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OPENSEQ.org

VGLUT2

ID: 1484954449 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 582 (476)
Sequences: 499 (332.6)
Seq/Len: 1.048
Nf(neff/√len): 15.2

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: 1.048).

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
236_L244_S3.0181.00
470_N475_E2.8631.00
265_Y272_P2.6781.00
309_S505_W2.0780.97
147_S444_I2.0060.96
382_T386_K1.9810.96
97_D237_V1.9770.96
381_T500_G1.9130.94
385_R436_D1.8820.94
440_R506_A1.8160.92
321_C490_G1.7940.91
315_I437_I1.7800.91
410_G414_S1.7640.91
379_L383_T1.7470.90
202_W218_S1.7420.90
382_T500_G1.7350.90
325_T487_H1.7110.89
144_Y148_R1.6740.87
98_M173_A1.6170.85
372_F376_K1.6110.84
405_Y481_L1.6100.84
80_G256_W1.6040.84
380_S383_T1.5670.82
202_W214_L1.5460.81
131_F192_G1.5220.79
162_T191_E1.4900.77
169_I187_Q1.4680.76
74_A214_L1.4620.75
304_R308_T1.4610.75
69_R273_T1.4280.73
310_M493_F1.4260.73
73_I264_S1.4240.73
374_R381_T1.4160.72
81_F447_G1.4120.72
282_I285_S1.4080.71
78_G321_C1.4030.71
94_A246_F1.4010.71
140_I498_A1.3980.71
367_G371_D1.3880.70
142_G192_G1.3840.70
363_V427_I1.3820.69
88_R192_G1.3760.69
206_A214_L1.3750.69
230_M282_I1.3720.69
382_T499_S1.3700.68
352_S459_V1.3670.68
119_W439_P1.3610.68
186_L441_Y1.3500.67
155_F245_V1.3480.67
125_G225_G1.3410.66
68_P71_Y1.3400.66
478_Y482_I1.3350.66
99_V124_V1.3330.65
312_V437_I1.3320.65
167_M250_G1.3190.64
438_A506_A1.3160.64
120_D123_T1.3140.64
201_I367_G1.3100.63
336_Y441_Y1.3050.63
379_L387_I1.3050.63
433_N437_I1.2960.62
233_A417_V1.2960.62
135_Y450_N1.2950.62
317_V493_F1.2880.61
358_V421_G1.2820.61
127_I181_I1.2790.61
184_R334_P1.2770.60
312_V370_A1.2700.60
76_M79_L1.2690.60
163_S253_G1.2650.59
185_I228_I1.2620.59
90_N447_G1.2590.59
297_E470_N1.2580.59
150_A328_L1.2580.59
164_T352_S1.2550.58
158_A356_H1.2540.58
132_F199_H1.2520.58
138_T189_L1.2520.58
172_A183_V1.2480.58
131_F370_A1.2430.57
68_P72_I1.2430.57
103_T118_N1.2410.57
95_I334_P1.2410.57
129_G458_M1.2410.57
225_G436_D1.2370.57
492_I496_L1.2370.57
366_G425_F1.2310.56
446_M450_N1.2300.56
131_F191_E1.2290.56
437_I498_A1.2290.56
433_N436_D1.2250.56
127_I472_S1.2230.56
275_T279_R1.2220.55
78_G150_A1.2210.55
225_G385_R1.2210.55
450_N457_G1.2170.55
176_H179_C1.2160.55
235_I350_M1.2150.55
185_I211_R1.2150.55
164_T279_R1.2140.55
352_S355_P1.2130.55
488_Y511_T1.2130.55
269_A283_E1.2120.55
257_Y261_L1.1980.53
486_V509_E1.1970.53
133_W154_V1.1970.53
234_G417_V1.1950.53
382_T494_Y1.1940.53
103_T115_A1.1940.53
373_L378_I1.1920.53
379_L384_V1.1910.53
385_R433_N1.1910.53
75_I361_I1.1890.52
229_A249_Y1.1870.52
142_G197_A1.1830.52
199_H282_I1.1830.52
223_Y363_V1.1830.52
164_T168_L1.1820.52
