May 4, 2021 - We are working on upgrading the webserver, some pages may not work.
OPENSEQ.org

ZW10

ID: 1419351609 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 779 (735)
Sequences: 1194 (954.8)
Seq/Len: 1.624
Nf(neff/√len): 35.2

Jackhmmer Results: (2014_04_16)
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: 1.624).

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
520_H527_H2.0930.99
294_T300_L2.0710.99
623_S685_L2.0080.98
523_V527_H1.9690.98
46_Y49_F1.8910.97
479_I487_M1.8850.97
292_V295_K1.8820.97
612_N625_A1.8410.97
289_P296_I1.8290.97
254_R257_A1.7470.95
524_P527_H1.7450.95
202_L205_E1.7150.95
308_L311_P1.7090.95
287_P292_V1.6680.94
426_I429_S1.6560.93
289_P295_K1.6440.93
287_P293_F1.5990.92
520_H525_T1.5990.92
287_P295_K1.5990.92
675_S678_D1.5920.91
292_V298_L1.5790.91
201_Y204_T1.5690.91
335_W338_L1.5540.90
292_V296_I1.5540.90
281_M284_L1.5530.90
724_K729_M1.5480.90
697_F700_L1.5360.89
538_A541_H1.5330.89
291_E298_L1.5310.89
286_Y295_K1.5290.89
294_T298_L1.5260.89
142_Q170_K1.5190.89
324_V327_A1.5140.88
292_V300_L1.5140.88
539_A544_N1.5130.88
538_A544_N1.5100.88
673_D678_D1.5080.88
304_Q308_L1.5020.88
540_I543_N1.4990.88
722_P729_M1.4970.88
295_K300_L1.4880.87
227_V230_A1.4870.87
541_H544_N1.4850.87
483_V487_M1.4800.87
733_S736_E1.4800.87
513_R519_F1.4670.86
724_K728_M1.4650.86
548_I563_L1.4640.86
425_I430_K1.4630.86
292_V297_R1.4570.86
716_Y725_E1.4560.86
303_L307_L1.4540.85
482_S496_E1.4420.85
511_S515_I1.4420.85
725_E736_E1.4390.85
330_L335_W1.4360.84
741_W757_V1.4350.84
273_V276_R1.4340.84
281_M285_E1.4320.84
480_S483_V1.4280.84
541_H556_G1.4230.84
276_R280_I1.4210.84
481_E486_L1.4210.84
300_L307_L1.4150.83
46_Y50_L1.4130.83
480_S484_K1.4100.83
548_I551_H1.4100.83
303_L308_L1.4090.83
458_V461_L1.4070.83
331_G339_S1.3900.82
720_W723_F1.3850.81
291_E295_K1.3790.81
544_N551_H1.3780.81
480_S487_M1.3690.80
123_N169_Q1.3650.80
300_L308_L1.3630.80
207_H210_T1.3600.80
285_E288_S1.3580.80
686_C723_F1.3530.79
335_W339_S1.3510.79
540_I544_N1.3490.79
285_E303_L1.3490.79
289_P292_V1.3480.79
285_E290_S1.3440.79
227_V233_V1.3440.79
297_R300_L1.3430.79
249_L257_A1.3350.78
287_P300_L1.3340.78
293_F300_L1.3330.78
297_R301_E1.3270.77
522_V527_H1.3250.77
725_E740_R1.3180.77
480_S496_E1.3140.76
540_I551_H1.3130.76
713_V716_Y1.3030.76
244_F248_L1.3020.76
302_V308_L1.2980.75
540_I553_L1.2940.75
292_V303_L1.2900.75
340_E343_I1.2900.75
289_P300_L1.2890.74
208_L211_E1.2890.74
333_M337_D1.2860.74
298_L303_L1.2860.74
204_T207_H1.2840.74
275_I279_S1.2810.74
70_I73_L1.2800.74
298_L301_E1.2770.74
226_S233_V1.2740.73
340_E344_K1.2740.73
287_P291_E1.2730.73
726_L730_L1.2730.73
538_A543_N1.2720.73
738_G742_A1.2720.73
339_S342_L1.2710.73
504_C511_S1.2690.73
720_W725_E1.2630.72
402_K410_A1.2630.72
196_S199_E1.2630.72
201_Y205_E1.2600.72
286_Y300_L1.2590.72
548_I561_L1.2570.72
197_S200_S1.2570.72
296_I300_L1.2520.71
487_M496_E1.2490.71
289_P299_V1.2490.71
721_M725_E1.2480.71
