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BtS2R

ID: 1516987032 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 176 (171)
Sequences: 398 (316.2)
Seq/Len: 2.327
Nf(neff/√len): 24.2

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: 2.327).

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
22_I78_L2.2671.00
50_Y54_F2.1491.00
80_F99_P1.9980.99
104_S158_L1.8700.99
30_L74_L1.8680.99
72_C106_H1.8630.99
21_H81_F1.7530.98
77_Q81_F1.7370.98
55_K139_E1.7070.97
157_L160_F1.6900.97
111_L114_I1.6470.96
170_E174_K1.6360.96
22_I82_P1.6020.96
14_L160_F1.5880.95
17_Y21_H1.5580.95
15_G85_A1.5180.94
30_L110_T1.5170.94
160_F164_N1.5120.93
31_Q40_P1.5020.93
25_T78_L1.4920.93
19_L85_A1.4630.92
73_E77_Q1.4600.92
26_L78_L1.4500.91
31_Q34_L1.4470.91
143_L147_Y1.4120.90
19_L22_I1.4070.90
18_F103_Y1.3850.89
86_Y90_K1.3850.89
108_M154_P1.3820.89
21_H25_T1.3680.88
101_I156_I1.3590.88
166_Y170_E1.3380.86
11_E160_F1.3370.86
8_R12_W1.3340.86
32_G158_L1.3110.85
81_F154_P1.3070.85
25_T81_F1.3050.84
71_F75_V1.2950.84
88_F95_W1.2940.84
50_Y56_D1.2920.84
58_L109_T1.2890.83
83_I153_I1.2810.83
7_R12_W1.2600.82
10_L13_F1.2330.80
108_M115_L1.2090.78
71_F156_I1.1970.77
108_M158_L1.1910.76
29_D35_P1.1900.76
77_Q154_P1.1820.75
5_G9_G1.1780.75
46_L49_W1.1760.75
57_P154_P1.1750.75
74_L108_M1.1730.75
21_H24_I1.1620.74
128_H132_Q1.1540.73
49_W52_E1.1440.72
143_L150_Y1.1400.72
98_T162_V1.1400.72
77_Q147_Y1.1390.72
65_W115_L1.1360.71
133_G136_T1.1350.71
98_T159_L1.1280.71
74_L159_L1.1180.70
32_G47_Q1.1120.69
46_L52_E1.1110.69
58_L66_F1.1090.69
33_V70_L1.1040.68
80_F84_A1.0990.68
106_H113_P1.0860.66
2_G5_G1.0820.66
8_R11_E1.0820.66
14_L157_L1.0820.66
17_Y81_F1.0810.66
100_A165_P1.0810.66
40_P119_L1.0800.66
49_W53_E1.0770.65
50_Y73_E1.0760.65
32_G59_L1.0750.65
8_R18_F1.0620.64
100_A104_S1.0490.62
106_H109_T1.0390.61
57_P121_D1.0300.60
77_Q103_Y1.0300.60
114_I164_N1.0290.60
69_F113_P1.0170.59
23_P110_T1.0090.58
48_Q152_L1.0080.58
84_A96_I1.0030.57
96_I100_A1.0010.57
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  
2ka4B10.25571.40.965Contact Map
2qjyA60.38641.40.965Contact Map
2mc7A10.17051.40.965Contact Map
2mheA20.17611.30.966Contact Map
3effK40.556810.968Contact Map
1hznA10.164810.968Contact Map
2wscI10.13640.90.97Contact Map
3pblA20.86360.80.97Contact Map
1b3tA20.32950.80.971Contact Map
4ksnA40.13640.80.971Contact 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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