May 4, 2021 - We are working on upgrading the webserver, some pages may not work.
OPENSEQ.org

10_152-485

ID: 1478609075 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 334 (323)
Sequences: 487 (353.8)
Seq/Len: 1.508
Nf(neff/√len): 19.7

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: 1.508).

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
48_M80_M2.3921.00
89_N123_Q2.2080.99
322_E326_T2.0240.98
92_Y200_F1.7700.95
81_E107_L1.7620.95
319_K322_E1.7290.94
88_F104_A1.6880.93
6_N10_S1.6870.93
322_E325_S1.6810.93
321_K325_S1.6620.92
114_V117_I1.6380.92
30_E33_R1.6240.91
123_Q128_I1.5580.89
203_R207_Q1.5510.89
37_N204_V1.5290.88
321_K326_T1.5080.87
312_N323_K1.5030.86
88_F288_E1.4700.85
121_I247_I1.4210.82
92_Y124_H1.4170.82
74_E111_N1.4170.82
155_D158_N1.4170.82
316_L325_S1.4130.81
328_V331_F1.4110.81
171_I239_F1.4070.81
6_N9_Q1.4040.81
88_F100_L1.3900.80
181_E242_F1.3830.79
82_N209_I1.3820.79
41_N83_E1.3680.78
213_F217_L1.3300.76
20_F250_F1.3290.76
137_N151_E1.3250.75
213_F235_L1.3210.75
324_L328_V1.3210.75
3_K228_Y1.3170.75
171_I285_F1.3050.74
98_T187_R1.3040.74
13_L17_Y1.2840.72
294_A298_D1.2800.72
80_M216_L1.2740.71
243_T270_F1.2730.71
80_M285_F1.2710.71
316_L321_K1.2700.71
325_S328_V1.2680.71
205_F243_T1.2640.70
226_L230_R1.2630.70
52_L209_I1.2560.70
323_K326_T1.2550.69
284_Y288_E1.2510.69
321_K324_L1.2480.69
81_E111_N1.2420.68
316_L319_K1.2400.68
7_Y10_S1.2330.68
127_F178_I1.2250.67
275_S280_D1.2230.67
318_D324_L1.2220.67
202_Q210_E1.2180.66
88_F203_R1.2130.66
122_N207_Q1.2120.66
107_L111_N1.2070.65
318_D321_K1.2050.65
209_I302_K1.2050.65
169_N178_I1.2030.65
229_V276_H1.2030.65
7_Y11_V1.2020.65
5_Q8_I1.2010.65
120_F239_F1.2000.64
81_E116_V1.1920.64
146_N231_I1.1880.63
81_E288_E1.1850.63
3_K7_Y1.1840.63
13_L288_E1.1820.63
18_N22_S1.1810.63
196_V200_F1.1740.62
101_N255_I1.1720.62
230_R245_S1.1690.61
137_N158_N1.1680.61
167_M241_K1.1650.61
185_V200_F1.1630.61
5_Q11_V1.1620.61
327_N330_A1.1520.60
122_N130_T1.1460.59
68_N71_L1.1430.59
260_Q330_A1.1420.59
204_V222_S1.1410.59
186_K239_F1.1390.58
93_R123_Q1.1370.58
211_P316_L1.1340.58
170_L208_K1.1320.58
240_G270_F1.1290.57
92_Y276_H1.1270.57
89_N177_V1.1270.57
123_Q181_E1.1220.57
198_Q269_C1.1210.57
80_M84_L1.1170.56
40_L77_S1.1130.56
155_D266_L1.1040.55
81_E85_L1.1000.55
81_E112_G1.0980.54
88_F274_F1.0970.54
107_L120_F1.0960.54
322_E328_V1.0960.54
47_L243_T1.0940.54
109_N255_I1.0940.54
258_S261_I1.0930.54
274_F288_E1.0910.54
7_Y54_L1.0900.53
185_V224_S1.0850.53
88_F188_V1.0830.53
85_L107_L1.0830.53
133_I209_I1.0800.52
327_N331_F1.0800.52
33_R179_K1.0760.52
318_D327_N1.0750.52
208_K285_F1.0710.52
172_N302_K1.0670.51
49_K120_F1.0670.51
58_L206_A1.0670.51
251_Q254_E1.0640.51
232_L292_L1.0630.51
180_N187_R1.0600.50
182_S197_I1.0600.50
213_F244_K1.0590.50
216_L254_E1.0580.50
53_I117_I1.0570.50
198_Q205_F1.0570.50
43_K47_L1.0570.50
97_F236_F1.0560.50
229_V240_G1.0560.50
104_A288_E1.0550.50
231_I243_T1.0540.50
147_V151_E1.0540.50
20_F28_I1.0530.50
2_K91_A1.0490.49
209_I251_Q1.0480.49
44_S80_M1.0480.49
123_Q211_P1.0480.49
216_L285_F1.0470.49
15_R19_D1.0470.49
96_N197_I1.0440.49
30_E290_R1.0420.49
41_N106_I1.0400.48
234_G300_T1.0400.48
153_L220_S1.0370.48
78_E270_F1.0360.48
145_K158_N1.0350.48
123_Q268_Q1.0350.48
15_R44_S1.0320.47
207_Q214_E1.0310.47
227_A232_L1.0290.47
146_N151_E1.0290.47
145_K329_D1.0260.47
209_I272_D1.0260.47
134_D209_I1.0230.47
17_Y111_N1.0200.46
207_Q282_S1.0160.46
135_L151_E1.0150.46
54_L81_E1.0150.46
100_L288_E1.0140.46
183_K187_R1.0130.46
116_V183_K1.0130.46
85_L196_V1.0110.45
43_K46_K1.0110.45
209_I246_L1.0110.45
145_K148_K1.0100.45
8_I11_V1.0090.45
82_N175_E1.0080.45
178_I202_Q1.0070.45
318_D326_T1.0060.45
146_N212_R1.0030.45
50_N120_F1.0030.45
57_K120_F1.0020.44
44_S54_L1.0020.44
257_D260_Q1.0010.44
49_K78_E1.0000.44
25_K187_R1.0000.44
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  
2b1eA10.778479.90.941Contact Map
2d2sA10.6347770.942Contact Map
2pftA10.793437.30.955Contact Map
1abvA10.314420.20.961Contact Map
2d1lA20.43119.40.966Contact Map
3ok8A20.413260.969Contact Map
2y1nA20.32045.80.969Contact Map
4rp3A20.22755.40.97Contact Map
1w9cA20.54195.30.97Contact Map
1bh9A10.13475.30.97Contact 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 1.8323 seconds.