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OPENSEQ.org

wspE

ID: 1434492037 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 769 (764)
Sequences: 1150 (918.8)
Seq/Len: 1.505
Nf(neff/√len): 33.2

Jackhmmer Results: (2015_01_07)
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: 1.505).

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
366_T398_G3.9071.00
400_I405_L3.9051.00
358_D447_S3.7401.00
693_L711_V3.1961.00
368_L374_A3.1901.00
496_E575_R3.1801.00
363_A366_T3.0381.00
692_L760_V2.9511.00
325_Q374_A2.9371.00
331_E381_R2.6371.00
48_R51_H2.5561.00
327_R375_E2.5411.00
472_R475_Q2.5051.00
51_H54_K2.4711.00
492_S582_L2.4231.00
48_R54_K2.2380.99
54_K73_E2.2370.99
51_H73_E2.2360.99
433_F467_V2.2140.99
538_L559_V2.1510.99
677_D701_R2.1020.99
432_L453_L2.0870.99
70_H99_D2.0800.99
451_V455_A2.0240.98
51_H70_H2.0190.98
648_I692_L1.9970.98
410_L420_A1.9700.98
702_M706_E1.9610.98
703_D706_E1.9520.98
415_A423_L1.9480.98
433_F469_M1.9460.98
48_R73_E1.9360.97
676_V680_D1.9290.97
693_L720_L1.9090.97
361_I376_G1.9040.97
510_E563_R1.8910.97
404_R407_E1.8710.97
218_P222_S1.8630.97
712_R743_D1.8540.96
708_V742_A1.8440.96
407_E411_N1.8140.96
400_I429_L1.8120.96
232_S241_R1.7790.95
708_V740_A1.7730.95
15_F57_A1.7730.95
70_H73_E1.7370.94
48_R70_H1.7150.94
54_K70_H1.7080.94
233_A237_L1.7060.94
731_E735_R1.6450.92
229_L233_A1.6440.92
673_A690_F1.6440.92
48_R52_S1.6400.92
496_E499_E1.6400.92
242_E246_E1.6320.92
440_R443_V1.6310.92
451_V454_D1.6300.91
94_L99_D1.6170.91
352_L479_F1.6110.91
91_I95_L1.6090.91
603_L609_V1.6030.91
201_R295_A1.5860.90
322_L446_V1.5850.90
405_L437_F1.5810.90
56_A60_V1.5780.90
559_V570_G1.5700.89
409_V431_F1.5660.89
705_I740_A1.5620.89
510_E568_V1.5500.89
657_V664_L1.5450.88
647_R671_D1.5410.88
52_S73_E1.5180.87
310_G346_E1.5140.87
327_R377_R1.5030.86
233_A236_A1.4930.86
329_L377_R1.4930.86
58_R66_V1.4880.86
656_T697_I1.4810.85
492_S611_I1.4790.85
330_V333_E1.4770.85
204_D585_M1.4720.85
585_M601_A1.4580.84
233_A241_R1.4570.84
243_T246_E1.4530.84
237_L241_R1.4520.84
668_R757_L1.4460.83
392_E478_L1.4450.83
254_Q258_G1.4410.83
695_T707_L1.4360.83
651_V693_L1.4330.83
238_D241_R1.4310.82
243_T247_T1.4280.82
331_E379_T1.4250.82
714_D717_L1.4250.82
695_T742_A1.4240.82
51_H55_G1.4200.82
326_V361_I1.4160.82
65_G105_G1.4140.81
433_F457_Q1.4070.81
686_R714_D1.4070.81
695_T724_V1.4060.81
693_L722_V1.4000.81
300_R454_D1.3990.80
51_H99_D1.3950.80
244_V247_T1.3920.80
255_A259_E1.3870.80
313_R316_R1.3830.79
733_D749_A1.3810.79
698_D728_K1.3780.79
234_S237_L1.3680.78
318_L446_V1.3670.78
492_S503_A1.3640.78
424_S427_E1.3540.77
682_W710_L1.3520.77
123_I130_L1.3500.77
