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T0759
ID: 1400262787 Query Sequence

 Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 98 (97)
Sequences: 122 (79.9)
Seq/Len: 1.258
Nf(neff/√len): 8.1
Jackhmmer Results: (2014_04_16)
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: 1.258).

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
21_L70_G1.9160.96
39_E80_Y1.8980.96
23_D63_I1.7690.93
8_G12_S1.7650.93
64_E68_Q1.6390.89
60_K65_E1.5600.86
2_V5_P1.5380.84
73_T93_L1.4300.78
50_S96_G1.3910.75
65_E90_L1.3600.73
1_V77_Y1.3480.72
4_H7_P1.3290.70
9_R78_D1.3170.69
35_C91_A1.2650.65
8_G66_A1.2630.65
66_A86_S1.2530.64
32_S40_I1.2200.61
7_P90_L1.2130.60
10_E15_E1.2130.60
47_G54_D1.2120.60
8_G56_K1.1980.59
3_I88_Q1.1840.57
60_K83_K1.1800.57
37_W80_Y1.1740.56
37_W47_G1.1690.56
15_E53_H1.1650.56
61_F90_L1.1600.55
2_V61_F1.1570.55
63_I73_T1.1510.54
76_H85_M1.1340.52
72_L75_A1.1080.50
27_F97_Q1.1060.50
93_L96_G1.1020.49
16_A90_L1.0950.49
17_H67_L1.0920.48
23_D26_M1.0900.48
67_L93_L1.0840.48
10_E33_Q1.0830.47
42_V81_V1.0630.46
76_H79_R1.0610.45
34_E37_W1.0600.45
22_I47_G1.0590.45
27_F52_I1.0580.45
59_K70_G1.0560.45
4_H64_E1.0540.45
52_I63_I1.0410.43
44_G93_L1.0400.43
2_V13_P1.0330.43
51_V78_D1.0250.42
24_W31_R1.0230.42
66_A96_G1.0220.42
34_E67_L1.0170.41
6_D67_L1.0130.41
3_I36_D1.0070.40
21_L58_G1.0070.40
68_Q86_S1.0060.40
73_T94_V1.0050.40
33_Q54_D1.0010.40
40_I78_D1.0010.40
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: (10May14)
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  
1lm5A20.846999.40.566Contact Map
1lm7A2199.30.585Contact Map
3zntA10.653124.50.905Contact Map
4oh0A10.663319.60.909Contact Map
1nrfA10.683718.50.91Contact Map
4gn2A10.816317.80.911Contact Map
3pbtA10.8571170.912Contact Map
1y7oA70.306115.50.913Contact Map
4iedA40.653115.40.913Contact Map
2j9oA40.816313.90.915Contact 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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