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GPCR gremlin

ID: 1427828754 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 310 (310)
Sequences: 517 (361)
Seq/Len: 1.668
Nf(neff/√len): 20.5

HHblits Results: (2013_03)
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: 1.668).

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
98_W101_G2.3681.00
126_I243_F2.2741.00
122_H152_I2.0860.99
48_V157_L1.8550.97
53_V283_N1.7440.95
247_W283_N1.7320.95
165_P197_P1.6810.94
166_P169_S1.6270.93
46_T82_A1.5640.91
73_S122_H1.5550.90
119_S126_I1.5370.90
190_S255_S1.5360.90
53_V77_A1.5200.89
53_V247_W1.4920.88
147_R236_L1.4890.88
73_S156_W1.4880.88
68_N294_F1.4710.87
283_N287_Y1.4700.87
98_W120_I1.4660.87
43_I117_T1.4420.85
168_L191_M1.4310.85
49_G105_C1.4260.84
131_Y205_Y1.4010.83
134_V245_V1.3850.82
1_M4_L1.3600.80
146_K150_C1.3420.79
74_L78_D1.3420.79
101_G105_C1.3330.79
73_S201_M1.3320.78
105_C197_P1.3300.78
110_A114_L1.3250.78
83_T127_S1.3110.77
119_S279_N1.3090.77
12_F153_V1.3020.76
213_K233_T1.3010.76
247_W276_G1.2930.76
54_V75_A1.2930.76
128_L208_I1.2860.75
115_F152_I1.2820.75
200_I204_V1.2820.75
43_I204_V1.2810.75
14_A25_S1.2730.74
64_K72_V1.2650.73
49_G281_S1.2650.73
127_S198_C1.2480.72
71_L159_S1.2460.72
85_V115_F1.2450.72
129_D231_R1.2370.71
194_F243_F1.2350.71
137_A239_V1.2300.70
98_W105_C1.2290.70
148_V273_F1.2280.70
85_V276_G1.2230.70
86_M152_I1.2230.70
139_Y235_V1.2190.69
260_C263_Y1.2190.69
54_V72_V1.2190.69
206_I231_R1.2170.69
217_R220_A1.2130.69
46_T86_M1.2120.69
53_V129_D1.2100.68
3_P8_G1.2060.68
5_N8_G1.1960.67
156_W287_Y1.1950.67
111_L225_S1.1880.66
252_F292_R1.1850.66
6_A10_D1.1840.66
135_T208_I1.1740.65
165_P281_S1.1660.64
276_G282_L1.1630.64
159_S283_N1.1630.64
44_L220_A1.1610.64
278_C282_L1.1610.64
40_S107_I1.1550.63
67_Q205_Y1.1510.63
71_L233_T1.1490.63
145_P153_V1.1460.62
5_N13_T1.1440.62
204_V276_G1.1440.62
115_F172_S1.1410.62
105_C177_C1.1380.61
39_V275_I1.1350.61
58_L252_F1.1330.61
177_C284_P1.1280.60
153_V157_L1.1250.60
123_L201_M1.1250.60
96_G245_V1.1230.60
150_C154_I1.1180.59
216_K219_I1.1180.59
116_C276_G1.1150.59
188_S233_T1.1130.59
159_S247_W1.1130.59
158_I301_I1.1110.59
49_G240_M1.1110.59
117_T251_F1.1080.58
4_L11_A1.1040.58
4_L14_A1.1000.58
277_Y283_N1.1000.58
48_V255_S1.0990.57
22_S153_V1.0960.57
69_L152_I1.0960.57
47_V199_L1.0940.57
273_F279_N1.0930.57
241_G250_F1.0920.57
77_A119_S1.0890.56
48_V208_I1.0890.56
125_A152_I1.0880.56
86_M115_F1.0870.56
72_V134_V1.0870.56
138_V143_R1.0860.56
216_K220_A1.0830.56
77_A287_Y1.0830.56
129_D193_S1.0820.56
86_M274_W1.0820.56
1_M5_N1.0800.55
37_A245_V1.0800.55
118_S304_K1.0800.55
130_R249_P1.0790.55
51_I200_I1.0790.55
194_F251_F1.0790.55
86_M122_H1.0770.55
65_A99_Y1.0750.55
288_T291_N1.0750.55
139_Y212_A1.0740.55
90_L128_L1.0720.55
185_Y270_F1.0700.54
49_G294_F1.0700.54
73_S81_V1.0670.54
3_P9_M1.0670.54
3_P103_V1.0650.54
112_D277_Y1.0630.54
129_D232_F1.0620.54
134_V295_R1.0610.53
49_G283_N1.0600.53
4_L15_I1.0600.53
67_Q201_M1.0590.53
2_D8_G1.0570.53
67_Q254_Y1.0520.53
2_D5_N1.0520.53
50_N249_P1.0500.52
80_L107_I1.0490.52
204_V281_S1.0490.52
120_I198_C1.0470.52
166_P170_I1.0450.52
153_V245_V1.0440.52
73_S86_M1.0420.51
119_S249_P1.0410.51
116_C251_F1.0410.51
245_V265_I1.0410.51
6_A17_L1.0410.51
121_V282_L1.0400.51
54_V210_Q1.0400.51
75_A247_W1.0380.51
305_S308_K1.0340.51
156_W247_W1.0300.50
144_T147_R1.0290.50
253_S272_F1.0280.50
42_L298_F1.0280.50
85_V118_S1.0270.50
73_S284_P1.0260.50
104_W259_V1.0240.50
125_A153_V1.0230.49
44_L61_R1.0200.49
7_T16_H1.0190.49
103_V237_A1.0170.49
38_L300_K1.0160.49
117_T193_S1.0140.48
249_P275_I1.0130.48
112_D247_W1.0120.48
155_V250_F1.0090.48
39_V229_E1.0080.48
112_D276_G1.0070.48
57_V107_I1.0060.48
63_L68_N1.0060.48
129_D186_I1.0040.47
76_T154_I1.0030.47
115_F155_V1.0030.47
56_A241_G1.0030.47
222_K289_I1.0000.47
84_L125_A1.0000.47
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: (31Jan15)
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  
2rh1A10.89031000.216Contact Map
2z73A20.98061000.233Contact Map
3uonA10.88711000.257Contact Map
4pxzA10.86451000.257Contact Map
3oduA20.9291000.259Contact Map
3pblA20.86771000.261Contact Map
3vw7A10.8711000.264Contact Map
4grvA10.88391000.266Contact Map
4u15A20.88711000.267Contact Map
4phuA10.82581000.272Contact 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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