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JULY30_eIF2B_human_epsilon 1-470

ID: 1501533641 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 470 (420)
Sequences: 1003 (658.2)
Seq/Len: 2.388
Nf(neff/√len): 32.1

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: 2.388).

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
396_L402_V4.9871.00
391_L394_T4.3441.00
425_L431_L3.5541.00
394_T408_I3.4221.00
408_I411_S3.3571.00
386_G404_A3.0051.00
396_L400_V2.9151.00
413_L419_V2.8891.00
374_I377_S2.7331.00
382_G399_G2.6341.00
403_A421_E2.6321.00
377_S391_L2.5441.00
168_H182_T2.5061.00
406_A423_V2.4771.00
413_L417_A2.4701.00
389_V404_A2.1501.00
383_C400_V2.1271.00
80_L91_T2.1011.00
372_C389_V2.1011.00
391_L396_L2.0781.00
387_D404_A2.0711.00
65_R154_D2.0330.99
381_P398_Q2.0040.99
46_V92_F2.0020.99
166_E170_L2.0010.99
411_S429_S1.9900.99
421_E439_P1.9800.99
408_I425_L1.9790.99
392_D409_H1.9750.99
369_G387_D1.9410.99
425_L429_S1.9390.99
164_A251_I1.9210.99
420_K439_P1.9210.99
379_I396_L1.9190.99
53_D65_R1.8550.99
383_C396_L1.8310.99
133_D136_R1.8160.98
379_I385_I1.7740.98
181_M252_C1.7570.98
408_I413_L1.7550.98
348_V366_T1.7540.98
47_L80_L1.7320.98
372_C404_A1.7310.98
296_Y312_D1.7260.98
164_A184_I1.6740.97
77_D105_H1.6610.97
384_H401_R1.6290.96
362_L382_G1.5930.96
367_V384_H1.5670.95
91_T118_N1.5380.94
156_I309_V1.5320.94
64_P67_L1.5250.94
389_V421_E1.5160.94
400_V413_L1.5160.94
389_V406_A1.5040.94
163_R166_E1.4950.93
400_V414_C1.4660.92
90_E119_V1.4620.92
154_D299_R1.4580.92
419_V425_L1.4570.92
45_A88_V1.4550.92
414_C433_S1.4480.92
356_L360_V1.4220.91
388_N405_G1.4210.91
356_L362_L1.4200.91
365_G382_G1.4190.91
212_V289_M1.4090.90
389_V403_A1.4020.90
307_S395_Y1.3840.89
353_G370_S1.3760.89
405_G422_R1.3420.87
60_S154_D1.3290.86
374_I392_D1.3280.86
94_F125_S1.3270.86
68_L397_W1.3270.86
391_L407_Q1.3190.86
45_A181_M1.3100.85
351_G370_S1.3050.85
373_F390_V1.3040.85
404_A421_E1.3020.85
350_L354_S1.2920.84
413_L440_N1.2820.84
416_N425_L1.2790.83
266_Y272_F1.2650.82
147_D253_S1.2540.82
419_V423_V1.2500.81
76_I93_V1.2410.81
420_K436_V1.2390.81
366_T383_C1.2350.80
160_N163_R1.2340.80
75_L300_V1.2240.80
405_G421_E1.2100.78
426_K445_E1.2090.78
374_I379_I1.2030.78
423_V447_S1.2020.78
155_V245_L1.1960.77
429_S443_L1.1950.77
423_V439_P1.1930.77
437_V449_I1.1880.77
403_A423_V1.1870.77
345_G381_P1.1800.76
70_L156_I1.1750.76
71_A361_L1.1740.75
167_E171_R1.1720.75
423_V441_I1.1700.75
376_N393_Q1.1700.75
399_G415_D1.1690.75
380_G398_Q1.1630.75
403_A420_K1.1620.74
375_T392_D1.1580.74
274_R282_I1.1570.74
383_C398_Q1.1510.73
369_G389_V1.1460.73
47_L91_T1.1440.73
156_I300_V1.1420.73
253_S260_F1.1410.72
314_I361_L1.1390.72
404_A422_R1.1380.72
369_G386_G1.1350.72
55_R65_R1.1330.72
390_V409_H1.1280.71
444_P447_S1.1270.71
403_A415_D1.1270.71
250_S269_R1.1260.71
341_N359_N1.1230.71
397_W414_C1.1200.70
48_V250_S1.1180.70
362_L368_I1.1180.70
70_L396_L1.1130.70
359_N376_N1.1060.69
382_G434_Q1.1060.69
385_I389_V1.1030.69
49_A93_V1.1010.69
149_L415_D1.1000.69
180_V285_N1.0960.68
396_L413_L1.0920.68
384_H416_N1.0910.68
398_Q415_D1.0890.67
159_I368_I1.0880.67
372_C385_I1.0870.67
147_D169_R1.0870.67
425_L437_V1.0850.67
50_D65_R1.0830.67
256_V263_N1.0800.66
260_F264_F1.0700.65
438_G441_I1.0560.64
320_P323_P1.0550.64
369_G383_C1.0540.64
66_V212_V1.0540.64
371_N388_N1.0520.63
369_G404_A1.0470.63
47_L151_V1.0460.63
76_I146_S1.0450.63
129_R137_D1.0430.62
76_I106_L1.0420.62
56_F82_F1.0420.62
67_L74_A1.0420.62
437_V443_L1.0340.61
379_I383_C1.0310.61
303_L402_V1.0300.61
348_V391_L1.0280.61
413_L442_T1.0210.60
45_A136_R1.0190.60
388_N440_N1.0180.60
288_H413_L1.0170.60
210_N291_V1.0160.59
272_F275_G1.0160.59
51_S65_R1.0140.59
271_D406_A1.0130.59
246_D299_R1.0110.59
47_L200_N1.0080.59
400_V429_S1.0030.58
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  
1yp2A40.8171000.621Contact Map
3brkX10.75531000.629Contact Map
2ggoA10.76381000.645Contact Map
4g3qA10.82131000.656Contact Map
1hm9A20.78721000.658Contact Map
2v0hA10.78721000.661Contact Map
4fceA10.77451000.668Contact Map
2icyA20.77021000.748Contact Map
2i5kA20.74681000.766Contact Map
3jukA40.50641000.775Contact 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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