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ID: 1504736098 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 545 (490)
Sequences: 434 (373.2)
Seq/Len: 0.886
Nf(neff/√len): 16.9

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: 0.886).

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
288_N291_H2.8191.00
223_T227_V2.6190.99
307_L311_G2.4020.99
97_L101_W2.4020.99
360_L388_A2.1380.96
226_L285_V2.1280.96
461_Q479_I2.0890.96
211_R236_K2.0530.95
470_E499_L2.0510.95
468_W488_G2.0380.95
215_I303_L2.0350.95
190_H222_M2.0010.94
193_A314_L1.9360.93
201_A210_L1.9220.93
493_A510_L1.8430.90
296_L359_L1.8360.90
416_P426_P1.8310.90
468_W483_F1.7490.87
155_G160_E1.7330.86
213_M284_I1.7310.86
484_F488_G1.6520.83
484_F493_A1.6410.82
227_V259_P1.6270.81
414_M432_K1.6250.81
410_L414_M1.6220.81
236_K261_Q1.6210.81
291_H317_E1.6180.81
105_L237_Y1.6140.81
286_A290_L1.6030.80
487_G490_S1.5920.79
268_N294_R1.5630.78
427_L433_V1.5610.77
180_S190_H1.5580.77
156_L331_F1.5560.77
416_P431_G1.5300.75
243_S291_H1.5210.75
153_F382_E1.5180.75
467_I496_C1.4960.73
493_A516_A1.4870.72
288_N329_V1.4790.72
430_N434_D1.4740.72
304_K390_A1.4320.68
483_F488_G1.4300.68
513_L517_P1.4280.68
243_S288_N1.4260.68
416_P432_K1.4260.68
218_R292_R1.4210.68
216_G241_D1.4190.67
480_H520_G1.4190.67
247_T262_Y1.4130.67
180_S222_M1.4100.67
238_V281_F1.4080.66
214_E237_Y1.4010.66
239_Y250_A1.3990.66
413_Y432_K1.3980.66
304_K391_P1.3970.66
213_M281_F1.3930.65
286_A351_L1.3680.63
286_A289_T1.3560.62
288_N317_E1.3560.62
265_F302_Y1.3520.62
288_N383_R1.3520.62
512_H526_I1.3520.62
106_R111_L1.3510.62
360_L386_I1.3460.61
183_D383_R1.3460.61
458_S527_E1.3450.61
291_H329_V1.3420.61
493_A514_F1.3400.61
494_I498_N1.3290.60
168_L221_S1.3240.59
501_K515_E1.3180.59
488_G494_I1.3180.59
218_R241_D1.3180.59
501_K526_I1.3070.58
101_W326_L1.3060.58
295_N298_A1.3030.58
197_F314_L1.3020.58
168_L180_S1.2960.57
329_V332_F1.2910.57
55_E276_Y1.2780.55
146_Y327_T1.2780.55
460_T527_E1.2740.55
218_R240_A1.2700.55
432_K435_R1.2680.55
366_T389_Q1.2580.54
512_H515_E1.2570.54
413_Y416_P1.2530.53
168_L176_P1.2510.53
319_T384_H1.2510.53
426_P434_D1.2510.53
414_M430_N1.2470.53
483_F490_S1.2450.52
176_P292_R1.2440.52
97_L326_L1.2430.52
292_R336_F1.2410.52
484_F510_L1.2410.52
501_K510_L1.2380.52
269_Q273_A1.2350.52
511_Q514_F1.2290.51
237_Y282_D1.2240.51
468_W493_A1.2240.51
190_H218_R1.2230.50
431_G438_L1.2200.50
324_L329_V1.2190.50
214_E317_E1.2170.50
411_P431_G1.2150.50
284_I315_L1.2150.50
63_C111_L1.2140.50
493_A497_L1.2140.50
488_G493_A1.2130.50
152_L161_L1.2110.49
288_N322_S1.2100.49
178_G189_Y1.2090.49
84_L88_L1.2080.49
146_Y501_K1.2030.49
219_A330_G1.2010.49
218_R289_T1.1970.48
214_E282_D1.1950.48
222_M289_T1.1940.48
242_E293_S1.1920.48
241_D311_G1.1910.48
461_Q523_A1.1850.47
516_A525_F1.1850.47
411_P416_P1.1850.47
197_F467_I1.1840.47
292_R329_V1.1840.47
223_T246_F1.1800.47
365_F388_A1.1790.47
431_G435_R1.1790.47
218_R242_E1.1780.46
426_P432_K1.1780.46
