May 4, 2021 - We are working on upgrading the webserver, some pages may not work.
OPENSEQ.org
Welcome: casp11@openseq.org My Submissions
T0759
ID: 1398964403 Query Sequence

 Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 109 (106)
Sequences: 173 (101.4)
Seq/Len: 1.632
Nf(neff/√len): 9.8
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: 1.632).

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
56_P78_L1.8030.96
84_T105_V1.7170.95
13_V27_A1.7020.94
88_Y93_N1.6670.94
27_A31_G1.6200.92
24_P27_A1.4100.83
13_V24_P1.3830.81
10_H22_L1.3820.81
70_K90_R1.3600.80
71_K94_K1.3490.79
65_D69_G1.3490.79
13_V16_P1.3470.79
83_L95_D1.3430.79
22_L30_A1.3360.78
76_E87_H1.3340.78
27_A38_F1.3120.76
25_E38_F1.3020.76
53_V92_V1.2860.74
7_H11_M1.2800.74
65_D68_S1.2730.73
29_R98_I1.2700.73
21_E26_E1.2690.73
71_K76_E1.2330.70
23_S97_S1.2300.70
77_A100_E1.2100.68
27_A33_I1.2030.67
24_P31_G1.1830.65
75_E79_Q1.1790.65
11_M27_A1.1740.64
3_H7_H1.1740.64
48_W52_S1.1720.64
17_D21_E1.1720.64
50_E91_Y1.1710.64
41_L44_Q1.1590.63
13_V38_F1.1560.63
54_K60_S1.1520.62
47_D88_Y1.1500.62
13_V72_F1.1390.61
97_S104_L1.1180.59
33_I96_M1.1140.58
14_I21_E1.1070.58
87_H90_R1.1040.57
14_I27_A1.1020.57
74_I105_V1.0950.56
9_S13_V1.0840.55
82_R89_D1.0840.55
43_S51_I1.0830.55
21_E44_Q1.0820.55
86_A90_R1.0810.55
23_S102_A1.0780.55
13_V31_G1.0590.53
78_L99_Q1.0440.51
17_D31_G1.0260.49
85_P94_K1.0210.49
74_I91_Y1.0130.48
34_D39_V1.0010.47
12_V30_A1.0010.47
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: (17Apr14)
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  
1lm5A20.834998.60.664Contact Map
1lm7A20.889998.40.687Contact Map
3iezA20.798227.20.898Contact Map
1x0hA10.8716180.906Contact Map
3isuA10.84410.20.916Contact Map
4fmrA40.321180.92Contact Map
2becA10.33036.70.923Contact Map
2o2kA20.88996.40.923Contact Map
3bulA10.88995.90.925Contact Map
1mskA10.88995.80.925Contact 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.
Page generated in 1.1252 seconds.