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gpcr_1e-40

ID: 1501558935 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 292 (281)
Sequences: 10377 (5839.5)
Seq/Len: 36.929
Nf(neff/√len): 348.4

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: 36.929).

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
13_S55_T5.1151.00
193_I197_K3.3851.00
76_L80_V3.2691.00
46_H95_M3.0471.00
104_S109_R2.8821.00
75_E79_K2.8581.00
46_H128_W2.7721.00
98_V127_A2.7481.00
71_W74_G2.4721.00
196_A200_F2.2671.00
18_A22_L2.2581.00
98_V123_M2.1641.00
87_F132_S2.1641.00
197_K200_F2.1121.00
244_W276_A2.1081.00
104_S197_K2.0691.00
83_Y87_F2.0661.00
190_I194_C2.0621.00
239_S286_I2.0591.00
24_L45_K2.0311.00
21_L45_K2.0291.00
42_L124_V1.8851.00
192_L196_A1.8371.00
118_K122_S1.8331.00
64_M73_A1.8161.00
178_F182_C1.7771.00
232_M290_F1.7721.00
21_L52_L1.7141.00
267_P271_F1.7051.00
95_M124_V1.7051.00
43_L120_G1.7041.00
250_L272_F1.7021.00
249_V253_W1.6791.00
200_F204_R1.6521.00
10_F63_G1.6341.00
122_S126_L1.6091.00
75_E143_R1.5881.00
83_Y139_L1.5871.00
18_A52_L1.5781.00
180_F185_I1.5751.00
38_S41_K1.5631.00
136_G140_Y1.5611.00
101_L194_C1.5581.00
48_T51_N1.5571.00
91_A131_S1.5181.00
36_K41_K1.5131.00
121_Q125_G1.5081.00
184_F245_T1.5081.00
278_L282_F1.4981.00
45_K49_L1.4961.00
46_H124_V1.4951.00
96_M191_M1.4841.00
180_F252_I1.4791.00
74_G77_L1.4641.00
78_C160_C1.4561.00
188_L241_T1.4511.00
177_F256_F1.4411.00
247_Y251_G1.4291.00
53_L88_S1.4261.00
14_A55_T1.4081.00
123_M127_A1.4040.99
250_L268_V1.4030.99
245_T249_V1.3990.99
268_V272_F1.3980.99
104_S108_T1.3970.99
50_A91_A1.3940.99
104_S193_I1.3850.99
241_T245_T1.3850.99
109_R112_A1.3680.99
239_S282_F1.3610.99
21_L48_T1.3570.99
94_F130_L1.3470.99
102_D106_A1.3400.99
197_K201_T1.3350.99
144_M158_S1.3170.99
21_L24_L1.3140.99
10_F60_P1.3070.99
7_F63_G1.3060.99
51_N283_D1.3030.99
61_L77_L1.2850.99
283_D287_Y1.2820.99
94_F97_V1.2770.99
199_I230_L1.2680.99
105_L109_R1.2600.99
199_I203_T1.2500.99
184_F240_F1.2500.99
91_A95_M1.2300.98
14_A52_L1.2300.98
235_A286_I1.2280.98
106_A110_P1.2260.98
64_M72_Y1.2160.98
12_L15_T1.2130.98
91_A128_W1.2130.98
264_L268_V1.2100.98
247_Y276_A1.2090.98
39_R120_G1.2030.98
16_F281_C1.1790.98
90_Y183_L1.1640.97
106_A111_L1.1530.97
108_T201_T1.1420.97
13_S281_C1.1390.97
202_L229_T1.1350.97
10_F59_M1.1340.97
195_N198_I1.1280.97
279_N283_D1.1210.97
146_H158_S1.1130.96
9_L278_L1.1100.96
234_V238_T1.1100.96
50_A128_W1.1060.96
126_L130_L1.1020.96
16_F20_F1.1020.96
73_A77_L1.0960.96
99_I233_T1.0950.96
229_T232_M1.0920.96
54_E280_P1.0890.96
26_K33_K1.0870.96
288_G291_S1.0850.96
21_L49_L1.0830.96
83_Y132_S1.0730.95
7_F67_I1.0720.95
19_S23_K1.0700.95
119_V122_S1.0660.95
97_V190_I1.0640.95
15_T18_A1.0620.95
39_R43_L1.0610.95
41_K44_L1.0530.95
46_H49_L1.0530.95
122_S125_G1.0420.94
191_M237_A1.0390.94
188_L245_T1.0280.94
33_K36_K1.0280.94
201_T204_R1.0280.94
3_V7_F1.0180.93
82_S142_F1.0080.93
50_A92_P1.0030.93
47_L51_N1.0010.92
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  
4iarA10.89381000.142Contact Map
4pxzA10.93151000.17Contact Map
4bvnA10.91781000.17Contact Map
2rh1A10.94181000.172Contact Map
3uonA10.93841000.179Contact Map
3oduA20.94181000.185Contact Map
3vw7A10.94521000.186Contact Map
3pblA20.9111000.188Contact Map
4dklA10.95211000.189Contact Map
3emlA10.93841000.194Contact 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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