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d30PEX5S15112017

ID: 1510756620 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 572 (572)
Sequences: 650 (508.4)
Seq/Len: 1.136
Nf(neff/√len): 21.3

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: 1.136).

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
118_W121_E3.7961.00
233_L237_F2.9351.00
301_P327_Q2.8051.00
254_L258_L2.8031.00
140_W143_E2.5271.00
255_Q258_L2.4370.99
357_R360_E2.4220.99
118_W122_F2.0820.97
220_W224_F2.0620.97
105_R109_V2.0590.97
251_W255_Q2.0520.97
351_A494_T1.9020.95
305_G321_F1.8830.95
254_L257_E1.8410.94
343_A351_A1.8300.93
159_W162_E1.8200.93
251_W254_L1.7400.91
63_V67_L1.7270.91
319_L323_A1.7150.90
105_R108_G1.7080.90
255_Q259_E1.7010.90
201_F205_V1.6830.89
343_A494_T1.6370.87
370_M456_G1.6190.86
210_L214_E1.6000.85
271_W275_Y1.5570.83
87_L90_E1.5480.83
258_L261_M1.5450.83
140_W144_F1.5330.82
436_E440_A1.5260.82
522_R530_I1.5240.81
348_E486_L1.5210.81
251_W257_E1.5190.81
488_W507_A1.5170.81
306_L337_Y1.5110.81
172_W175_E1.5000.80
351_A470_A1.4790.79
257_E261_M1.4760.78
500_Q503_E1.4670.78
28_K481_R1.4650.78
304_E307_R1.4580.77
115_S119_A1.4550.77
235_M238_E1.4490.77
269_H272_L1.4480.77
237_F241_K1.4360.76
172_W176_P1.4260.75
529_C541_H1.4250.75
106_A109_V1.4230.75
298_H301_P1.4190.75
342_Q345_N1.4180.74
343_A470_A1.4130.74
321_F518_Y1.4070.74
121_E125_A1.4060.74
325_V331_H1.4030.73
139_D147_E1.4020.73
389_L495_L1.3950.73
258_L263_K1.3910.72
567_W571_R1.3870.72
545_A566_I1.3840.72
16_P531_N1.3750.71
469_K498_G1.3730.71
221_V224_F1.3670.71
302_F337_Y1.3630.70
210_L213_S1.3630.70
177_E180_A1.3550.70
519_I522_R1.3510.69
116_E119_A1.3440.69
526_G542_F1.3390.68
385_A495_L1.3360.68
252_D260_E1.3340.68
452_D481_R1.3280.67
441_A446_P1.3160.66
302_F331_H1.3160.66
300_Q303_E1.3160.66
397_P400_A1.3140.66
536_R540_E1.3110.66
318_V462_N1.3050.65
238_E241_K1.3030.65
471_V475_T1.3020.65
198_A201_F1.3000.65
137_E140_W1.2890.64
250_F254_L1.2870.64
367_T468_D1.2860.64
254_L262_A1.2810.63
12_G18_M1.2800.63
215_G221_V1.2780.63
79_P82_F1.2760.63
47_S50_A1.2740.63
116_E120_Q1.2710.62
525_L528_S1.2690.62
257_E262_A1.2680.62
220_W223_Q1.2640.62
234_D237_F1.2640.62
481_R484_D1.2600.61
141_S144_F1.2590.61
137_E141_S1.2540.61
213_S216_T1.2500.60
390_R528_S1.2490.60
300_Q548_M1.2460.60
336_Q358_C1.2440.60
439_L443_R1.2440.60
462_N532_L1.2430.60
487_L494_T1.2390.59
258_L262_A1.2310.59
289_F377_T1.2290.59
159_W163_Y1.2280.58
493_A496_A1.2280.58
434_V456_G1.2220.58
141_S145_I1.2220.58
373_A478_L1.2200.58
4_R7_V1.2170.57
255_Q262_A1.2170.57
355_L474_F1.2130.57
250_F257_E1.2110.57
184_W188_Y1.2100.57
347_Q549_Q1.2100.57
215_G220_W1.2080.57
431_F435_K1.2030.56
520_R524_N1.2020.56
253_K257_E1.2020.56
311_E548_M1.2010.56
465_G542_F1.2010.56
313_D316_N1.1960.55
234_D238_E1.1850.54
250_F255_Q1.1850.54
441_A456_G1.1820.54
114_L117_N1.1820.54
529_C538_A1.1800.54
118_W125_A1.1780.54
529_C537_E1.1760.54
377_T459_V1.1690.53
379_E495_L1.1680.53
63_V501_S1.1670.53
307_R311_E1.1670.53
87_L92_Q1.1620.52
513_E548_M1.1610.52
104_Q109_V1.1610.52
428_D519_I1.1610.52
491_L507_A1.1590.52
139_D146_S1.1560.52
321_F368_A1.1550.52
469_K522_R1.1550.52
467_Y551_K1.1550.52
366_Q398_A1.1550.52
138_T148_V1.1520.51
99_F102_A1.1500.51
301_P304_E1.1500.51
