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OPENSEQ.org

SQase -force run

ID: 1510667096 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 845 (755)
Sequences: 236 (153.8)
Seq/Len: 0.313
Nf(neff/√len): 5.6

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: 0.313).

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
469_T542_V3.2130.99
531_K586_E3.0870.98
265_R277_D2.9680.98
620_L690_V2.5500.93
493_V506_I2.1540.82
94_V566_M2.1340.81
445_V454_K2.1240.80
675_E708_N2.0500.77
652_A736_A2.0470.77
334_L354_I1.9890.74
392_S726_K1.9430.71
395_V421_A1.9250.70
445_V540_D1.8740.67
492_A498_L1.8710.67
531_K582_E1.8530.66
399_Q425_Q1.8440.66
421_A468_M1.8200.64
394_A715_F1.8170.64
290_Q318_Y1.8090.63
438_Q512_T1.8050.63
637_K763_E1.7560.60
326_T330_K1.7550.60
497_I526_T1.7310.58
729_R767_V1.7150.57
461_S543_R1.7070.57
408_I706_Y1.7020.56
523_H526_T1.6850.55
260_S279_K1.6660.54
295_G633_N1.6620.54
798_H801_T1.6380.52
766_L772_L1.6250.51
531_K535_Q1.6250.51
750_H766_L1.6150.50
444_E487_N1.6070.50
418_P719_A1.6020.50
627_M671_Y1.5980.49
516_V663_S1.5880.49
290_Q621_F1.5780.48
461_S466_K1.5590.47
331_S364_L1.5580.47
656_S681_W1.5540.46
420_S749_L1.5480.46
392_S722_Y1.5470.46
706_Y718_C1.5440.46
535_Q586_E1.5360.45
679_L714_H1.5280.45
453_W457_I1.5250.44
524_P560_Y1.5220.44
568_A575_L1.5160.44
400_G425_Q1.5080.43
637_K777_L1.5070.43
722_Y729_R1.5020.43
318_Y621_F1.5000.43
258_Y324_Y1.4980.43
396_V412_L1.4970.42
107_E349_C1.4950.42
340_S611_F1.4880.42
774_V786_V1.4830.42
733_V743_V1.4820.41
266_F715_F1.4770.41
519_L526_T1.4700.41
277_D827_E1.4660.40
784_V822_A1.4650.40
609_A721_I1.4460.39
604_V620_L1.4210.38
338_N356_G1.4140.37
431_R476_T1.4140.37
504_G636_I1.4080.37
404_K408_I1.4030.36
377_T567_T1.4010.36
584_V597_E1.3980.36
269_F352_I1.3900.36
404_K706_Y1.3820.35
290_Q627_M1.3790.35
318_Y627_M1.3790.35
798_H802_G1.3790.35
418_P720_K1.3700.34
324_Y678_L1.3690.34
374_E739_K1.3670.34
94_V801_T1.3630.34
476_T674_S1.3520.33
315_S814_V1.3520.33
475_L633_N1.3490.33
326_T765_F1.3480.33
489_F506_I1.3440.33
290_Q663_S1.3440.33
489_F543_R1.3420.33
578_K582_E1.3410.33
798_H805_Y1.3310.32
515_D715_F1.3290.32
578_K617_W1.3290.32
405_V638_S1.3280.32
454_K540_D1.3280.32
278_F324_Y1.3270.32
409_L419_I1.3260.32
318_Y572_Y1.3250.32
273_F318_Y1.3240.32
431_R439_L1.3140.31
341_V353_Q1.3090.31
370_V750_H1.3060.31
252_N342_F1.3030.30
318_Y671_Y1.2990.30
545_W580_N1.2980.30
561_S568_A1.2960.30
269_F396_V1.2920.30
582_E586_E1.2920.30
474_C572_Y1.2900.30
402_T425_Q1.2880.30
632_A641_L1.2860.29
559_L656_S1.2780.29
574_E612_R1.2780.29
278_F623_E1.2750.29
705_F711_T1.2750.29
318_Y424_L1.2720.29
446_D456_L1.2710.29
281_R779_K1.2680.28
640_V777_L1.2670.28
707_S711_T1.2670.28
295_G475_L1.2670.28
420_S722_Y1.2630.28
732_L743_V1.2610.28
300_T311_G1.2600.28
