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bbs_7_sheet1 -force run

ID: 1501723953 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 130 (127)
Sequences: 108 (76.7)
Seq/Len: 0.850
Nf(neff/√len): 6.8

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: 0.850).

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
11_F114_Q1.9550.93
95_G98_G1.8160.89
44_D99_T1.7450.86
79_C83_T1.6520.82
36_I47_I1.6330.81
94_E126_H1.6250.80
36_I55_N1.4970.72
32_V48_D1.4620.69
86_L104_V1.4360.67
6_S9_P1.4300.67
14_N46_P1.4200.66
41_I122_P1.3740.62
9_P13_V1.3560.61
92_S124_S1.3500.60
15_D118_Y1.3440.60
95_G122_P1.3380.59
85_R94_E1.3280.59
77_Y120_I1.3240.58
49_L55_N1.3230.58
103_Y106_P1.3190.58
28_L100_L1.2890.55
19_L62_S1.2850.55
55_N80_Q1.2490.52
95_G125_L1.2170.49
98_G124_S1.2080.48
95_G126_H1.1840.46
51_D80_Q1.1820.46
31_E111_K1.1750.45
51_D113_C1.1700.45
55_N77_Y1.1640.44
75_A110_P1.1600.44
82_N103_Y1.1600.44
36_I39_V1.1520.43
9_P15_D1.1410.42
30_L116_R1.1350.42
37_D103_Y1.1340.41
98_G121_K1.1340.41
24_A38_N1.1310.41
36_I79_C1.1300.41
106_P122_P1.1250.41
73_L106_P1.1230.41
24_A91_R1.1200.40
10_S115_V1.1190.40
19_L45_V1.1180.40
65_D84_T1.1150.40
29_I93_I1.1130.40
29_I70_D1.1100.39
55_N88_L1.1090.39
114_Q121_K1.1080.39
76_T86_L1.1080.39
25_S51_D1.1070.39
49_L80_Q1.1070.39
96_Q125_L1.1040.39
26_Y126_H1.1040.39
120_I124_S1.0980.38
37_D116_R1.0830.37
15_D116_R1.0800.37
91_R124_S1.0780.37
47_I68_S1.0720.36
60_S103_Y1.0690.36
55_N83_T1.0640.36
6_S30_L1.0630.36
22_D90_I1.0550.35
9_P37_D1.0540.35
13_V90_I1.0490.34
87_E94_E1.0490.34
80_Q83_T1.0470.34
62_S81_A1.0400.34
41_I127_Q1.0330.33
76_T128_R1.0270.33
16_K47_I1.0250.32
55_N79_C1.0250.32
6_S28_L1.0200.32
87_E128_R1.0170.32
42_Q71_N1.0070.31
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  
4p6zM10.923118.70.94Contact Map
4en2M20.923118.60.94Contact Map
4iknA10.930817.60.941Contact Map
3l81A10.938513.30.944Contact Map
1i31A10.81549.30.948Contact Map
3ml6A60.97.40.95Contact Map
2vglM10.80777.30.95Contact Map
4fruA10.423150.954Contact Map
1qngA10.37694.50.955Contact Map
2l0lA10.07693.40.957Contact 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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