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BuA1

ID: 1515265597 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 583 (544)
Sequences: 5140 (3460.7)
Seq/Len: 9.449
Nf(neff/√len): 148.4

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: 9.449).

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
332_F531_T4.7411.00
20_D179_P4.5801.00
126_G137_F4.4961.00
125_L142_L4.1041.00
274_E350_R4.0531.00
104_R138_E4.0351.00
24_K68_L3.7221.00
117_I124_R3.7201.00
250_I258_K3.5071.00
109_F152_V3.4881.00
112_V176_I3.4521.00
221_T265_A3.4121.00
121_N148_N3.3961.00
319_H350_R3.2851.00
120_L150_L3.1731.00
94_H147_T3.1351.00
103_K184_E3.0981.00
223_D265_A3.0501.00
250_I256_N2.9911.00
315_K343_E2.9571.00
120_L125_L2.9471.00
224_I275_I2.8431.00
112_V116_A2.8131.00
395_I454_I2.7301.00
385_A422_L2.6841.00
105_L143_L2.6331.00
253_T256_N2.5811.00
265_A270_K2.5731.00
92_R149_S2.5201.00
225_P263_N2.4781.00
384_I419_A2.4671.00
22_Q68_L2.4131.00
199_K251_L2.3861.00
319_H323_S2.3631.00
333_V353_F2.3341.00
103_K186_P2.3171.00
112_V154_V2.2841.00
282_T427_L2.2801.00
418_K422_L2.2681.00
109_F112_V2.2481.00
73_G78_Q2.2401.00
120_L139_I2.2251.00
380_L419_A2.2101.00
134_P386_R2.2081.00
323_S327_E2.1791.00
420_R428_I2.1691.00
261_A274_E2.1601.00
377_E414_N2.1361.00
416_A420_R2.1261.00
296_C394_I2.1151.00
381_C418_K2.0611.00
106_F138_E2.0591.00
117_I127_R2.0561.00
253_T292_K2.0541.00
283_E288_L2.0331.00
107_L118_V2.0291.00
385_A388_K2.0271.00
222_L264_L2.0241.00
104_R187_A2.0181.00
261_A272_S1.9751.00
423_D426_R1.9731.00
328_L567_A1.9311.00
254_P354_L1.9301.00
307_Y541_P1.9261.00
194_Y388_K1.9211.00
190_I209_V1.9171.00
262_V275_I1.9171.00
349_E390_R1.9081.00
321_L562_G1.8991.00
107_L139_I1.8981.00
348_A355_V1.8721.00
246_K249_P1.8711.00
105_L184_E1.8701.00
223_D263_N1.8701.00
193_Y264_L1.8681.00
117_I153_K1.8651.00
413_S417_N1.8601.00
263_N270_K1.8521.00
24_K92_R1.8501.00
198_A279_T1.8481.00
287_I394_I1.8471.00
263_N272_S1.8131.00
246_K277_F1.8121.00
123_K142_L1.7981.00
289_L294_I1.7911.00
110_G181_T1.7901.00
94_H149_S1.7831.00
280_I287_I1.7641.00
64_E92_R1.7631.00
90_W153_K1.7551.00
322_L351_M1.7501.00
92_R151_V1.7451.00
305_T317_H1.7391.00
289_L354_L1.7361.00
96_E147_T1.7191.00
320_T323_S1.7141.00
308_Y314_S1.7031.00
18_S179_P1.6841.00
322_L353_F1.6791.00
279_T291_D1.6751.00
357_S387_D1.6711.00
534_I538_F1.6681.00
97_Y143_L1.6471.00
106_F185_M1.6461.00
222_L262_V1.6451.00
192_D388_K1.6411.00
333_V344_M1.6411.00
515_I519_N1.6291.00
314_S317_H1.6291.00
474_V524_I1.6221.00
417_N421_S1.6131.00
198_A206_E1.6011.00
88_T153_K1.6011.00
205_I275_I1.5941.00
104_R141_N1.5881.00
104_R189_Y1.5821.00
206_E243_F1.5811.00
377_E418_K1.5511.00
354_L394_I1.5471.00
357_S383_M1.5281.00
45_G48_Q1.5231.00
128_H135_F1.5171.00
254_P294_I1.5161.00
90_W151_V1.5091.00
191_R210_Q1.5031.00
349_E392_N1.5021.00
308_Y312_A1.5011.00
133_T382_D1.4881.00
325_A353_F1.4871.00
281_R288_L1.4861.00
195_V262_V1.4851.00
124_R127_R1.4781.00
255_E326_K1.4641.00
570_V574_W1.4641.00
381_C422_L1.4571.00
69_L78_Q1.4511.00
