OPENSEQ.org
droSERINC_coevolution

ID: 1517828822 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 50% gaps before running GREMLIN.
Length: 465 (445)
Sequences: 507 (226.1)
Seq/Len: 1.139
Nf(neff/√len): 10.7

Jackhmmer Results: (2016_04)
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: 1.139).

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 > 50% 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
243_F247_I2.9021.00
258_I450_G2.8311.00
247_I251_F2.3910.99
48_V448_I2.1880.98
6_G9_S2.1780.98
6_G11_A1.9420.96
199_S228_L1.9190.95
246_S250_I1.8990.95
18_G22_A1.8950.95
109_F162_F1.8590.94
221_S280_T1.7920.93
223_T227_L1.7600.92
158_P335_G1.7460.91
9_S13_C1.7110.90
226_T230_I1.6920.89
218_Y256_S1.6920.89
168_W217_C1.6280.87
219_I223_T1.6080.86
209_A213_V1.5900.85
196_W209_A1.5730.84
32_C37_S1.5500.83
15_M22_A1.5480.83
432_E435_M1.5370.82
144_F147_C1.5050.80
119_S402_L1.5020.80
272_G275_Q1.4920.80
261_L334_I1.4880.79
355_S358_S1.4820.79
286_L445_G1.4810.79
116_A405_V1.4770.79
220_L281_L1.4760.79
255_I446_V1.4730.78
254_A258_I1.4720.78
174_G185_I1.4540.77
294_N432_E1.4510.77
15_M18_G1.4370.76
175_L399_M1.4290.75
55_I276_S1.4240.75
210_L265_Q1.4210.75
68_M99_L1.4110.74
276_S375_E1.3980.73
45_I144_F1.3940.73
165_A169_V1.3940.73
128_S389_E1.3930.73
241_N294_N1.3870.72
136_Q193_A1.3860.72
92_Q258_I1.3790.72
229_Y246_S1.3760.71
126_K130_D1.3750.71
224_G228_L1.3710.71
250_I254_A1.3680.71
71_C397_W1.3640.70
174_G433_A1.3520.69
294_N435_M1.3520.69
227_L230_I1.3460.69
15_M20_T1.3450.69
123_L333_I1.3390.68
313_A316_T1.3370.68
245_I259_S1.3370.68
192_L209_A1.3360.68
373_D378_T1.3160.66
186_V446_V1.3130.66
25_C385_S1.3130.66
244_F435_M1.3080.66
149_G454_A1.3040.65
18_G23_S1.3020.65
183_V251_F1.2940.65
258_I261_L1.2920.64
413_M418_W1.2910.64
127_S226_T1.2730.63
455_A464_F1.2720.63
228_L291_V1.2650.62
353_E358_S1.2620.62
49_G111_M1.2600.61
98_A193_A1.2600.61
17_C20_T1.2560.61
95_C170_G1.2540.61
275_Q282_Y1.2540.61
180_V410_Y1.2520.61
314_T317_A1.2500.61
180_V448_I1.2480.60
186_V448_I1.2450.60
150_A397_W1.2430.60
290_A396_S1.2390.60
22_A42_Y1.2380.59
291_V459_L1.2350.59
222_L226_T1.2340.59
215_L247_I1.2300.59
38_S246_S1.2250.58
246_S249_L1.2240.58
6_G221_S1.2050.56
127_S407_A1.2030.56
15_M25_C1.2010.56
17_C25_C1.2010.56
103_A179_L1.2010.56
35_A38_S1.1960.56
329_D333_I1.1940.55
286_L346_N1.1930.55
268_L463_D1.1890.55
168_W192_L1.1890.55
265_Q273_L1.1880.55
95_C412_M1.1850.54
127_S298_E1.1810.54
382_G448_I1.1800.54
252_C408_S1.1780.54
241_N432_E1.1780.54
350_S354_V1.1780.54
167_M431_N1.1740.53
224_G284_V1.1700.53
36_S205_G1.1690.53
148_F253_L1.1690.53
42_Y294_N1.1640.52
177_F285_Y1.1640.52