632_A637_K1.2590.28
492_A801_T1.2580.28
283_V314_D1.2500.27
398_M422_F1.2440.27
368_S764_Q1.2420.27
706_Y729_R1.2420.27
393_G673_R1.2410.27
371_E734_K1.2390.27
353_Q565_P1.2370.27
295_G405_V1.2320.26
749_L757_V1.2320.26
370_V741_L1.2300.26
277_D759_T1.2290.26
653_F733_V1.2290.26
79_V368_S1.2290.26
325_M340_S1.2280.26
754_D787_Y1.2280.26
368_S501_D1.2280.26
390_I722_Y1.2260.26
273_F290_Q1.2250.26
413_R463_Q1.2230.26
267_F581_R1.2230.26
376_F498_L1.2230.26
724_A799_V1.2170.26
396_V840_K1.2160.26
815_E818_I1.2150.26
300_T747_L1.2150.26
498_L584_V1.2130.25
287_V508_M1.2130.25
801_T820_Y1.2100.25
734_K738_E1.2100.25
440_W446_D1.2070.25
439_L798_H1.2040.25
460_L475_L1.2040.25
621_F627_M1.2030.25
258_Y361_G1.2030.25
606_F708_N1.2020.25
267_F399_Q1.2020.25
267_F425_Q1.2010.25
282_K341_V1.2010.25
655_H673_R1.1980.25
571_R574_E1.1980.25
437_S700_S1.1950.25
260_S350_V1.1940.24
426_D429_G1.1930.24
747_L772_L1.1930.24
474_C518_M1.1930.24
425_Q653_F1.1920.24
278_F310_A1.1910.24
135_I182_G1.1890.24
405_V597_E1.1880.24
283_V746_H1.1870.24
87_A486_R1.1860.24
409_L422_F1.1840.24
440_W476_T1.1790.24
741_L766_L1.1780.24
646_S653_F1.1750.24
167_F771_I1.1690.23
431_R559_L1.1650.23
340_S353_Q1.1650.23
438_Q511_N1.1610.23
433_T514_F1.1600.23
299_I316_T1.1590.23
254_V493_V1.1580.23
729_R764_Q1.1570.23
271_E541_G1.1570.23
764_Q772_L1.1550.23
336_G356_G1.1550.23
497_I523_H1.1540.23
630_W638_S1.1540.23
499_V518_M1.1530.22
290_Q638_S1.1530.22
342_F714_H1.1490.22
466_K807_K1.1480.22
331_S736_A1.1480.22
405_V408_I1.1470.22
175_V630_W1.1460.22
256_V838_N1.1460.22
538_V603_L1.1450.22
499_V557_A1.1450.22
415_K815_E1.1430.22
297_Q630_W1.1420.22
528_G713_S1.1420.22
425_Q638_S1.1410.22
412_L417_T1.1410.22
85_V304_N1.1400.22
323_F825_V1.1380.22
399_Q695_E1.1370.22
500_K818_I1.1340.22
517_G747_L1.1330.22
373_I564_D1.1320.21
531_K614_S1.1310.21
586_E614_S1.1300.21
265_R471_C1.1290.21
269_F344_L1.1290.21
264_E493_V1.1230.21
424_L446_D1.1230.21
286_F652_A1.1220.21
94_V636_I1.1220.21
318_Y405_V1.1180.21
441_W472_N1.1180.21
693_T717_R1.1160.21
299_I391_I1.1140.21
466_K543_R1.1130.21
287_V512_T1.1120.21
516_V627_M1.1110.21
326_T351_Q1.1110.21
512_T572_Y1.1110.21
501_D505_G1.1090.20
456_L459_D1.1070.20
425_Q581_R1.1070.20
581_R600_Q1.1060.20
428_V469_T1.1060.20
174_Q630_W1.1050.20
516_V695_E1.1040.20
424_L518_M1.1010.20
393_G704_Q1.1000.20
493_V565_P1.1000.20
332_L363_I1.0980.20
611_F715_F1.0980.20
693_T799_V1.0970.20
488_L690_V1.0950.20
452_G455_Q1.0950.20
547_A580_N1.0950.20
53_L461_S1.0920.20
711_T726_K1.0920.20
426_D470_Y1.0900.20
433_T580_N1.0880.20
460_L749_L1.0860.19
318_Y474_C1.0860.19
429_G470_Y1.0860.19
500_K506_I1.0860.19
393_G655_H1.0850.19
560_Y713_S1.0830.19
509_V609_A1.0820.19
135_I166_V1.0800.19
279_K286_F1.0780.19
368_S567_T1.0760.19
174_Q379_T1.0740.19