166_N187_Q1.1740.51
255_V387_I1.1710.51
423_S447_G1.1590.50
370_A384_V1.1590.50
88_R131_F1.1570.49
447_G490_G1.1570.49
156_G260_W1.1560.49
441_Y445_L1.1500.49
134_G499_S1.1490.49
334_P340_V1.1490.49
119_W221_G1.1470.48
400_L445_L1.1400.48
98_M117_F1.1400.48
198_C453_G1.1390.48
166_N169_I1.1380.48
279_R283_E1.1370.47
143_G443_S1.1290.47
136_I492_I1.1280.47
162_T246_F1.1270.47
521_E525_D1.1270.47
214_L218_S1.1230.46
214_L432_V1.1210.46
168_L402_V1.1180.46
135_Y225_G1.1170.46
333_Q403_V1.1150.45
190_V200_G1.1110.45
137_I141_P1.1090.45
410_G459_V1.1060.45
120_D263_V1.1060.45
155_F191_E1.1040.44
359_M446_M1.1040.44
307_F379_L1.1010.44
99_V415_F1.1010.44
361_I418_L1.1010.44
91_L95_I1.1010.44
281_Y448_I1.0970.44
445_L511_T1.0960.44
169_I180_V1.0940.43
268_P278_E1.0940.43
195_Y498_A1.0930.43
423_S487_H1.0920.43
155_F187_Q1.0910.43
255_V259_F1.0910.43
319_N453_G1.0900.43
440_R444_I1.0850.43
522_D528_T1.0820.42
233_A249_Y1.0800.42
333_Q348_V1.0790.42
85_F319_N1.0770.42
95_I124_V1.0750.42
390_C491_V1.0740.42
254_M373_L1.0730.42
162_T194_T1.0720.41
166_N237_V1.0720.41
186_L376_K1.0710.41
202_W438_A1.0670.41
254_M464_V1.0630.41
216_T419_A1.0620.41
166_N444_I1.0610.40
362_I421_G1.0610.40
94_A117_F1.0600.40
138_T191_E1.0580.40
525_D528_T1.0580.40
170_P184_R1.0580.40
501_E514_E1.0570.40
392_G429_G1.0560.40
231_P424_G1.0560.40
120_D412_A1.0540.40
359_M363_V1.0500.39
131_F135_Y1.0500.39
314_A497_F1.0490.39
68_P97_D1.0460.39
196_P498_A1.0450.39
139_Q324_W1.0440.39
269_A467_M1.0420.39
95_I99_V1.0410.39
100_N103_T1.0410.39
157_A172_A1.0390.38
337_F413_I1.0380.38
210_E221_G1.0360.38
91_L464_V1.0350.38
77_S195_Y1.0330.38
79_L244_S1.0300.38
97_D245_V1.0290.38
244_S384_V1.0250.37
318_A359_M1.0250.37
72_I271_H1.0250.37
223_Y395_M1.0250.37
148_R336_Y1.0240.37
132_F139_Q1.0200.37
100_N118_N1.0180.37
467_M482_I1.0170.37
319_N433_N1.0160.36
308_T458_M1.0150.36
138_T192_G1.0120.36
57_A62_C1.0100.36
383_T387_I1.0080.36
240_T243_S1.0070.36
459_V489_G1.0070.36
241_G411_V1.0060.36
431_N447_G1.0050.35
191_E229_A1.0050.35
521_E527_E1.0040.35
445_L483_A1.0040.35
370_A428_S1.0040.35
143_G146_A1.0040.35
327_Y363_V1.0030.35
124_V334_P1.0010.35
528_T533_Q1.0010.35
433_N442_A1.0000.35
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  
1pw4A10.72851000.763Contact Map
3wdoA10.76121000.784Contact Map
4j05A20.65981000.785Contact Map
4zw9A101000.792Contact Map
4pypA10.70621000.792Contact Map
2gfpA20.63921000.793Contact Map
4oh3A20.75261000.798Contact Map
3o7qA10.66321000.799Contact Map
4ldsA20.69931000.808Contact Map
4gc0A10.74051000.813Contact 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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