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GPCRAR

ID: 1518214543 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 300 (275)
Sequences: 1568 (1075.7)
Seq/Len: 5.702
Nf(neff/√len): 64.9

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: 5.702).

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
145_L204_L3.7711.00
28_G32_L3.4561.00
92_Y95_R3.3661.00
92_Y98_D3.0721.00
197_H202_Y2.8331.00
245_F265_Q2.4121.00
109_G113_V2.4011.00
125_F129_S2.3111.00
37_F142_A2.1801.00
211_L235_G2.1221.00
234_I272_I2.1171.00
68_G113_V2.0371.00
206_L239_F1.9891.00
234_I276_V1.9881.00
118_A128_V1.9641.00
147_N152_E1.9521.00
39_M62_L1.9521.00
35_F66_F1.9521.00
234_I275_G1.9481.00
164_A195_P1.9191.00
95_R98_D1.9191.00
140_L232_F1.8951.00
68_G109_G1.8851.00
104_H264_G1.8801.00
158_D164_A1.8341.00
199_S243_V1.8241.00
242_I246_F1.8071.00
230_G278_M1.7951.00
72_G109_G1.7831.00
277_I281_W1.7791.00
45_R48_R1.7611.00
227_A283_Y1.7381.00
230_G275_G1.7201.00
239_F243_V1.7071.00
90_P94_F1.6631.00
91_L95_R1.6501.00
64_A68_G1.6421.00
41_L138_F1.6401.00
75_I93_L1.6170.99
18_S23_A1.6100.99
154_W196_R1.6090.99
144_R240_R1.6080.99
54_T57_E1.5820.99
196_R248_Q1.5700.99
116_I120_R1.5420.99
238_A272_I1.5320.99
87_M90_P1.5240.99
30_M33_V1.5230.99
117_F121_T1.5070.99
85_Q92_Y1.5010.99
82_N85_Q1.5010.99
241_I265_Q1.4730.99
233_L275_G1.4690.99
73_G109_G1.4650.99
148_F201_L1.4440.98
89_D92_Y1.4310.98
152_E200_Q1.4250.98
237_G272_I1.4140.98
130_D226_G1.4010.98
147_N153_L1.3900.98
45_R219_I1.3880.98
16_I26_W1.3680.98
268_S271_M1.3600.97
104_H268_S1.3590.97
61_L128_V1.3430.97
151_G168_P1.3410.97
61_L65_G1.3290.97
73_G106_G1.3250.97
91_L94_F1.3150.97
85_Q89_D1.2950.96
47_N55_K1.2750.96
129_S136_I1.2620.96
61_L114_M1.2560.95
113_V116_I1.2520.95
35_F106_G1.2500.95
38_A139_G1.2370.95
19_I22_V1.2320.95
238_A242_I1.2270.95
53_W131_F1.2240.95
224_P227_A1.2190.94
157_V194_L1.2170.94
208_G211_L1.2120.94
29_L33_V1.2090.94
208_G212_F1.2060.94
278_M282_A1.2030.94
137_P235_G1.2020.94
228_V231_L1.1850.93
31_Y34_G1.1790.93
209_V213_I1.1770.93
138_F212_F1.1690.93
147_N150_N1.1670.93
74_R99_G1.1540.92
134_P137_P1.1510.92
241_I245_F1.1400.91
36_I40_W1.1350.91
161_F164_A1.1340.91
64_A113_V1.1270.91
284_R287_P1.1240.91
238_A241_I1.1240.91
102_S153_L1.1230.91
57_E123_R1.1220.91
104_H237_G1.1130.90
64_A117_F1.1100.90
103_F140_L1.1100.90
212_F216_N1.1070.90
78_V93_L1.1060.90
151_G200_Q1.1050.90
199_S262_S1.1030.90
237_G271_M1.1020.89
210_V235_G1.1020.89
27_Y152_E1.0980.89
38_A135_L1.0840.88
14_P25_H1.0820.88
138_F211_L1.0820.88
213_I217_L1.0770.88
90_P93_L1.0750.88
147_N200_Q1.0740.88
58_V128_V1.0630.87
63_Y67_L1.0620.87
17_F26_W1.0500.86
212_F215_L1.0440.86
43_T59_E1.0410.86
169_G172_T1.0350.85
16_I25_H1.0340.85
41_L216_N1.0320.85
26_W149_I1.0320.85
77_Y80_F1.0250.84
157_V196_R1.0240.84
279_M283_Y1.0220.84
133_A229_S1.0180.84
112_V116_I1.0140.83
160_N164_A1.0140.83
153_L264_G1.0120.83
74_R101_M1.0050.83
16_I29_L1.0040.83
207_E239_F1.0020.82
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  
2ls4A10.083.20.972Contact Map
2kluA10.16672.60.974Contact Map
4px7A10.746720.975Contact Map
2looA10.331.90.975Contact Map
2m20A20.14331.50.977Contact Map
3wu2Y20.09331.30.978Contact Map
4us3A10.451.30.978Contact Map
3aqpA20.18331.30.978Contact Map
4he8J20.151.20.978Contact Map
2jo1A10.17671.10.979Contact 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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