737_G749_A1.3500.77
680_D684_A1.3460.77
357_V378_I1.3460.77
673_A688_E1.3460.77
48_R99_D1.3440.77
408_T411_N1.3420.77
36_S39_Q1.3290.76
394_S478_L1.3230.75
503_A601_A1.3200.75
732_E749_A1.3170.75
25_V49_A1.3160.75
400_I473_Q1.3150.74
755_A758_D1.3090.74
737_G740_A1.3070.74
304_F308_L1.3060.74
366_T370_A1.3040.74
379_T394_S1.3010.73
47_M80_Q1.2990.73
255_A262_Q1.2980.73
698_D733_D1.2980.73
22_Q49_A1.2980.73
708_V722_V1.2930.73
370_A474_G1.2880.72
31_M95_L1.2850.72
54_K99_D1.2820.72
234_S241_R1.2820.72
429_L471_Q1.2790.72
18_E51_H1.2760.71
18_E56_A1.2760.71
56_A73_E1.2750.71
516_E519_E1.2740.71
72_M94_L1.2740.71
729_D747_A1.2710.71
709_T740_A1.2690.71
229_L239_V1.2660.70
52_S56_A1.2630.70
604_D726_S1.2620.70
380_I393_L1.2600.70
18_E54_K1.2580.70
681_G685_L1.2570.70
52_S70_H1.2550.69
667_G753_D1.2530.69
318_L358_D1.2510.69
494_V501_A1.2440.68
147_A153_P1.2420.68
236_A241_R1.2410.68
313_R317_D1.2400.68
506_L613_D1.2360.68
358_D444_T1.2340.68
29_G50_A1.2340.68
247_T251_P1.2290.67
728_K737_G1.2290.67
27_N102_L1.2290.67
347_A350_T1.2240.67
229_L241_R1.2230.67
733_D737_G1.2110.65
258_G262_Q1.2100.65
304_F382_A1.2100.65
312_A579_E1.2090.65
726_S745_Y1.2040.65
245_Q248_A1.2030.65
51_H56_A1.2030.65
732_E737_G1.2010.65
230_Q233_A1.1960.64
314_M318_L1.1950.64
158_E165_A1.1930.64
423_L428_L1.1910.64
56_A59_I1.1840.63
144_E152_L1.1770.62
48_R56_A1.1710.62
254_Q262_Q1.1710.62
235_R241_R1.1660.61
511_R532_E1.1640.61
409_V432_L1.1630.61
207_S300_R1.1610.61
470_E480_H1.1600.61
240_V245_Q1.1580.60
192_L380_I1.1570.60
48_R55_G1.1570.60
56_A65_G1.1560.60
205_I427_E1.1550.60
202_L226_L1.1550.60
389_L486_T1.1550.60
253_A259_E1.1500.60
18_E48_R1.1500.60
310_G749_A1.1480.59
123_I127_V1.1480.59
681_G707_L1.1470.59
40_A44_E1.1470.59
146_P150_P1.1460.59
711_V722_V1.1450.59
352_L456_V1.1450.59
697_I724_V1.1440.59
254_Q259_E1.1420.59
229_L236_A1.1390.58
137_G144_E1.1370.58
407_E417_A1.1350.58
213_F582_L1.1320.58
243_T248_A1.1310.58
72_M90_H1.1310.58
530_W533_G1.1290.57
26_L76_L1.1290.57
167_A475_Q1.1280.57
48_R65_G1.1240.57
502_Y610_L1.1230.57
192_L221_D1.1230.57
611_I657_V1.1220.57
123_I129_R1.1200.57
95_L99_D1.1190.56
433_F488_S1.1190.56
158_E166_A1.1190.56
676_V724_V1.1170.56
161_P166_A1.1170.56
744_Y759_A1.1160.56
233_A238_D1.1150.56
54_K58_R1.1150.56
69_A94_L1.1140.56
244_V248_A1.1120.56
65_G73_E1.1110.56
244_V250_D1.1100.55
232_S235_R1.1100.55
402_L428_L1.1070.55
15_F19_A1.1060.55
695_T708_V1.1010.55
457_Q461_R1.1010.55
50_A76_L1.1000.54
692_L764_I1.1000.54
571_V597_V1.0980.54
58_R73_E1.0970.54
659_E737_G1.0960.54
670_Y757_L1.0950.54
401_D473_Q1.0930.54
128_Q132_G1.0920.54
325_Q375_E1.0920.54
