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ID: 1513765588 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 459 (403)
Sequences: 1140 (800.8)
Seq/Len: 2.829
Nf(neff/√len): 39.9

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: 2.829).

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
295_P299_Y2.4591.00
62_A90_V2.1151.00
423_D428_L2.0731.00
85_W108_R1.7450.98
67_S87_V1.6790.98
30_G33_R1.6770.98
45_A391_E1.6480.98
141_L184_Y1.6470.98
58_K65_L1.6460.98
143_V147_F1.6290.97
288_G299_Y1.6140.97
209_C213_F1.6090.97
38_F41_K1.5940.97
31_L35_A1.5810.97
301_K424_V1.5700.97
32_G36_A1.5670.96
218_W285_P1.5230.96
120_V190_I1.5140.95
65_L68_V1.4930.95
66_V86_A1.4910.95
171_I177_G1.4900.95
63_L207_C1.4870.95
41_K44_G1.4860.95
125_L140_M1.4860.95
68_V72_V1.4830.95
290_F294_H1.4800.95
62_A206_I1.4790.95
288_G295_P1.4720.94
63_L67_S1.4290.93
140_M144_L1.4230.93
119_A150_S1.4160.93
34_R42_V1.4090.93
39_A42_V1.4030.92
42_V110_L1.4030.92
209_C257_G1.3970.92
369_S427_R1.3930.92
62_A210_T1.3860.92
112_T295_P1.3770.91
33_R36_A1.3750.91
182_S200_I1.3720.91
99_G385_L1.3640.91
116_G175_T1.3540.91
54_A61_L1.3530.91
58_K385_L1.3530.91
86_A112_T1.3480.90
302_L362_T1.3440.90
201_A415_V1.3430.90
31_L34_R1.3350.90
275_D307_R1.3260.89
301_K421_C1.3250.89
157_F171_I1.3210.89
121_G125_L1.3150.89
293_R422_V1.3120.89
291_R362_T1.3010.88
97_T222_D1.3000.88
112_T196_R1.2990.88
368_P427_R1.2860.87
165_Y168_G1.2820.87
85_W203_G1.2800.87
203_G216_P1.2780.87
227_A422_V1.2740.87
348_S352_S1.2700.86
106_L110_L1.2700.86
113_L197_F1.2590.86
66_V206_I1.2530.85
214_L239_E1.2510.85
360_M364_T1.2490.85
122_A144_L1.2480.85
108_R196_R1.2460.85
38_F44_G1.2420.85
139_I143_V1.2400.85
142_T147_F1.2350.84
190_I194_H1.2340.84
298_Q424_V1.2330.84
291_R369_S1.2280.84
175_T196_R1.2280.84
346_E384_S1.2270.84
29_A34_R1.2250.84
326_T333_N1.2220.83
119_A176_F1.2200.83
309_C411_L1.2180.83
94_M183_S1.2140.83
309_C415_V1.2110.83
114_V172_F1.2110.83
117_C121_G1.2050.82
305_L414_R1.2050.82
82_S85_W1.2050.82
129_A138_P1.2050.82
155_L169_V1.2040.82
37_G42_V1.2020.82
119_A388_E1.1970.82
325_K332_A1.1920.81
302_L418_I1.1920.81
136_G142_T1.1900.81
28_L32_G1.1860.81
371_V374_T1.1850.81
34_R44_G1.1750.80
86_A199_T1.1750.80
124_Q140_M1.1730.80
161_I207_C1.1710.80
182_S192_L1.1700.80
33_R40_R1.1690.79
194_H198_Y1.1680.79
119_A364_T1.1650.79
235_A270_S1.1650.79
193_A299_Y1.1620.79
305_L417_E1.1590.79
61_L201_A1.1470.78
63_L91_V1.1460.78
89_T166_D1.1460.78
367_V427_R1.1450.77
218_W283_W1.1440.77
55_H196_R1.1440.77