442_V453_V1.1480.51
235_M241_K1.1480.51
454_Q473_C1.1450.51
19_K22_G1.1430.50
254_L261_M1.1420.50
345_N522_R1.1400.50
82_F91_M1.1390.50
305_G317_A1.1380.50
328_D331_H1.1360.50
302_F333_E1.1340.50
305_G528_S1.1340.50
198_A209_K1.1340.50
494_T499_N1.1310.49
178_G181_T1.1310.49
194_L198_A1.1310.49
302_F321_F1.1300.49
223_Q226_R1.1290.49
342_Q346_E1.1290.49
217_S220_W1.1280.49
534_A549_Q1.1260.49
318_V400_A1.1250.49
427_S465_G1.1250.49
176_P180_A1.1250.49
459_V526_G1.1200.48
162_E165_E1.1190.48
315_P318_V1.1150.48
79_P87_L1.1150.48
305_G320_L1.1150.48
247_D250_F1.1130.47
201_F204_K1.1120.47
299_P535_H1.1080.47
176_P179_T1.1050.47
357_R513_E1.1030.47
181_T185_Y1.1030.47
342_Q399_Y1.1020.46
464_S467_Y1.1010.46
251_W262_A1.1010.46
261_M264_R1.1010.46
139_D143_E1.1000.46
222_D226_R1.0990.46
440_A443_R1.0980.46
221_V226_R1.0970.46
103_P106_A1.0970.46
377_T386_C1.0950.46
255_Q270_P1.0950.46
510_R513_E1.0940.46
224_F227_P1.0920.45
199_S204_K1.0910.45
377_T431_F1.0890.45
293_N319_L1.0880.45
233_L241_K1.0880.45
276_D279_T1.0860.45
394_R405_P1.0850.45
271_W274_D1.0820.45
208_P212_N1.0800.44
305_G446_P1.0800.44
461_F472_D1.0800.44
470_A494_T1.0790.44
308_R316_N1.0750.44
471_V501_S1.0740.44
195_Q198_A1.0710.43
256_A260_E1.0700.43
488_W542_F1.0700.43
315_P519_I1.0690.43
462_N527_I1.0680.43
173_L176_P1.0670.43
344_E549_Q1.0660.43
525_L538_A1.0650.43
107_P110_A1.0650.43
29_A315_P1.0620.43
316_N550_R1.0620.43
344_E371_A1.0610.43
232_A237_F1.0560.42
248_V252_D1.0540.42
119_A122_F1.0500.42
306_L309_L1.0490.41
21_A503_E1.0450.41
270_P273_S1.0450.41
362_K505_V1.0450.41
455_C494_T1.0450.41
28_K31_R1.0450.41
373_A473_C1.0440.41
22_G435_K1.0430.41
253_K262_A1.0420.41
49_A52_K1.0410.41
355_L538_A1.0410.41
467_Y553_R1.0410.41
351_A487_L1.0370.40
253_K260_E1.0360.40
399_Y469_K1.0360.40
231_S239_R1.0360.40
160_A163_Y1.0350.40
247_D251_W1.0350.40
250_F258_L1.0330.40
43_G46_A1.0320.40
11_C15_N1.0320.40
360_E432_L1.0300.40
120_Q125_A1.0290.40
182_D188_Y1.0270.39
317_A488_W1.0250.39
496_A522_R1.0240.39
449_I453_V1.0230.39
374_V464_S1.0230.39
501_S518_Y1.0220.39
275_Y279_T1.0220.39
498_G501_S1.0210.39
232_A241_K1.0190.39
490_K499_N1.0170.38
351_A464_S1.0160.38
274_D277_D1.0160.38
194_L202_V1.0160.38
348_E400_A1.0160.38
143_E147_E1.0150.38
200_D204_K1.0150.38
517_G529_C1.0140.38
350_L449_I1.0140.38
454_Q472_D1.0130.38
379_E501_S1.0130.38
252_D256_A1.0130.38
82_F87_L1.0120.38
221_V225_T1.0110.38
302_F305_G1.0100.38
233_L238_E1.0100.38
275_Y281_A1.0100.38
302_F306_L1.0090.38
291_E476_A1.0090.38
529_C567_W1.0090.38
482_P567_W1.0080.38
490_K503_E1.0080.38
374_V494_T1.0070.38
106_A112_L1.0060.37
489_N492_G1.0030.37
352_I385_A1.0030.37
116_E121_E1.0020.37
526_G529_C1.0020.37
257_E264_R1.0020.37
517_G526_G1.0020.37
293_N323_A1.0010.37
245_E248_V1.0010.37
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  
4eqfA10.44061000.775Contact Map
1fchA20.47551000.775Contact Map
3cv0A10.47031000.823Contact Map
3dssA10.45981000.83Contact Map
3draA10.48251000.836Contact Map
1w3bA20.46151000.839Contact Map
3q7aA10.47551000.845Contact Map
4l9pA10.48781000.846Contact Map
4ynvA201000.851Contact Map
4r7sA10.442399.90.856Contact 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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