70_F78_Q1.4461.00
70_F73_G1.4381.00
249_P277_F1.4331.00
416_A428_I1.4331.00
274_E346_R1.4160.99
255_E294_I1.4130.99
380_L415_L1.4040.99
75_W89_V1.3970.99
315_K319_H1.3950.99
203_N277_F1.3850.99
301_I340_H1.3850.99
16_T181_T1.3780.99
22_Q70_F1.3710.99
115_E129_I1.3580.99
106_F136_N1.3560.99
299_I330_C1.3550.99
420_R453_D1.3540.99
108_N136_N1.3500.99
288_L293_E1.3500.99
344_M348_A1.3500.99
536_K562_G1.3470.99
196_Q208_W1.3450.99
128_H382_D1.3430.99
340_H345_V1.3320.99
197_L203_N1.3300.99
116_A128_H1.3270.99
328_L568_F1.3200.99
255_E292_K1.3160.99
347_E351_M1.3140.99
323_S351_M1.3090.99
188_T213_G1.3080.99
325_A330_C1.3070.99
534_I555_K1.3060.99
104_R140_T1.3010.99
102_G187_A1.2950.99
541_P546_P1.2940.99
108_N183_I1.2930.99
378_Q382_D1.2910.99
418_K421_S1.2870.99
106_F189_Y1.2850.99
120_L142_L1.2840.99
191_R212_E1.2830.99
355_V392_N1.2780.99
373_Y414_N1.2780.99
108_N181_T1.2640.98
485_F528_A1.2610.98
59_Q65_T1.2540.98
152_V176_I1.2520.98
308_Y317_H1.2510.98
305_T314_S1.2460.98
196_Q206_E1.2440.98
224_I262_V1.2400.98
17_T98_S1.2330.98
125_L137_F1.2290.98
200_D279_T1.2200.98
285_I288_L1.2160.98
318_A344_M1.2140.98
190_I264_L1.2130.98
326_K351_M1.2110.98
98_S184_E1.2020.98
25_T89_V1.2010.98
324_W327_E1.1990.98
15_Q103_K1.1980.98
190_I266_S1.1940.98
563_Q567_A1.1920.98
118_V152_V1.1900.98
225_P261_A1.1880.97
195_V273_D1.1870.97
71_V91_Y1.1860.97
202_K251_L1.1770.97
205_I277_F1.1740.97
322_L348_A1.1720.97
112_V152_V1.1700.97
572_Q575_Y1.1690.97
28_D90_W1.1600.97
347_E350_R1.1570.97
538_F555_K1.1540.97
377_E381_C1.1530.97
286_K293_E1.1490.97
383_M393_I1.1450.97
197_L277_F1.1400.97
301_I321_L1.1370.96
367_W376_A1.1340.96
116_A152_V1.1310.96
543_R546_P1.1280.96
294_I354_L1.1250.96
325_A535_L1.1240.96
195_V207_G1.1130.96
204_M243_F1.1120.96
336_A340_H1.1120.96
203_N249_P1.1090.96
88_T155_D1.1010.96
280_I394_I1.0990.96
226_E229_V1.0960.95
129_I375_N1.0940.95
357_S386_R1.0930.95
398_I419_A1.0830.95
429_G456_S1.0820.95
345_V355_V1.0770.95
395_I427_L1.0750.95
134_P387_D1.0750.95
95_F150_L1.0650.94
76_N174_G1.0630.94
313_Y318_A1.0600.94
498_H508_E1.0590.94
381_C421_S1.0570.94
281_R291_D1.0560.94
259_L274_E1.0550.94
207_G222_L1.0510.94
190_I271_V1.0500.94
115_E127_R1.0480.94
195_V275_I1.0460.94
532_P570_V1.0410.94
139_I143_L1.0360.93
345_V387_D1.0350.93
359_I383_M1.0220.93
119_W124_R1.0220.93
319_H351_M1.0210.93
320_T324_W1.0210.93
381_C385_A1.0200.93
322_L344_M1.0200.93
287_I427_L1.0160.92
188_T218_Q1.0130.92
474_V478_F1.0090.92
98_S105_L1.0060.92
118_V150_L1.0050.92
343_E346_R1.0030.92
130_G360_P1.0010.92
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  
1jz7A40.90571000.271Contact Map
1yq2A60.9161000.283Contact Map
3fn9A40.92281000.289Contact Map
3cmgA10.90571000.291Contact Map
3obaA40.89541000.292Contact Map
3bgaA20.89371000.296Contact Map
3gm8A10.87481000.305Contact Map
4ypjA201000.306Contact Map
3hn3A40.94341000.315Contact Map
4cu7A10.9281000.324Contact 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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