288_G294_H1.1430.77
117_C142_T1.1400.77
147_F195_Q1.1390.77
140_M207_C1.1380.77
69_V137_E1.1350.77
203_G207_C1.1340.77
83_A367_V1.1320.76
340_V356_R1.1310.76
123_H200_I1.1310.76
39_A46_A1.1250.76
108_R171_I1.1240.76
109_A201_A1.1210.75
37_G41_K1.1200.75
265_K338_C1.1200.75
170_T277_L1.1200.75
124_Q368_P1.1190.75
337_S340_V1.1180.75
58_K93_V1.1170.75
85_W196_R1.1170.75
119_A179_V1.1160.75
117_C190_I1.1150.75
224_H362_T1.1150.75
173_I355_L1.1090.74
110_L381_A1.1080.74
125_L131_R1.1040.74
69_V75_L1.0980.73
138_P276_S1.0960.73
98_V210_T1.0960.73
384_S388_E1.0940.73
278_C300_Q1.0910.73
28_L31_L1.0890.72
67_S71_F1.0870.72
358_L419_A1.0860.72
228_S297_S1.0840.72
425_L431_F1.0770.71
36_A40_R1.0740.71
118_I148_V1.0740.71
173_I302_L1.0730.71
46_A340_V1.0710.71
211_T359_A1.0710.71
257_G324_S1.0670.70
106_L304_T1.0660.70
66_V90_V1.0660.70
207_C373_I1.0650.70
122_A219_A1.0650.70
423_D427_R1.0630.70
136_G362_T1.0630.70
30_G434_P1.0610.70
340_V350_H1.0580.69
66_V238_I1.0580.69
302_L424_V1.0560.69
152_A172_F1.0560.69
28_L33_R1.0550.69
175_T182_S1.0520.69
57_L61_L1.0520.69
291_R359_A1.0490.68
200_I295_P1.0480.68
68_V389_L1.0460.68
40_R213_F1.0450.68
180_A275_D1.0420.68
61_L79_L1.0410.67
88_L200_I1.0410.67
59_V63_L1.0410.67
297_S393_T1.0390.67
140_M195_Q1.0380.67
120_V141_L1.0370.67
114_V362_T1.0340.67
136_G140_M1.0340.67
150_S309_C1.0340.67
33_R39_A1.0330.67
37_G40_R1.0330.67
178_L361_A1.0290.66
303_G375_M1.0280.66
67_S211_T1.0280.66
35_A44_G1.0260.66
39_A43_G1.0260.66
275_D300_Q1.0240.66
153_T182_S1.0240.66
157_F418_I1.0210.65
288_G292_F1.0210.65
201_A413_D1.0200.65
207_C352_S1.0200.65
87_V404_T1.0200.65
100_A280_F1.0160.65
340_V409_A1.0160.65
100_A148_V1.0140.64
31_L251_V1.0140.64
120_V340_V1.0140.64
68_V75_L1.0140.64
105_G208_L1.0120.64
141_L399_M1.0110.64
112_T175_T1.0110.64
34_R38_F1.0110.64
91_V214_L1.0110.64
141_L347_M1.0110.64
117_C342_K1.0110.64
35_A39_A1.0100.64
44_G48_E1.0070.64
29_A32_G1.0060.64
56_S70_Y1.0050.63
307_R310_A1.0050.63
279_T302_L1.0040.63
196_R295_P1.0030.63
393_T433_N1.0030.63
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  
2oltA30.442379.60.96Contact Map
4j2cA20.230923.90.973Contact Map
3l39A10.437913.30.976Contact Map
4dx5A30.429211.60.976Contact Map
4k0jA60.398711.30.976Contact Map
2losA10.22229.70.977Contact Map
3w9iA60.40529.30.977Contact Map
3ahnA20.18958.60.978Contact Map
3eaqA20.20048.50.978Contact Map
3ne5A10.41187.90.978Contact 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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