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ID: 1516464400 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 168 (134)
Sequences: 2261 (1704.9)
Seq/Len: 16.873
Nf(neff/√len): 147.3

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: 16.873).

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
121_Q129_G3.4951.00
48_A128_T3.4191.00
44_I68_E2.4731.00
27_I122_L2.4591.00
25_E29_L2.3171.00
99_R116_I2.2921.00
39_D42_K2.1371.00
24_D90_S2.0961.00
96_Y119_V1.9601.00
86_F100_V1.9231.00
63_G66_A1.9191.00
25_E91_S1.8971.00
49_E64_R1.8921.00
38_N75_F1.8721.00
123_T128_T1.8701.00
42_K45_E1.8161.00
51_T67_V1.7921.00
54_Q131_R1.7491.00
24_D122_L1.7201.00
26_K30_E1.6821.00
102_V113_N1.6801.00
100_V113_N1.6601.00
118_G130_W1.6031.00
50_D123_T1.5921.00
98_E131_R1.5571.00
23_P26_K1.5531.00
54_Q129_G1.5121.00
47_F51_T1.5091.00
93_G121_Q1.4881.00
28_V122_L1.4811.00
29_L33_D1.4811.00
87_H98_E1.4601.00
99_R118_G1.4231.00
28_V120_F1.4070.99
49_E126_K1.3740.99
33_D37_S1.3330.99
41_A68_E1.3310.99
30_E46_Y1.3020.99
52_M129_G1.2590.99
34_A42_K1.2530.99
30_E45_E1.2530.99
36_T83_V1.2400.98
29_L88_I1.2210.98
87_H94_L1.2090.98
35_L71_L1.2030.98
25_E90_S1.1980.98
72_A76_T1.1820.98
79_S104_R1.1770.98
51_T64_R1.1610.97
24_D27_I1.1180.96
98_E117_L1.1020.96
118_G132_D1.0960.96
36_T82_A1.0900.96
33_D36_T1.0860.96
96_Y117_L1.0810.95
22_T26_K1.0700.95
55_N132_D1.0590.95
28_V32_M1.0580.95
117_L133_Y1.0270.94
120_F130_W1.0210.93
68_E72_A1.0190.93
80_I103_L1.0100.93
53_Y118_G1.0050.93
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  
4r9kA30.946499.90.247Contact Map
1nwwA20.863199.90.32Contact Map
2f99A40.785799.90.328Contact Map
3k0zA20.863199.80.345Contact Map
2gexA20.815599.80.353Contact Map
3kkgA10.785799.80.353Contact Map
1sjwA10.785799.80.36Contact Map
3ebtA10.738199.80.362Contact Map
3f9sA20.773899.80.364Contact Map
4lgqA40.738199.80.365Contact 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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