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MIS18BP_c-term

ID: 1488800098 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 50% gaps before running GREMLIN.
Length: 273 (176)
Sequences: 1768 (1668)
Seq/Len: 10.045
Nf(neff/√len): 125.7

Jackhmmer Results: (2016_04)
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: 10.045).

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 > 50% 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
26_L62_K3.1411.00
33_F42_G2.6901.00
21_W29_L2.3261.00
23_E27_Q1.7921.00
57_E61_R1.7831.00
29_L62_K1.7821.00
33_F58_E1.7041.00
26_L29_L1.6141.00
46_E66_N1.6081.00
29_L66_N1.5301.00
21_W62_K1.4841.00
56_P65_E1.4691.00
18_D42_G1.4251.00
62_K66_N1.4221.00
31_C35_S1.4171.00
27_Q31_C1.3850.99
75_H78_K1.3840.99
46_E49_A1.3680.99
46_E62_K1.3550.99
21_W46_E1.3500.99
11_C18_D1.3490.99
57_E60_Q1.3450.99
45_S57_E1.3240.99
12_L16_I1.3180.99
35_S62_K1.3090.99
33_F53_S1.3080.99
41_P60_Q1.2880.99
29_L59_C1.2730.99
29_L51_V1.2720.99
77_T80_K1.2700.99
45_S64_M1.2490.99
41_P61_R1.2480.99
13_P21_W1.2450.98
36_L43_F1.2390.98
61_R64_M1.2380.98
57_E64_M1.2380.98
26_L33_F1.2280.98
20_E27_Q1.2270.98
24_K28_K1.2210.98
27_Q50_A1.2100.98
42_G58_E1.1940.98
62_K65_E1.1900.98
21_W58_E1.1820.98
59_C69_G1.1820.98
26_L58_E1.1700.97
64_M67_P1.1680.97
59_C66_N1.1660.97
26_L30_H1.1640.97
58_E67_P1.1480.97
43_F69_G1.1460.97
59_C62_K1.1410.97
32_A50_A1.1280.97
33_F62_K1.1240.97
43_F59_C1.1220.97
23_E62_K1.1220.97
21_W68_R1.1200.96
30_H33_F1.1120.96
42_G52_G1.1090.96
46_E50_A1.1080.96
58_E65_E1.1040.96
35_S50_A1.0960.96
33_F63_Y1.0920.96
57_E69_G1.0890.96
134_T137_Q1.0890.96
51_V58_E1.0870.96
74_K77_T1.0820.96
56_P61_R1.0820.96
47_V59_C1.0800.95
45_S49_A1.0770.95
21_W66_N1.0730.95
20_E46_E1.0720.95
16_I46_E1.0670.95
46_E65_E1.0640.95
56_P60_Q1.0620.95
49_A68_R1.0590.95
43_F60_Q1.0500.94
108_T115_M1.0430.94
58_E62_K1.0420.94
13_P58_E1.0400.94
67_P71_G1.0380.94
26_L63_Y1.0360.94
36_L66_N1.0340.94
61_R65_E1.0340.94
27_Q46_E1.0300.94
20_E62_K1.0220.93
76_V80_K1.0200.93
28_K51_V1.0180.93
32_A47_V1.0170.93
80_K83_N1.0140.93
30_H43_F1.0110.93
45_S56_P1.0100.93
42_G45_S1.0050.93
18_D58_E1.0020.92
32_A62_K1.0000.92
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  
2m9hA10.344399.60.621Contact Map
2dinA10.241899.50.647Contact Map
2llkA10.201599.50.65Contact Map
1h8aC10.238199.50.65Contact Map
2k9nA10.263799.50.651Contact Map
3zqcA40.30499.50.651Contact Map
1h89C10.238199.50.654Contact Map
1gv2A10.234499.50.658Contact Map
2cu7A10.263799.50.659Contact Map
2cjjA10.230899.50.662Contact 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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