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JULY30_eIF2B_human_gamma

ID: 1501460767 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 452 (445)
Sequences: 919 (558)
Seq/Len: 2.065
Nf(neff/√len): 26.5

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: 2.065).

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
392_L398_V5.6211.00
390_C404_I4.8711.00
121_F129_A3.6141.00
387_I390_C3.4271.00
404_I407_S3.2641.00
378_S395_S3.1541.00
399_E417_K3.0711.00
409_I415_I2.9581.00
382_K400_E2.7731.00
385_V400_E2.7201.00
368_S385_V2.6771.00
373_S387_I2.5951.00
409_I413_A2.5001.00
387_I392_L2.3001.00
25_K107_D2.2681.00
421_I426_I2.2011.00
402_S419_A2.1891.00
392_L396_V2.0910.99
368_S400_E2.0590.99
107_D312_R2.0490.99
30_V35_L2.0290.99
40_L51_V1.9990.99
88_D91_R1.9750.99
48_F102_L1.9480.99
383_D400_E1.9050.99
370_I373_S1.8560.98
352_V356_S1.8270.98
375_I379_C1.8050.98
365_G383_D1.7940.98
404_I421_I1.7500.97
13_G25_K1.7200.97
7_V40_L1.7180.97
309_L325_Q1.6990.96
416_E431_R1.6750.96
313_V322_A1.6600.96
417_K434_A1.6600.96
320_M391_L1.6570.96
377_S394_N1.6000.94
24_P27_L1.5990.94
379_C392_L1.5910.94
327_P357_L1.5810.94
130_M167_L1.5800.94
105_S203_H1.5790.94
396_V410_C1.5780.94
385_V417_K1.5510.93
380_L397_T1.5460.93
364_I370_I1.5410.93
416_E434_A1.5390.93
361_E387_I1.5390.93
25_K35_L1.5300.93
399_E419_A1.5120.92
103_V224_I1.5030.92
224_I228_L1.4990.92
387_I403_N1.4690.90
370_I375_I1.4630.90
407_S424_C1.4380.89
400_E417_K1.4290.89
363_Q380_L1.4260.89
433_E436_A1.4230.88
361_E378_S1.4150.88
421_I424_C1.4080.88
415_I421_I1.3870.87
358_I378_S1.3850.87
399_E416_E1.3780.86
365_G400_E1.3630.85
20_T107_D1.3620.85
404_I409_I1.3500.85
8_M205_Y1.3470.84
384_R400_E1.3430.84
362_T379_C1.3390.84
27_L34_P1.3370.84
25_K312_R1.3360.84
84_M92_Y1.3230.83
24_P34_P1.3160.83
388_T405_Q1.3090.82
132_M158_I1.3050.82
208_K233_V1.2850.80
97_L101_V1.2850.80
6_V9_A1.2820.80
207_L224_I1.2780.80
399_E402_S1.2770.80
158_I167_L1.2690.79
396_V442_V1.2660.79
73_P78_I1.2640.79
402_S416_E1.2620.79
346_I350_H1.2610.79
392_L409_I1.2500.78
385_V398_V1.2360.77
39_P104_L1.2250.76
2_E122_R1.2240.76
358_I398_V1.2200.75
341_H377_S1.2090.74
11_G25_K1.2080.74
36_I206_C1.2020.74
78_I206_C1.2000.74
368_S387_I1.1990.74
413_A426_I1.1980.74
379_C396_V1.1970.73
439_V442_V1.1960.73
266_F269_E1.1950.73
209_K213_D1.1900.73
34_P38_Y1.1900.73
407_S415_I1.1890.73
35_L230_P1.1840.72
410_C428_S1.1830.72
19_L230_P1.1810.72
401_G418_G1.1770.72
10_V25_K1.1760.72
438_R443_I1.1710.71
396_V402_S1.1660.71
384_R401_G1.1610.70
85_G103_V1.1570.70
15_R25_K1.1510.69
25_K86_T1.1450.69
105_S108_L1.1410.68
35_L39_P1.1400.68
251_E257_E1.1380.68
375_I381_I1.1380.68
314_S324_R1.1360.68
126_A132_M1.1260.67
419_A436_A1.1230.66
355_D372_R1.1230.66
370_I388_T1.1220.66
412_N421_I1.1210.66
25_K105_S1.1190.66
367_K371_K1.1160.66
29_P34_P1.1140.66
97_L336_E1.1140.66
332_A335_P1.1120.65
393_M410_C1.1120.65
109_I374_V1.1120.65
101_V207_L1.1120.65
182_I403_N1.1110.65
285_C288_D1.1110.65
30_V109_I1.1030.64
8_M86_T1.0980.64
235_K238_S1.0970.64
112_V364_I1.0960.64
374_V391_L1.0940.64
267_I274_N1.0890.63
34_P37_W1.0790.62
415_I426_I1.0790.62
359_G362_T1.0740.61
29_P379_C1.0720.61
429_G435_K1.0680.61
3_F122_R1.0620.60
25_K205_Y1.0620.60
110_T387_I1.0620.60
390_C407_S1.0590.60
112_V131_L1.0580.60
48_F429_G1.0580.60
155_R197_T1.0530.59
326_V408_V1.0520.59
233_V236_Q1.0500.59
365_G412_N1.0490.59
205_Y210_Y1.0480.59
234_R238_S1.0470.58
414_V431_R1.0470.58
281_C284_A1.0430.58
371_K388_T1.0410.58
15_R26_P1.0400.58
224_I229_I1.0400.58
87_A215_L1.0400.58
164_G389_N1.0400.58
32_N359_G1.0390.58
365_G368_S1.0380.57
125_D409_I1.0350.57
414_V417_K1.0350.57
86_T205_Y1.0310.57
200_V424_C1.0300.57
395_S402_S1.0300.57
394_N411_N1.0300.57
35_L313_V1.0290.56
89_S336_E1.0270.56
223_S226_S1.0250.56
376_G379_C1.0230.56
102_L411_N1.0220.56
103_V315_T1.0200.55
113_A409_I1.0200.55
197_T205_Y1.0180.55
49_E114_L1.0180.55
409_I426_I1.0160.55
251_E256_K1.0130.55
80_D120_L1.0120.55
128_L229_I1.0120.55
385_V399_E1.0070.54
32_N38_Y1.0040.54
329_L335_P1.0010.53
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  
3brkX10.75221000.575Contact Map
1yp2A40.80531000.579Contact Map
2ggoA10.76331000.615Contact Map
1hm9A20.77881000.629Contact Map
4g3qA10.79651000.637Contact Map
2v0hA10.78981000.648Contact Map
4fceA10.77881000.657Contact Map
2icyA20.73451000.708Contact Map
2i5kA20.74341000.729Contact Map
4r7pA401000.743Contact 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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