411_P414_M1.1770.46
79_Y84_L1.1760.46
180_S218_R1.1750.46
218_R266_D1.1730.46
496_C521_Q1.1710.46
291_H488_G1.1680.46
427_L434_D1.1660.45
496_C512_H1.1640.45
459_D462_K1.1610.45
297_D362_K1.1500.44
83_E87_H1.1500.44
291_H332_F1.1490.44
156_L163_P1.1480.44
330_G336_F1.1480.44
287_D498_N1.1460.44
410_L427_L1.1460.44
413_Y430_N1.1460.44
238_V263_G1.1460.44
516_A526_I1.1450.44
510_L515_E1.1420.43
328_T349_P1.1390.43
329_V337_S1.1360.43
484_F501_K1.1310.42
411_P430_N1.1290.42
153_F350_L1.1280.42
222_M246_F1.1200.41
243_S383_R1.1200.41
428_S432_K1.1200.41
468_W484_F1.1200.41
477_I519_L1.1190.41
292_R330_G1.1180.41
216_G246_F1.1150.41
67_E72_F1.1130.41
461_Q465_A1.1100.40
215_I296_L1.1090.40
488_G510_L1.1090.40
416_P430_N1.1080.40
162_D320_R1.1070.40
174_L283_V1.1060.40
410_L432_K1.1040.40
180_S240_A1.1020.40
221_S329_V1.1000.40
254_F500_L1.0990.40
176_P190_H1.0980.39
316_V383_R1.0970.39
286_A300_L1.0960.39
327_T330_G1.0950.39
414_M426_P1.0940.39
153_F250_A1.0920.39
250_A262_Y1.0920.39
426_P431_G1.0900.39
282_D489_D1.0890.39
190_H383_R1.0860.38
276_Y306_L1.0850.38
101_W372_P1.0830.38
239_Y345_A1.0830.38
431_G434_D1.0830.38
482_N488_G1.0770.38
293_S299_T1.0760.38
426_P435_R1.0750.37
185_T493_A1.0750.37
415_V432_K1.0750.37
176_P218_R1.0740.37
482_N518_T1.0740.37
218_R246_F1.0740.37
488_G492_R1.0720.37
82_A524_A1.0710.37
168_L190_H1.0710.37
180_S219_A1.0670.37
216_G240_A1.0670.37
180_S221_S1.0620.36
219_A329_V1.0610.36
243_S247_T1.0610.36
428_S434_D1.0600.36
180_S287_D1.0600.36
267_M289_T1.0550.36
268_N288_N1.0540.36
263_G276_Y1.0520.36
174_L218_R1.0500.35
292_R332_F1.0480.35
297_D477_I1.0460.35
227_V265_F1.0450.35
468_W510_L1.0440.35
92_P110_L1.0420.35
410_L431_G1.0400.35
110_L477_I1.0390.34
242_E292_R1.0390.34
500_L512_H1.0390.34
332_F492_R1.0380.34
101_W153_F1.0370.34
323_R390_A1.0370.34
501_K509_S1.0360.34
491_L517_P1.0350.34
85_M90_I1.0350.34
414_M434_D1.0350.34
268_N292_R1.0330.34
223_T260_L1.0330.34
279_H391_P1.0320.34
468_W491_L1.0320.34
411_P432_K1.0320.34
214_E218_R1.0290.34
288_N332_F1.0250.33
508_L526_I1.0250.33
214_E291_H1.0220.33
286_A332_F1.0220.33
207_E256_E1.0200.33
494_I511_Q1.0190.33
494_I514_F1.0180.33
288_N333_E1.0180.33
413_Y426_P1.0170.33
328_T350_L1.0170.33
227_V350_L1.0160.33
335_G349_P1.0150.33
432_K438_L1.0120.32
295_N340_E1.0110.32
327_T331_F1.0100.32
468_W472_L1.0100.32
226_L519_L1.0100.32
250_A265_F1.0100.32
156_L263_G1.0090.32
241_D282_D1.0090.32
227_V495_Q1.0070.32
411_P428_S1.0050.32
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  
4pivA20.69911000.765Contact Map
2vsqA10.84591000.799Contact Map
4a6dA10.605599.90.8Contact Map
2ip2A20.581799.90.803Contact Map
3lstA20.58999.90.803Contact Map
1fp2A10.590899.90.805Contact Map
3p9cA10.598299.90.807Contact Map
1zg3A10.594599.90.808Contact Map
4z2yA1099.90.809Contact Map
1fp1D10.559699.90.811Contact 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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