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OPENSEQ.org

LUS

ID: 1493869094 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 495 (460)
Sequences: 701 (469.8)
Seq/Len: 1.524
Nf(neff/√len): 21.9

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: 1.524).

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
436_Y461_H4.2731.00
334_W338_T2.8311.00
44_L305_A2.6481.00
454_K458_F2.6331.00
86_H117_Y2.6331.00
187_S206_Y2.5881.00
87_L190_L2.3781.00
93_M113_V2.3601.00
278_F282_L2.3541.00
119_T383_V2.1670.99
445_A448_P2.0890.99
314_F317_V2.0260.98
204_K208_A1.9380.98
393_T461_H1.9300.97
409_R423_D1.9270.97
65_H206_Y1.8610.97
293_K297_Y1.8310.96
92_L182_F1.8020.96
343_K347_E1.7970.96
158_D364_R1.7570.95
332_N348_N1.7360.94
446_V450_I1.7290.94
88_F92_L1.6850.93
19_Y22_P1.6400.92
203_F207_I1.6300.92
93_M97_I1.6220.91
266_C271_W1.5870.90
49_W54_L1.5840.90
110_S153_A1.5780.90
315_S326_D1.5610.89
131_Y384_Y1.5560.89
93_M281_R1.5410.88
293_K337_E1.5400.88
90_L142_L1.5240.88
390_T394_G1.5230.88
91_V189_L1.5160.87
272_F284_Y1.5160.87
253_L256_L1.5060.87
433_A464_S1.4890.86
158_D180_P1.4720.85
88_F190_L1.4630.85
44_L47_A1.4620.85
316_G325_W1.4480.84
357_L373_T1.4420.83
389_F453_Y1.4320.83
148_K362_Y1.4300.83
85_V89_V1.4260.82
90_L117_Y1.4010.81
118_L121_C1.4000.81
126_I384_Y1.3950.81
332_N335_K1.3930.80
276_A280_A1.3800.80
148_K202_N1.3760.79
203_F210_I1.3720.79
123_I127_Y1.3690.79
30_P33_Q1.3650.79
365_V372_L1.3590.78
47_A192_F1.3550.78
315_S324_C1.3540.78
144_I254_L1.3540.78
94_C110_S1.3420.77
349_W357_L1.3370.76
389_F450_I1.3330.76
119_T126_I1.3320.76
419_K423_D1.3310.76
289_M438_V1.3290.76
143_M349_W1.3280.76
172_H252_L1.3240.75
349_W377_S1.3030.74
24_S28_G1.3020.74
390_T440_P1.2970.73
315_S325_W1.2950.73
92_L361_C1.2880.73
304_D308_N1.2850.72
142_L149_I1.2820.72
151_T200_C1.2740.71
405_R422_Y1.2730.71
151_T360_V1.2700.71
72_G81_G1.2670.71
203_F293_K1.2670.71
292_S442_V1.2670.71
248_T298_F1.2660.71
341_S405_R1.2650.71
296_Y300_W1.2620.70
65_H187_S1.2500.69
122_H143_M1.2500.69
248_T305_A1.2480.69
405_R409_R1.2370.68
143_M377_S1.2370.68
127_Y164_A1.2370.68
119_T384_Y1.2370.68
405_R423_D1.2340.68
78_F81_G1.2330.68
94_C114_A1.2320.68
297_Y337_E1.2290.67
427_W431_Q1.2270.67
307_N315_S1.2240.67
289_M295_K1.2240.67
46_A192_F1.2240.67
180_P387_Y1.2210.67
88_F452_L1.2210.67
121_C142_L1.2200.67
458_F461_H1.2190.67
98_M152_L1.2150.66
393_T437_T1.2120.66
126_I383_V1.2120.66
65_H184_E1.2110.66
314_F325_W1.2050.65
297_Y377_S1.2000.65
92_L96_A1.1990.65
270_D281_R1.1980.65
230_H233_P1.1910.64
139_S296_Y1.1900.64
18_T22_P1.1830.63
407_N471_L1.1810.63
302_L383_V1.1740.62
440_P449_T1.1730.62
137_D143_M1.1720.62
115_M376_L1.1680.62
111_F115_M1.1610.61
139_S434_V1.1560.61
72_G352_Q1.1520.60
79_C369_P1.1500.60
69_T183_L1.1500.60
20_L28_G1.1490.60
181_S312_F1.1430.59
246_G285_L1.1410.59
400_A437_T1.1410.59
252_L298_F1.1410.59
353_T364_R1.1400.59
18_T23_L1.1400.59
450_I454_K1.1400.59
385_P446_V1.1320.58
130_H133_I1.1310.58
457_Y462_I1.1220.57
155_Q202_N1.1190.57
454_K470_F1.1170.57
218_K223_N1.1150.56
357_L377_S1.1150.56
280_A284_Y1.1140.56
327_L342_F1.1090.56
350_N382_G1.1090.56
366_P369_P1.1070.56
413_L419_K1.1070.56
122_H349_W1.1070.56
22_P31_L1.1040.55
47_A61_S1.1020.55
410_H422_Y1.1010.55
65_H210_I1.1000.55
29_I33_Q1.1000.55
68_A187_S1.0990.55
345_Y434_V1.0980.55
61_S206_Y1.0960.54
122_H395_I1.0920.54
51_R237_P1.0900.54
378_A388_Y1.0780.53
278_F283_C1.0770.52
71_F153_A1.0740.52
469_L472_P1.0720.52
190_L267_L1.0690.52
143_M374_F1.0690.52
88_F249_L1.0670.51
40_Q461_H1.0660.51
20_L32_D1.0580.50
66_A334_W1.0580.50
24_S333_I1.0550.50
184_E207_I1.0540.50
192_F343_K1.0530.50
222_V229_F1.0510.50
191_N315_S1.0500.50
71_F287_V1.0500.50
36_F44_L1.0490.50
88_F246_G1.0490.50
43_A398_T1.0490.50
31_L34_V1.0470.49
167_L171_Q1.0470.49
73_I454_K1.0470.49
345_Y457_Y1.0460.49
129_F134_L1.0460.49
344_M348_N1.0460.49
148_K423_D1.0460.49
111_F296_Y1.0440.49
254_L424_A1.0430.49
92_L186_L1.0420.49
101_A331_L1.0420.49
191_N194_S1.0410.49
25_E424_A1.0400.49
117_Y121_C1.0400.49
202_N205_D1.0380.48
147_Q374_F1.0350.48
358_K363_Q1.0340.48
44_L78_F1.0250.47
270_D283_C1.0250.47
123_I383_V1.0230.47
221_E233_P1.0150.46
354_A369_P1.0140.46
176_I180_P1.0140.46
250_V253_L1.0130.46
147_Q152_L1.0130.46
374_F398_T1.0100.46
27_L455_S1.0080.45
257_T372_L1.0070.45
338_T429_V1.0040.45
96_A173_R1.0020.45
118_L146_T1.0020.45
67_V71_F1.0020.45
147_Q426_T1.0020.45
28_G32_D1.0010.45
221_E229_F1.0010.45
122_H296_Y1.0000.44
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  
2rpqB104.60.984Contact Map
2ls4A10.04852.20.987Contact Map
2a6hF20.10911.80.987Contact Map
4d1lA60.03231.80.987Contact Map
1l9zH10.11921.70.987Contact Map
1ywqA10.12731.60.988Contact Map
2gfpA20.38381.60.988Contact Map
4yfkF20.12121.50.988Contact Map
3gfaA20.12321.50.988Contact Map
1q90L10.06461.50.988Contact 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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