400_I432_L1.0910.54
348_P604_D1.0890.53
402_L429_L1.0860.53
403_Q407_E1.0860.53
48_R58_R1.0830.53
329_L379_T1.0830.53
235_R238_D1.0820.53
536_V561_V1.0820.53
159_A162_A1.0800.52
453_L504_F1.0790.52
694_I723_M1.0780.52
502_Y597_V1.0770.52
247_T250_D1.0770.52
241_R245_Q1.0750.52
160_P163_A1.0750.52
128_Q131_E1.0750.52
15_F579_E1.0750.52
651_V681_G1.0740.52
302_R488_S1.0710.51
58_R91_I1.0710.51
708_V724_V1.0700.51
189_S195_T1.0700.51
677_D703_D1.0690.51
462_Q722_V1.0680.51
51_H58_R1.0680.51
226_L229_L1.0680.51
144_E156_A1.0650.51
400_I477_T1.0640.51
300_R451_V1.0640.51
528_H535_H1.0630.51
229_L237_L1.0620.51
232_S237_L1.0600.50
391_L481_V1.0590.50
145_L148_T1.0590.50
236_A243_T1.0590.50
29_G49_A1.0560.50
302_R306_D1.0560.50
198_R712_R1.0540.50
157_P162_A1.0530.50
694_I725_V1.0530.50
232_S239_V1.0520.50
59_I66_V1.0510.49
314_M353_L1.0500.49
410_L416_T1.0500.49
229_L235_R1.0480.49
724_V737_G1.0470.49
151_G361_I1.0470.49
206_S610_L1.0470.49
215_R756_L1.0460.49
391_L430_A1.0430.49
662_R737_G1.0420.48
163_A178_Q1.0400.48
58_R74_D1.0400.48
159_A166_A1.0380.48
228_R232_S1.0360.48
61_G70_H1.0360.48
135_R138_L1.0350.48
301_M500_E1.0340.48
98_C102_L1.0330.48
408_T412_R1.0330.48
166_A170_D1.0320.47
728_K753_D1.0310.47
99_D316_R1.0300.47
136_S157_P1.0300.47
30_L94_L1.0290.47
47_M70_H1.0290.47
659_E724_V1.0270.47
238_D242_E1.0260.47
724_V732_E1.0250.47
26_L216_I1.0240.47
58_R70_H1.0230.47
211_V455_A1.0220.46
728_K733_D1.0220.46
682_W707_L1.0220.46
176_A642_G1.0210.46
585_M599_A1.0190.46
237_L245_Q1.0160.46
233_A239_V1.0160.46
411_N423_L1.0160.46
649_L684_A1.0150.46
152_L159_A1.0150.46
162_A166_A1.0140.46
200_D615_E1.0130.45
18_E22_Q1.0120.45
200_D300_R1.0120.45
18_E73_E1.0110.45
229_L234_S1.0100.45
52_S76_L1.0100.45
153_P156_A1.0090.45
661_E725_V1.0090.45
54_K65_G1.0070.45
242_E248_A1.0070.45
673_A684_A1.0070.45
404_R478_L1.0070.45
301_M486_T1.0060.45
512_M576_F1.0060.45
495_V504_F1.0030.44
315_V378_I1.0030.44
52_S66_V1.0030.44
657_V661_E1.0020.44
582_L601_A1.0020.44
209_S742_A1.0010.44
357_V600_G1.0010.44
232_S236_A1.0010.44
728_K749_A1.0000.44
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: (31Jan15)
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  
1b3qA20.49281000.626Contact Map
3cg4A10.16251000.857Contact Map
2zayA20.15991000.858Contact Map
3c3mA10.15991000.86Contact Map
3breA20.16781000.862Contact Map
3mm4A10.16641000.862Contact Map
1i58A20.24581000.863Contact Map
2qzjA60.15731000.865Contact Map
2qxyA20.15471000.866Contact Map
3cnbA30.15991000.866Contact 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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