367_L370_A1.1590.52
167_M288_W1.1580.52
173_G409_L1.1580.52
116_A119_S1.1540.52
299_C317_A1.1490.51
170_G412_M1.1460.51
393_V396_S1.1440.51
226_T261_L1.1380.50
386_T411_V1.1370.50
17_C23_S1.1370.50
315_T318_A1.1370.50
263_A411_V1.1350.50
180_V454_A1.1320.49
24_M452_S1.1290.49
221_S437_V1.1280.49
22_A40_F1.1230.49
266_E448_I1.1220.48
114_F262_P1.1200.48
182_L190_H1.1200.48
112_A260_I1.1180.48
157_I162_F1.1170.48
116_A169_V1.1130.48
171_L180_V1.1100.47
107_V337_V1.1080.47
53_G102_M1.1070.47
265_Q455_A1.1060.47
20_T23_S1.1020.47
20_T31_S1.1000.46
259_S276_S1.0990.46
358_S403_V1.0990.46
264_V379_D1.0980.46
232_F430_G1.0950.46
425_I428_F1.0930.46
35_A137_N1.0930.46
29_C109_F1.0930.46
185_I429_N1.0930.46
339_W429_N1.0920.46
227_L258_I1.0910.45
45_I147_C1.0900.45
141_P397_W1.0900.45
155_I184_I1.0900.45
311_G314_T1.0880.45
188_F410_Y1.0860.45
48_V129_R1.0810.45
448_I454_A1.0770.44
180_V406_C1.0760.44
70_F102_M1.0740.44
347_C351_A1.0730.44
131_P439_I1.0720.44
36_S388_T1.0710.44
313_A318_A1.0710.44
134_H264_V1.0700.43
375_E458_V1.0670.43
348_I353_E1.0650.43
404_F448_I1.0620.43
232_F241_N1.0620.43
359_H393_V1.0620.43
110_G150_A1.0600.43
192_L196_W1.0590.42
6_G10_A1.0580.42
241_N291_V1.0570.42
206_Y335_G1.0560.42
342_C414_T1.0550.42
193_A339_W1.0520.42
160_G229_Y1.0510.42
158_P241_N1.0510.42
111_M241_N1.0490.41
451_W462_R1.0470.41
95_C409_L1.0450.41
19_G354_V1.0440.41
8_C12_Q1.0440.41
226_T334_I1.0420.41
137_N389_E1.0380.40
283_T446_V1.0380.40
139_F262_P1.0380.40
96_E264_V1.0370.40
356_K360_D1.0350.40
366_V369_E1.0340.40
338_V342_C1.0340.40
46_L421_P1.0340.40
110_G133_S1.0330.40
37_S41_M1.0330.40
117_L146_I1.0310.40
105_Y181_Q1.0300.40
87_S264_V1.0290.40
353_E357_I1.0280.40
61_L302_G1.0270.39
64_T67_K1.0270.39
267_R457_I1.0240.39
296_E299_C1.0230.39
255_I450_G1.0210.39
149_G341_L1.0190.39
10_A16_C1.0180.39
240_I243_F1.0170.39
228_L348_I1.0160.38
126_K254_A1.0140.38
185_I397_W1.0130.38
333_I337_V1.0130.38
241_N335_G1.0130.38
61_L96_E1.0120.38
14_A21_A1.0100.38
41_M45_I1.0100.38
38_S241_N1.0080.38
255_I283_T1.0070.38
14_A461_N1.0070.38
205_G388_T1.0070.38
222_L246_S1.0060.38
182_L411_V1.0050.37
98_A292_A1.0030.37
55_I446_V1.0020.37
179_L204_R1.0010.37
228_L241_N1.0000.37
126_K440_V1.0000.37
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  
3j1rA210.055912.60.986Contact Map
4he8A20.18498.10.987Contact Map
4k5yA30.49255.60.988Contact Map
2akhX20.16134.50.989Contact Map
4ymkA203.70.989Contact Map
2mfrA10.11613.40.989Contact Map
4bgnA20.40653.20.989Contact Map
1oefA10.05162.90.99Contact Map
3dl8E20.13762.90.99Contact Map
2i68A20.01722.60.99Contact 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 0.0265 seconds.