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ID: 1513199670 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 437 (311)
Sequences: 614 (447.7)
Seq/Len: 1.974
Nf(neff/√len): 25.4

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: 1.974).

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
325_R331_E5.2341.00
313_A433_V3.5171.00
373_K384_D3.1551.00
243_L434_L2.8941.00
224_Q236_N2.7151.00
335_A385_M2.4861.00
244_S248_V2.4851.00
243_L327_P2.4691.00
256_F315_W2.3011.00
225_Y334_I2.2451.00
338_A380_L2.2381.00
301_V304_V2.1670.99
256_F311_A2.1330.99
299_S369_T2.0990.99
215_P312_Y2.0890.99
252_Q312_Y2.0500.99
246_T373_K1.9830.99
264_T267_E1.9600.99
219_T240_A1.9020.98
219_T242_A1.8730.98
244_S433_V1.7990.97
222_P240_A1.7730.97
413_K417_E1.7690.97
215_P252_Q1.7470.97
332_W336_A1.7190.96
313_A317_S1.7190.96
329_E417_E1.7000.96
370_S375_F1.6860.96
247_P370_S1.6730.96
377_P383_Y1.6660.95
334_I380_L1.6590.95
329_E395_D1.6580.95
247_P391_E1.5920.94
259_Q319_E1.5470.92
237_L241_F1.5410.92
309_A313_A1.5400.92
316_L433_V1.5170.92
227_L330_E1.4920.91
317_S433_V1.4830.90
250_V303_C1.4730.90
272_C303_C1.4680.90
216_E245_S1.4630.89
250_V295_Q1.4320.88
378_N382_F1.4310.88
346_W386_V1.4280.88
253_F256_F1.4230.88
137_Q140_D1.4190.87
330_E395_D1.4180.87
256_F262_Y1.4000.86
340_S345_W1.3800.85
254_E258_T1.3690.85
250_V256_F1.3590.84
227_L334_I1.3500.84
324_Y435_R1.3470.83
312_Y315_W1.3440.83
254_E297_K1.3380.83
250_V254_E1.3300.82
227_L233_K1.3270.82
346_W370_S1.3140.81
346_W375_F1.3110.81
253_F262_Y1.3010.80
390_W404_A1.2900.80
260_T308_D1.2840.79
333_E337_R1.2810.79
217_V244_S1.2680.78
167_I171_G1.2610.78
306_Q392_W1.2520.77
342_T345_W1.2440.76
256_F302_V1.2400.76
244_S318_K1.2350.75
244_S316_L1.2280.75
250_V302_V1.2250.75
306_Q313_A1.2240.75
142_V152_T1.2220.74
253_F264_T1.2190.74
317_S324_Y1.2160.74
215_P320_T1.2130.74
389_V430_G1.2070.73
370_S400_A1.2020.73
251_S297_K1.1950.72
324_Y433_V1.1870.71
310_K394_G1.1740.70
343_D348_N1.1740.70
228_G330_E1.1710.70
345_W376_A1.1630.69
221_L380_L1.1600.69
336_A386_V1.1420.67
370_S374_A1.1410.67
302_V315_W1.1380.67
357_T360_A1.1330.66
242_A437_L1.1310.66
342_T378_N1.1300.66
220_I382_F1.1290.66
344_Y347_G1.1290.66
265_D307_N1.1240.65
218_I245_S1.1130.64
228_G337_R1.1070.63
268_L285_D1.0980.63
331_E434_L1.0930.62
224_Q234_Q1.0920.62
356_N375_F1.0840.61
388_N392_W1.0780.60
252_Q298_D1.0780.60
345_W386_V1.0750.60
311_A315_W1.0710.60
317_S323_T1.0710.60
344_Y386_V1.0620.59
158_L161_G1.0580.58
247_P374_A1.0570.58
371_P374_A1.0570.58
257_V262_Y1.0560.58
145_G163_H1.0510.58
332_W403_G1.0500.57
133_I143_T1.0480.57
382_F385_M1.0480.57
241_F334_I1.0420.57
301_V350_F1.0400.56
256_F260_T1.0370.56
249_T384_D1.0310.55
386_V391_E1.0310.55
256_F309_A1.0250.55
246_T252_Q1.0210.54
274_S277_E1.0180.54
260_T264_T1.0140.53
285_D308_D1.0140.53
201_G206_D1.0120.53
330_E334_I1.0080.53
269_K280_I1.0060.53
245_S374_A1.0060.53
220_I243_L1.0020.52
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  
2q17A50.50571000.604Contact Map
1z70X10.49661000.605Contact Map
1y4jA20.49431000.61Contact Map
4x8eA20.83981000.622Contact Map
2y3cA10.47831000.626Contact Map
1yu0A10.71851000.663Contact Map
2ltsA10.1038.70.983Contact Map
2l33A10.12815.90.985Contact Map
2g49C20.02525.60.985Contact Map
2mdrA10.12135.10.985Contact 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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