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gpcr_1e-4

ID: 1501449595 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 292 (285)
Sequences: 19416 (11581.3)
Seq/Len: 68.126
Nf(neff/√len): 686.0

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: 68.126).

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_T4.2391.00
46_H128_W4.2381.00
160_C164_C3.8981.00
193_I197_K3.6411.00
46_H95_M3.0191.00
104_S197_K2.6561.00
196_A200_F2.4991.00
98_V127_A2.4981.00
76_L80_V2.4501.00
50_A91_A2.3591.00
190_I194_C2.2381.00
104_S109_R2.1491.00
83_Y87_F2.1041.00
75_E79_K2.0931.00
197_K200_F2.0721.00
232_M290_F2.0341.00
118_K122_S2.0261.00
104_S194_C2.0141.00
91_A131_S2.0101.00
104_S108_T1.9991.00
51_N283_D1.9901.00
109_R112_A1.9791.00
53_L88_S1.9711.00
87_F132_S1.9581.00
108_T201_T1.9501.00
244_W276_A1.9241.00
21_L45_K1.8901.00
46_H124_V1.8571.00
98_V123_M1.8481.00
200_F204_R1.8441.00
197_K201_T1.8041.00
122_S126_L1.7951.00
239_S286_I1.7621.00
71_W74_G1.7611.00
78_C160_C1.7481.00
42_L124_V1.7471.00
97_V194_C1.7201.00
95_M124_V1.7021.00
18_A22_L1.6401.00
201_T204_R1.6371.00
123_M127_A1.6011.00
268_V272_F1.6001.00
101_L194_C1.5981.00
188_L241_T1.5761.00
121_Q125_G1.5731.00
45_K49_L1.5581.00
249_V253_W1.5421.00
102_D106_A1.5331.00
106_A110_P1.5101.00
97_V190_I1.4991.00
91_A95_M1.4941.00
95_M128_W1.4821.00
74_G77_L1.4581.00
54_E280_P1.4411.00
96_M191_M1.4391.00
51_N92_P1.4311.00
101_L105_L1.4261.00
43_L120_G1.4241.00
50_A92_P1.4181.00
83_Y139_L1.4081.00
91_A128_W1.4030.99
283_D287_Y1.4000.99
42_L121_Q1.3850.99
94_F130_L1.3810.99
105_L109_R1.3760.99
50_A128_W1.3750.99
100_S195_N1.3750.99
131_S135_A1.3730.99
278_L282_F1.3710.99
94_F187_P1.3660.99
48_T51_N1.3560.99
24_L45_K1.3400.99
199_I230_L1.3210.99
14_A52_L1.3130.99
136_G140_Y1.3100.99
104_S193_I1.3080.99
192_L196_A1.3000.99
90_Y183_L1.2880.99
50_A88_S1.2860.99
118_K121_Q1.2810.99
226_R230_L1.2680.99
199_I203_T1.2660.99
245_T249_V1.2630.99
43_L99_I1.2540.99
87_F135_A1.2530.99
239_S282_F1.2220.98
15_T18_A1.2150.98
94_F97_V1.2070.98
93_A240_F1.2020.98
19_S23_K1.2010.98
267_P271_F1.2010.98
178_F182_C1.1890.98
116_N119_V1.1850.98
100_S191_M1.1800.98
47_L95_M1.1790.98
241_T245_T1.1730.98
43_L95_M1.1700.97
43_L102_D1.1610.97
112_A115_S1.1600.97
22_L26_K1.1470.97
257_D260_M1.1440.97
229_T233_T1.1430.97
229_T232_M1.1330.97
250_L268_V1.1310.97
195_N198_I1.1230.97
105_L113_L1.1160.96
21_L48_T1.1160.96
46_H50_A1.1120.96
205_V209_D1.1100.96
42_L46_H1.1070.96
86_L135_A1.1050.96
75_E143_R1.0980.96
16_F281_C1.0940.96
127_A131_S1.0940.96
100_S194_C1.0820.96
106_A111_L1.0800.95
273_F277_F1.0770.95
138_Q141_I1.0770.95
280_P284_P1.0760.95
94_F127_A1.0730.95
60_P63_G1.0680.95
264_L268_V1.0640.95
18_A52_L1.0620.95
279_N283_D1.0560.95
10_F14_A1.0470.94
43_L98_V1.0460.94
36_K41_K1.0370.94
106_A113_L1.0330.94
94_F131_S1.0330.94
199_I202_L1.0310.94
13_S281_C1.0290.94
21_L52_L1.0270.94
76_L79_K1.0250.93
93_A187_P1.0190.93
126_L130_L1.0130.93
122_S125_G1.0110.93
83_Y135_A1.0100.93
64_M73_A1.0100.93
107_I110_P1.0070.93
90_Y131_S1.0060.93
97_V191_M1.0050.93
20_F24_L1.0040.93
108_T197_K1.0020.92
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  
4iarA10.89381000.091Contact Map
2rh1A10.94521000.092Contact Map
4pxzA10.93151000.096Contact Map
3uonA10.93841000.101Contact Map
3oduA20.94181000.106Contact Map
4dklA10.95211000.106Contact Map
3vw7A10.94521000.107Contact Map
4grvA10.96231000.11Contact Map
3rzeA10.91441000.112Contact Map
3emlA10.93841000.113Contact 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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