9811.00
42_E94_K1.9471.00
19_V52_A1.9341.00
20_P80_K1.8741.00
30_C33_C1.8721.00
98_T102_E1.8701.00
37_A55_K1.8601.00
58_T73_I1.7951.00
77_L87_S1.7761.00
77_L84_R1.7221.00
26_W55_K1.7081.00
36_I76_V1.6731.00
7_D63_G1.6461.00
11_K67_Q1.6401.00
35_L91_A1.6381.00
21_V54_Y1.5831.00
47_Y102_E1.5451.00
5_V54_Y1.5101.00
9_S13_F1.5051.00
22_M76_V1.4981.00
93_P96_T1.4671.00
47_Y98_T1.4181.00
6_N9_S1.4101.00
79_F84_R1.4060.99
7_D64_I1.3980.99
100_S104_Y1.3760.99
7_D61_A1.3640.99
68_Y79_F1.3600.99
24_D76_V1.3530.99
39_V94_K1.3510.99
24_D55_K1.2950.99
20_P78_F1.2740.99
24_D36_I1.2570.99
94_K98_T1.2540.99
39_V42_E1.2380.98
70_I75_T1.2300.98
28_P57_N1.2240.98
75_T87_S1.2210.98
86_E103_K1.2180.98
92_V96_T1.2110.98
96_T99_D1.2090.98
100_S103_K1.1900.98
88_I92_V1.1840.98
88_I100_S1.1630.97
23_V79_F1.1300.97
27_A73_I1.1150.96
57_N60_E1.1030.96
25_F68_Y1.1020.96
32_P35_L1.1000.96
41_D45_K1.0720.95
24_D37_A1.0720.95
5_V13_F1.0460.94
99_D103_K1.0450.94
13_F52_A1.0260.94
46_E94_K1.0260.94
78_F104_Y1.0170.93
25_F58_T1.0090.93
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  
3f8uA20.990599.7-0.015Contact Map
3apoA10.914399.7-0.005Contact Map
2r2jA10.971499.7-0Contact Map
4kcaA20.990599.70.004Contact Map
2b5eA10.990599.70.004Contact Map
3dxbA8199.70.031Contact Map
1thxA1199.70.032Contact Map
3ed3A2199.70.034Contact Map
4xhmA2099.70.034Contact Map
3apqA20.990599.70.035Contact 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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