230_A234_L1.2450.71
272_I276_R1.2410.70
745_K751_A1.2360.70
724_K730_L1.2350.70
249_L252_I1.2340.70
294_T297_R1.2330.70
284_L288_S1.2290.69
692_E696_V1.2280.69
200_S204_T1.2280.69
288_S300_L1.2250.69
470_H581_F1.2250.69
231_F235_G1.2250.69
309_D313_D1.2230.69
303_L309_D1.2220.69
707_K710_Q1.2210.69
483_V496_E1.2210.69
485_K489_L1.2200.69
130_K133_T1.2200.69
736_E739_D1.2190.68
287_P290_S1.2190.68
434_P437_P1.2180.68
308_L312_L1.2180.68
427_P430_K1.2180.68
305_K308_L1.2170.68
283_N287_P1.2150.68
599_E632_Q1.2120.68
285_E300_L1.2120.68
715_V719_K1.2110.68
284_L289_P1.2090.68
206_L209_Y1.2050.67
308_L313_D1.2020.67
399_F403_K1.2000.67
455_Y458_V1.2000.67
45_K50_L1.1990.67
300_L311_P1.1960.66
295_K298_L1.1930.66
304_Q307_L1.1890.66
166_L170_K1.1880.66
725_E728_M1.1860.65
232_S235_G1.1830.65
24_I31_V1.1810.65
237_L245_G1.1800.65
282_T288_S1.1760.64
332_D335_W1.1760.64
754_S757_V1.1740.64
637_G649_Y1.1740.64
484_K488_E1.1710.64
161_S166_L1.1700.64
123_N172_N1.1700.64
264_A269_Q1.1690.64
227_V232_S1.1690.64
613_M675_S1.1680.64
243_S247_M1.1670.64
286_Y292_V1.1640.63
705_K710_Q1.1640.63
229_L234_L1.1640.63
203_Q206_L1.1630.63
337_D341_C1.1620.63
552_L555_L1.1600.63
725_E729_M1.1590.63
205_E211_E1.1590.63
272_I275_I1.1570.63
509_F513_R1.1570.63
20_L24_I1.1560.62
720_W729_M1.1550.62
42_I49_F1.1550.62
224_I227_V1.1540.62
290_S294_T1.1530.62
705_K708_K1.1520.62
725_E739_D1.1520.62
282_T294_T1.1510.62
281_M286_Y1.1510.62
220_P226_S1.1490.62
282_T298_L1.1480.62
537_L560_R1.1480.62
685_L688_T1.1430.61
137_R141_A1.1430.61
293_F298_L1.1390.61
288_S295_K1.1390.61
306_Q309_D1.1380.61
240_K248_L1.1370.61
307_L311_P1.1340.60
478_R483_V1.1320.60
483_V544_N1.1310.60
742_A750_A1.1310.60
648_I653_M1.1300.60
539_A543_N1.1300.60
506_V509_F1.1300.60
129_K180_E1.1290.60
302_V309_D1.1290.60
330_L336_E1.1260.59
541_H545_C1.1260.59
241_L252_I1.1250.59
331_G334_I1.1250.59
148_L151_R1.1240.59
479_I483_V1.1230.59
331_G335_W1.1230.59
330_L334_I1.1220.59
678_D685_L1.1220.59
728_M752_F1.1200.59
625_A685_L1.1200.59
342_L345_N1.1190.59
313_D316_L1.1170.59
607_A610_F1.1160.58
734_L738_G1.1160.58
314_T317_E1.1150.58
123_N165_E1.1150.58
205_E210_T1.1140.58
709_Y712_E1.1130.58
281_M300_L1.1120.58
122_Y138_L1.1120.58
226_S235_G1.1110.58
351_I355_S1.1110.58
246_Q259_C1.1110.58
717_V723_F1.1100.58
479_I484_K1.1100.58
599_E603_R1.1100.58
502_D505_A1.1080.58
295_K299_V1.1080.58
368_T372_E1.1060.57
282_T292_V1.1060.57
467_L471_S1.1050.57
110_K162_L1.1020.57
230_A235_G1.1010.57
357_K360_Q1.1000.57
718_P725_E1.0990.57
292_V312_L1.0990.57
288_S291_E1.0980.57
13_G16_E1.0970.56
758_K762_R1.0970.56
293_F301_E1.0960.56
68_E75_S1.0940.56
537_L549_A1.0920.56
276_R279_S1.0900.56
85_L88_S1.0890.56
266_I270_P1.0890.56
291_E307_L1.0870.55
480_S544_N1.0840.55
592_Q596_Q1.0840.55
85_L539_A1.0830.55
228_L231_F1.0820.55
337_D340_E1.0820.55
726_L729_M1.0800.55
706_N710_Q1.0780.54
411_A423_V1.0780.54
42_I50_L1.0770.54
275_I280_I1.0760.54
