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OPENSEQ.org

GLP1_nosignal_peptide

ID: 1443539064 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 445 (395)
Sequences: 408 (259.3)
Seq/Len: 1.033
Nf(neff/√len): 13.0

HHblits Results: (2015_06)
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: 1.033).

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
57_G63_V2.5520.99
308_R311_C2.3010.99
226_L306_F2.0410.96
306_F331_L2.0410.96
44_C53_C2.0100.96
44_C54_W1.9490.95
44_C49_D1.9030.94
385_C388_N1.7890.91
171_L218_C1.7110.88
49_D53_C1.7100.88
46_R56_D1.6630.86
377_G388_N1.6620.86
140_A378_L1.6290.85
226_L334_S1.6260.85
234_Y311_C1.5950.83
217_Y229_E1.5860.83
102_W106_S1.5750.82
213_L267_G1.5730.82
104_D108_C1.5720.82
229_E232_Y1.5720.82
133_G141_L1.5610.81
170_I333_K1.5610.81
108_C278_C1.5580.81
174_L178_I1.5440.80
105_L108_C1.5160.79
234_Y308_R1.5140.78
232_Y255_G1.5100.78
227_L305_I1.5020.78
143_I167_A1.4990.78
147_I151_F1.4880.77
168_S222_N1.4850.77
49_D54_W1.4640.75
84_R161_I1.4630.75
229_E233_L1.4580.75
230_G234_Y1.4480.74
394_E399_W1.4420.74
299_I334_S1.4340.73
52_A65_V1.4280.73
153_H306_F1.4240.72
158_R162_H1.4150.72
269_V290_I1.4130.71
331_L334_S1.4110.71
246_W347_V1.4090.71
244_E381_A1.4040.71
248_F258_V1.4030.71
103_R108_C1.3920.70
334_S369_E1.3790.69
225_W256_W1.3710.68
377_G385_C1.3660.68
87_T91_L1.3650.68
98_S108_C1.3650.68
306_F334_S1.3640.68
130_Y161_I1.3530.67
226_L331_L1.3510.66
170_I381_A1.3490.66
248_F383_L1.3400.66
145_S163_L1.3400.66
162_H165_L1.3130.63
159_N266_W1.3000.62
341_L386_F1.2940.62
139_S268_I1.2840.61
303_F308_R1.2730.60
215_M342_L1.2670.59
365_K370_L1.2630.59
209_R335_T1.2540.58
137_S141_L1.2520.58
306_F394_E1.2430.57
377_G390_E1.2410.57
258_V304_L1.2290.56
338_L343_G1.2260.55
179_K306_F1.2220.55
380_V388_N1.2190.55
160_Y180_D1.2130.54
177_F334_S1.2030.53
385_C390_E1.2020.53
229_E256_W1.2010.53
217_Y255_G1.2000.53
217_Y225_W1.1980.53
159_N172_R1.1980.53
133_G137_S1.1900.52
24_Y27_Q1.1870.52
225_W229_E1.1860.52
384_Y390_E1.1850.52
309_V341_L1.1850.52
133_G374_S1.1830.51
268_I272_L1.1830.51
236_L313_V1.1760.51
226_L299_I1.1750.51
230_G233_L1.1740.51
44_C68_P1.1690.50
147_I381_A1.1630.49
334_S394_E1.1620.49
86_C229_E1.1620.49
142_V382_I1.1620.49
147_I154_L1.1600.49
193_Q196_W1.1580.49
230_G299_I1.1550.49
57_G65_V1.1530.49
342_L386_F1.1500.48
227_L231_V1.1470.48
299_I375_F1.1450.48
161_I168_S1.1450.48
157_T161_I1.1380.47
334_S366_L1.1370.47
257_G384_Y1.1370.47
217_Y256_W1.1370.47
102_W108_C1.1370.47
299_I350_A1.1350.47
101_P108_C1.1350.47
168_S345_H1.1320.47
53_C68_P1.1310.46
144_A159_N1.1300.46
229_E255_G1.1290.46
124_L304_L1.1280.46
105_L226_L1.1270.46
58_E395_F1.1270.46
409_I412_D1.1270.46
217_Y222_N1.1230.46
309_V317_L1.1200.45
280_T369_E1.1180.45
161_I317_L1.1170.45
89_E348_I1.1170.45
230_G255_G1.1140.45
28_C108_C1.1130.45
137_S144_A1.1130.45
228_V254_I1.1100.45
381_A389_N1.1100.45
226_L237_L1.1080.44
267_G307_V1.1080.44
230_G238_A1.1070.44
130_Y134_Y1.1070.44
151_F154_L1.1050.44
317_L341_L1.1040.44
108_C358_R1.1000.44
377_G380_V1.0990.44
306_F370_L1.0990.44
156_C172_R1.0980.43
304_L398_S1.0950.43
44_C48_F1.0950.43
45_N342_L1.0940.43
169_F172_R1.0940.43
226_L238_A1.0930.43
65_V359_G1.0910.43
383_L387_V1.0880.43
223_Y246_W1.0840.42
305_I342_L1.0800.42
159_N384_Y1.0800.42
58_E304_L1.0730.41
124_L214_L1.0730.41
159_N228_V1.0700.41
156_C222_N1.0700.41
133_G140_A1.0700.41
236_L270_K1.0640.40
290_I378_L1.0640.40
222_N317_L1.0620.40
55_P304_L1.0610.40
228_V248_F1.0590.40
331_L394_E1.0580.40
53_C86_C1.0570.40
25_R33_T1.0560.40
157_T160_Y1.0550.40
156_C159_N1.0540.39
314_V318_K1.0530.39
228_V266_W1.0490.39
149_L163_L1.0470.39
268_I393_L1.0470.39
147_I227_L1.0460.39
346_E374_S1.0440.39
305_I320_N1.0440.39
29_Q37_P1.0430.38
251_Y256_W1.0400.38
164_N244_E1.0400.38
25_R31_S1.0360.38
338_L376_Q1.0360.38
224_Y380_V1.0350.38
303_F375_F1.0330.38
175_S321_L1.0330.38
178_I186_M1.0320.37
314_V372_F1.0310.37
68_P335_T1.0290.37
271_Y303_F1.0280.37
52_A104_D1.0280.37
47_T56_D1.0280.37
166_F173_A1.0270.37
406_H409_I1.0270.37
401_R404_L1.0250.37
172_R179_K1.0250.37
136_L272_L1.0230.37
164_N342_L1.0230.37
226_L366_L1.0220.37
381_A390_E1.0210.37
26_R40_T1.0210.37
230_G313_V1.0200.36
83_Y107_E1.0180.36
133_G143_I1.0180.36
374_S386_F1.0170.36
381_A385_C1.0170.36
309_V340_P1.0170.36
26_R33_T1.0170.36
132_V241_V1.0150.36
341_L381_A1.0140.36
289_L310_I1.0130.36
48_F51_Y1.0110.36
290_I386_F1.0100.36
62_F214_L1.0090.35
163_L389_N1.0080.35
45_N245_Q1.0080.35
158_R390_E1.0020.35
191_A196_W1.0010.35
226_L312_I1.0000.35
210_L344_T1.0000.35
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  
4k5yA30.56851000.582Contact Map
4l6rA10.86071000.648Contact Map
4jkvA20.8271000.8Contact Map
3c5tA10.233799.90.819Contact Map
4qinA10.692199.90.827Contact Map
4rwfA1099.90.827Contact Map
4ersA10.215799.90.833Contact Map
2qkhA10.211299.90.835Contact Map
4hj0A20.204599.90.838Contact Map
1u34A10.258499.90.848Contact 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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