828_G833_E1.0720.19
85_V324_Y1.0720.19
85_V278_F1.0720.19
433_T436_G1.0700.19
295_G630_W1.0690.19
457_I706_Y1.0690.19
269_F777_L1.0680.19
463_Q780_G1.0680.19
76_W343_D1.0680.19
803_K816_A1.0670.19
751_Y791_S1.0670.19
461_S540_D1.0640.19
497_I807_K1.0630.18
726_K730_I1.0630.18
489_F501_D1.0630.18
584_V605_F1.0630.18
318_Y499_V1.0620.18
499_V509_V1.0620.18
435_I662_C1.0610.18
395_V717_R1.0600.18
1_M537_M1.0590.18
464_H526_T1.0580.18
89_A324_Y1.0580.18
425_Q649_S1.0570.18
263_N521_F1.0560.18
513_A572_Y1.0560.18
273_F627_M1.0540.18
290_Q646_S1.0540.18
632_A763_E1.0540.18
273_F671_Y1.0520.18
303_A630_W1.0520.18
319_A621_F1.0500.18
566_M663_S1.0500.18
673_R704_Q1.0490.18
801_T823_I1.0490.18
492_A817_Q1.0490.18
518_M766_L1.0460.18
679_L718_C1.0450.18
276_M758_Q1.0440.18
466_K821_P1.0430.18
301_F305_L1.0430.18
53_L678_L1.0420.18
87_A523_H1.0420.18
276_M752_P1.0420.18
74_S135_I1.0400.18
534_L542_V1.0350.17
478_M484_V1.0350.17
472_N683_E1.0350.17
403_D803_K1.0350.17
521_F791_S1.0350.17
581_R614_S1.0350.17
115_Q498_L1.0340.17
507_Y556_D1.0340.17
517_G615_P1.0340.17
469_T718_C1.0330.17
637_K641_L1.0330.17
408_I530_F1.0320.17
74_S805_Y1.0320.17
72_T422_F1.0310.17
417_T766_L1.0310.17
347_D505_G1.0300.17
601_E732_L1.0290.17
430_Q449_R1.0290.17
565_P729_R1.0280.17
443_W472_N1.0270.17
516_V744_C1.0270.17
388_D392_S1.0260.17
400_G586_E1.0250.17
85_V533_I1.0250.17
578_K609_A1.0230.17
283_V287_V1.0230.17
585_E600_Q1.0230.17
100_S438_Q1.0220.17
424_L649_S1.0220.17
354_I722_Y1.0210.17
757_V760_L1.0210.17
393_G441_W1.0200.17
415_K739_K1.0190.17
527_A579_I1.0190.17
722_Y743_V1.0180.17
292_I640_V1.0180.17
78_T321_S1.0180.17
175_V471_C1.0180.17
107_E115_Q1.0170.17
86_S752_P1.0160.17
419_I584_V1.0160.17
137_S521_F1.0150.17
492_A630_W1.0150.17
94_V131_I1.0150.17
428_V432_K1.0140.17
500_K602_D1.0140.17
561_S690_V1.0140.17
446_D506_I1.0140.17
393_G397_G1.0140.17
476_T606_F1.0130.17
129_L786_V1.0120.16
561_S743_V1.0120.16
442_N600_Q1.0110.16
101_F807_K1.0110.16
339_Y628_V1.0110.16
318_Y516_V1.0100.16
565_P781_K1.0080.16
165_M755_E1.0080.16
763_E777_L1.0070.16
1_M298_P1.0070.16
736_A743_V1.0070.16
722_Y750_H1.0070.16
304_N572_Y1.0060.16
290_Q424_L1.0060.16
600_Q619_S1.0040.16
331_S425_Q1.0040.16
296_D300_T1.0030.16
684_L744_C1.0020.16
493_V679_L1.0000.16
354_I686_A1.0000.16
495_S839_L1.0000.16
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  
2f2hA60.79761000.654Contact Map
4ba0A10.74321000.66Contact Map
4kmqA10.78341000.665Contact Map
3nsxA20.66511000.665Contact Map
2g3mA60.67571000.679Contact Map
3lppA40.75381000.68Contact Map
3l4yA10.7871000.682Contact Map
3weoA10.77161000.684Contact Map
2xvlA10.76451000.684Contact Map
4xpqA101000.686Contact 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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