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1EIG

ID: 1515666570 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 73 (67)
Sequences: 1409 (905.2)
Seq/Len: 21.030
Nf(neff/√len): 110.6

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: 21.030).

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
24_Y64_D3.1301.00
39_F49_G2.8271.00
21_V59_Y2.6901.00
6_P31_T2.2841.00
7_C32_C2.1921.00
50_D53_Q1.8901.00
24_Y39_F1.7821.00
54_E58_R1.7691.00
37_V51_P1.7411.00
18_E62_N1.5461.00
25_Q46_Q1.5021.00
60_M64_D1.3940.99
40_T46_Q1.3890.99
25_Q40_T1.3790.99
18_E59_Y1.3290.99
27_S34_K1.2220.98
52_K62_N1.2130.98
28_S35_A1.1810.98
11_F35_A1.1760.98
23_S40_T1.1320.97
62_N66_K1.1250.97
11_F50_D1.0960.96
4_P9_M1.0800.95
17_P41_T1.0750.95
24_Y36_G1.0570.95
13_S50_D1.0420.94
11_F36_G1.0410.94
16_I47_S1.0260.94
9_M27_S1.0080.93
47_S63_L1.0050.93
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  
1eigA1199.80.024Contact Map
1eotA10.986399.80.063Contact Map
2mp1A1099.80.063Contact Map
1esrA10.986399.70.065Contact Map
1dokA20.917899.70.071Contact Map
1ha6A10.945299.70.078Contact Map
4rwsC10.904199.70.078Contact Map
1m8aA20.821999.70.08Contact Map
1nr4A80.931599.70.088Contact Map
4xt1B10.876799.70.089Contact 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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