109_L162_L1.0750.54
288_S292_V1.0740.54
741_W744_G1.0730.54
299_V306_Q1.0730.54
31_V34_I1.0720.54
282_T289_P1.0720.54
722_P726_L1.0720.54
710_Q713_V1.0710.54
737_I741_W1.0700.54
217_E222_P1.0670.53
298_L308_L1.0670.53
334_I339_S1.0660.53
484_K487_M1.0650.53
306_Q311_P1.0650.53
478_R487_M1.0640.53
377_E600_L1.0640.53
334_I337_D1.0630.53
712_E715_V1.0630.53
125_A137_R1.0620.53
297_R304_Q1.0590.52
741_W754_S1.0590.52
287_P298_L1.0580.52
678_D693_G1.0560.52
704_S707_K1.0540.52
478_R484_K1.0530.52
537_L544_N1.0530.52
704_S709_Y1.0510.52
303_L306_Q1.0510.52
19_D22_T1.0510.52
504_C513_R1.0500.52
82_R85_L1.0500.52
723_F731_Q1.0490.51
371_F516_F1.0490.51
564_A569_D1.0490.51
716_Y720_W1.0490.51
350_S353_T1.0480.51
199_E202_L1.0480.51
478_R491_Y1.0480.51
238_H249_L1.0470.51
522_V525_T1.0470.51
754_S759_A1.0470.51
289_P298_L1.0460.51
324_V338_L1.0460.51
350_S355_S1.0450.51
330_L333_M1.0420.51
720_W727_M1.0420.51
511_S514_N1.0410.51
480_S491_Y1.0410.51
371_F482_S1.0410.51
277_F280_I1.0410.51
181_W693_G1.0400.50
109_L138_L1.0400.50
543_N551_H1.0400.50
591_A595_A1.0400.50
112_L159_L1.0400.50
742_A758_K1.0390.50
734_L761_I1.0390.50
719_K724_K1.0370.50
123_N126_L1.0360.50
296_I302_V1.0360.50
487_M551_H1.0330.50
290_S295_K1.0310.50
453_T457_E1.0300.49
31_V35_K1.0300.49
711_E714_P1.0300.49
289_P293_F1.0300.49
195_T198_L1.0280.49
114_E117_T1.0270.49
521_D527_H1.0260.49
361_Y376_K1.0250.49
243_S248_L1.0250.49
289_P294_T1.0250.49
177_L325_P1.0230.49
537_L540_I1.0230.49
181_W184_L1.0230.49
741_W751_A1.0210.48
637_G681_R1.0210.48
68_E72_L1.0210.48
481_E485_K1.0210.48
733_S744_G1.0200.48
724_K727_M1.0190.48
206_L211_E1.0190.48
585_G589_F1.0180.48
467_L473_S1.0180.48
311_P316_L1.0180.48
716_Y721_M1.0160.48
294_T303_L1.0160.48
284_L296_I1.0160.48
233_V237_L1.0150.48
718_P721_M1.0150.48
482_S487_M1.0150.48
307_L310_L1.0140.48
283_N286_Y1.0140.48
202_L207_H1.0140.48
459_M462_E1.0130.48
109_L165_E1.0130.48
745_K750_A1.0120.48
742_A751_A1.0120.48
549_A553_L1.0120.48
206_L210_T1.0110.47
238_H244_F1.0110.47
745_K758_K1.0110.47
229_L233_V1.0110.47
543_N549_A1.0110.47
728_M732_A1.0110.47
298_L302_V1.0100.47
284_L304_Q1.0090.47
205_E208_L1.0090.47
293_F296_I1.0090.47
739_D745_K1.0060.47
726_L752_F1.0050.47
523_V531_L1.0050.47
406_D410_A1.0050.47
544_N683_Y1.0040.47
479_I491_Y1.0040.47
322_S325_P1.0030.47
115_F166_L1.0030.47
733_S738_G1.0020.46
584_L591_A1.0000.46
300_L310_L1.0000.46
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: (06Sep14)
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  
3k8pC10.36331000.643Contact Map
2a2fX10.374899.90.793Contact Map
3fhnA40.779299.90.803Contact Map
2fji120.4399.80.813Contact Map
3hr0A20.296599.80.823Contact Map
3n1eA20.178498.50.911Contact Map
3swhA20.34498.20.917Contact Map
3ns4A10.174697.80.925Contact Map
2jqqA10.183696.60.938Contact Map
3etvA10.359496.50.938Contact 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.

Page generated in 2.2191 seconds.