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OPENSEQ.org

70_63-623

ID: 1478615940 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 456 (437)
Sequences: 972 (661.1)
Seq/Len: 2.224
Nf(neff/√len): 31.6

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: 2.224).

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
199_N304_R2.9771.00
39_R86_E2.8151.00
438_K441_K2.4531.00
140_E218_Y1.8670.99
385_F389_F1.8430.98
306_G344_Y1.8040.98
401_L410_L1.7840.98
153_R160_Y1.7530.98
276_E414_I1.7460.97
382_F386_N1.6700.96
205_T312_N1.6440.96
382_F429_Y1.6380.96
308_F311_M1.6330.96
389_F414_I1.6310.96
61_K173_V1.6190.96
396_T399_Y1.6120.95
31_I94_Y1.5950.95
185_I425_F1.5800.95
375_K438_K1.5690.94
435_N440_I1.5470.94
306_G309_I1.5080.93
393_V450_V1.5070.93
333_G337_L1.5070.93
202_T205_T1.5070.93
212_L267_C1.4950.92
35_L39_R1.4820.92
402_S407_K1.4760.92
18_I50_L1.4570.91
241_E244_Y1.4470.91
390_E442_Y1.4360.90
423_E448_T1.4330.90
308_F312_N1.4270.90
325_L407_K1.4250.90
382_F435_N1.4090.89
379_K382_F1.4000.89
35_L101_K1.3990.89
128_R180_D1.3900.88
401_L414_I1.3860.88
276_E337_L1.3780.88
375_K390_E1.3730.87
8_E46_C1.3670.87
238_N241_E1.3630.87
380_E390_E1.3580.87
349_V423_E1.3530.86
117_A166_C1.3370.85
351_D396_T1.3340.85
260_L323_S1.3270.85
65_Y133_N1.3260.85
136_F173_V1.3160.84
381_K425_F1.3130.84
240_K243_E1.3070.84
90_V104_V1.3040.83
386_N429_Y1.3030.83
304_R308_F1.2970.83
403_D406_L1.2960.83
93_L199_N1.2850.82
274_N278_K1.2850.82
20_D38_E1.2770.82
19_L22_F1.2760.82
101_K163_L1.2670.81
420_P424_R1.2660.81
402_S451_L1.2650.81
215_F226_M1.2640.81
86_E89_L1.2600.80
386_N442_Y1.2580.80
311_M348_M1.2580.80
31_I400_K1.2520.80
15_L128_R1.2520.80
82_F332_E1.2450.79
438_K442_Y1.2410.79
109_L120_F1.2380.79
85_N88_S1.2360.79
386_N422_Y1.2330.78
435_N439_H1.2300.78
89_L349_V1.2290.78
170_V180_D1.2200.77
354_D429_Y1.2140.77
65_Y68_G1.2140.77
304_R311_M1.2090.77
15_L47_M1.2080.76
424_R431_D1.2080.76
243_E247_Q1.2070.76
35_L86_E1.2050.76
401_L406_L1.2040.76
18_I113_I1.2030.76
226_M270_T1.2020.76
315_L319_I1.1980.76
401_L420_P1.1910.75
362_S381_K1.1860.75
138_S150_K1.1850.74
207_D210_S1.1830.74
141_L309_I1.1820.74
357_A383_R1.1800.74
375_K378_I1.1800.74
393_V447_L1.1770.74
66_E267_C1.1760.74
361_D380_E1.1740.74
123_N431_D1.1720.73
20_D96_Q1.1700.73
12_L307_F1.1690.73
413_E417_L1.1680.73
222_C225_A1.1670.73
344_Y392_L1.1660.73
342_K420_P1.1650.73
152_L284_M1.1650.73
218_Y315_L1.1640.73
22_F27_E1.1620.72
280_Q383_R1.1610.72
393_V397_K1.1570.72
283_L399_Y1.1530.72
386_N439_H1.1490.71
191_S404_P1.1490.71
133_N207_D1.1470.71
375_K379_K1.1440.71
169_E172_Q1.1400.70
33_D37_G1.1400.70
78_A209_M1.1390.70
435_N438_K1.1380.70
355_L388_G1.1370.70
65_Y207_D1.1340.70
411_K453_Q1.1340.70
447_L451_L1.1320.70
343_R425_F1.1280.69
345_I439_H1.1270.69
237_S240_K1.1260.69
124_L127_V1.1240.69
4_F85_N1.1210.68
173_V206_V1.1200.68
204_A215_F1.1170.68
330_A352_W1.1170.68
242_K249_E1.1130.68
209_M319_I1.1110.67
378_I429_Y1.1090.67
201_V345_I1.1090.67
147_D391_D1.1050.67
392_L419_M1.1040.67
43_I442_Y1.1010.66
344_Y399_Y1.1010.66
116_Y120_F1.1000.66
320_V329_L1.0990.66
27_E30_I1.0950.66
72_M261_S1.0910.65
75_Y114_S1.0900.65
182_I266_D1.0900.65
419_M423_E1.0890.65
191_S378_I1.0870.65
101_K429_Y1.0850.65
4_F7_Y1.0820.65
261_S451_L1.0820.65
264_I447_L1.0800.64
169_E260_L1.0800.64
22_F40_S1.0790.64
279_A306_G1.0790.64
28_G141_L1.0790.64
425_F428_R1.0780.64
359_L362_S1.0740.64
69_S140_E1.0700.63
426_Y444_P1.0660.63
14_A325_L1.0640.63
279_A391_D1.0610.62
242_K247_Q1.0600.62
40_S91_D1.0590.62
304_R396_T1.0590.62
75_Y142_V1.0590.62
8_E420_P1.0580.62
82_F303_Q1.0560.62
166_C198_N1.0560.62
215_F218_Y1.0560.62
284_M341_K1.0560.62
198_N319_I1.0560.62
199_N399_Y1.0550.62
245_T250_A1.0540.62
38_E93_L1.0540.62
307_F418_V1.0530.61
70_S401_L1.0520.61
206_V319_I1.0520.61
101_K158_Q1.0520.61
389_F407_K1.0510.61
279_A335_S1.0510.61
79_L265_S1.0500.61
404_P414_I1.0500.61
279_A309_I1.0480.61
251_L254_E1.0460.61
72_M181_A1.0430.60
266_D309_I1.0430.60
156_E389_F1.0400.60
267_C346_S1.0390.60
35_L302_K1.0390.60
30_I45_K1.0380.60
264_I307_F1.0370.60
334_H380_E1.0370.60
440_I446_E1.0370.60
329_L333_G1.0370.60
145_I191_S1.0360.60
344_Y447_L1.0360.60
12_L92_D1.0350.59
172_Q225_A1.0330.59
210_S315_L1.0330.59
415_I419_M1.0320.59
231_R234_W1.0310.59
379_K438_K1.0300.59
209_M320_V1.0290.59
136_F204_A1.0290.59
128_R420_P1.0280.59
360_M424_R1.0260.58
174_T225_A1.0260.58
330_A333_G1.0250.58
47_M143_E1.0240.58
207_D315_L1.0220.58
408_V416_S1.0200.58
265_S414_I1.0200.58
247_Q250_A1.0160.57
189_A301_H1.0150.57
9_D141_L1.0140.57
139_F222_C1.0120.57
240_K247_Q1.0110.57
269_D418_V1.0110.57
198_N206_V1.0100.57
85_N218_Y1.0100.57
429_Y439_H1.0090.57
50_L78_A1.0080.56
376_E426_Y1.0040.56
389_F422_Y1.0030.56
401_L418_V1.0030.56
392_L398_Q1.0020.56
94_Y400_K1.0010.56
386_N390_E1.0000.55
139_F397_K1.0000.55
375_K410_L1.0000.55
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  
2b1eA10.95181000.173Contact Map
2pftA10.87721000.202Contact Map
4y21A1073.10.96Contact Map
3r9vA20.302667.30.962Contact Map
3swhA20.434243.70.967Contact Map
2d2sA10.331143.40.967Contact Map
1no4A40.149130.10.97Contact Map
2f8lA10.210522.40.971Contact Map
3khkA20.368421.10.972Contact Map
4gfqA10.188612.80.974Contact 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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