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BuA3

ID: 1515277624 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 793 (750)
Sequences: 1731 (1250.9)
Seq/Len: 2.308
Nf(neff/√len): 45.7

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: 2.308).

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
635_V668_I5.0481.00
632_E639_S4.7081.00
101_V143_I4.6911.00
339_F553_L4.3611.00
326_R357_E4.0101.00
634_F639_S3.9111.00
249_L284_F3.8831.00
11_T172_Y3.7841.00
44_Q55_E3.6881.00
635_V640_Q3.6551.00
93_A169_L3.6231.00
631_V670_A3.5591.00
10_L75_L3.5291.00
98_E105_R3.5161.00
478_T546_M3.4431.00
256_S300_E3.2461.00
270_I275_T3.2441.00
731_I778_D3.0881.00
101_V106_I3.0261.00
604_I624_V2.9941.00
107_A118_A2.9121.00
293_G296_Y2.8771.00
74_M140_K2.8151.00
281_H357_E2.7521.00
221_S268_E2.7501.00
227_P261_A2.7441.00
224_V282_F2.7381.00
181_V218_K2.6891.00
630_E642_R2.6801.00
628_C672_G2.6541.00
225_F266_V2.6481.00
265_C282_F2.5891.00
268_E277_R2.5691.00
84_G179_P2.5151.00
10_L73_T2.4961.00
222_L267_A2.4901.00
391_E436_L2.4611.00
329_M360_L2.4571.00
223_R268_E2.4541.00
323_E708_E2.4291.00
593_Q601_M2.4101.00
741_L763_I2.4021.00
332_I579_V2.3751.00
106_I123_A2.3591.00
90_F145_I2.3241.00
712_V776_A2.2991.00
642_R673_Y2.2841.00
93_A147_C2.2831.00
86_T177_Y2.2451.00
267_A280_Q2.2371.00
390_I433_A2.2251.00
183_F205_I2.1901.00
253_Q259_S2.1811.00
739_E765_V2.1711.00
629_P674_D2.1581.00
622_I668_I2.1491.00
253_Q261_A2.1211.00
258_H300_E2.1111.00
716_L756_A2.1051.00
15_E45_K2.1031.00
634_F671_T2.1011.00
638_V662_R2.0921.00
98_E108_S2.0871.00
70_W144_A2.0700.99
626_S655_L2.0690.99
15_E30_P2.0610.99
323_E330_Q2.0580.99
740_A766_N2.0490.99
7_K174_N2.0130.99
430_H434_H2.0110.99
86_T124_V2.0110.99
677_L684_Q1.9730.99
640_Q668_I1.9690.99
110_V381_Q1.9610.99
85_R119_D1.9420.99
221_S270_I1.9390.99
688_Q722_I1.9070.99
101_V120_I1.9040.99
88_L120_I1.8980.99
53_N167_G1.8900.99
266_V277_R1.8900.99
100_Y105_R1.8890.99
714_A733_F1.8740.99
77_I124_V1.8700.99
264_T279_T1.8690.99
76_N140_K1.8630.99
763_I776_A1.8630.99
383_R428_E1.8530.99
102_Y141_I1.8420.98
697_R715_E1.8350.98
72_R144_A1.8290.98
632_E642_R1.8240.98
184_E208_G1.8210.98
106_I118_A1.8190.98
257_P361_L1.8100.98
739_E773_V1.8080.98
626_S631_V1.8020.98
667_K688_Q1.7990.98
83_N180_A1.7900.98
387_T435_R1.7820.98
387_T436_L1.7740.98
222_L245_Y1.7740.98
183_F269_L1.7710.98
699_L715_E1.7690.98
632_E641_G1.7670.98
311_E318_A1.7670.98
222_L265_C1.7640.98
332_I337_A1.7570.98
361_L400_I1.7420.98
777_S787_L1.7420.98
181_V209_G1.7270.97
704_A708_E1.7140.97
734_G777_S1.7100.97
593_Q599_K1.7090.97
585_P589_Y1.7050.97
30_P72_R1.6990.97
5_D178_T1.6980.97
331_Q579_V1.6920.97
430_H442_T1.6920.97
88_L143_I1.6850.97
88_L118_A1.6670.97
340_I360_L1.6570.96
669_T684_Q1.6440.96
554_F578_V1.6420.96
205_I245_Y1.6390.96
29_R32_T1.6290.96
268_E275_T1.6210.96
188_I280_Q1.6210.96
84_G177_Y1.6190.96
43_W72_R1.6160.96
109_H114_D1.6130.96
293_G301_R1.6060.96
262_L281_H1.5890.95
266_V279_T1.5890.95
715_E723_R1.5880.95
290_E293_G1.5770.95
695_P717_I1.5660.95
330_Q334_E1.5630.95
639_S642_R1.5610.95
288_R296_Y1.5560.95
481_I548_R1.5550.94
401_L456_V1.5340.94
323_E326_R1.5310.94
183_F267_A1.5220.94
307_T557_F1.5190.94
220_F267_A1.5110.93
52_F69_G1.5080.93
89_E117_K1.4980.93
188_I282_F1.4980.93
364_E389_M1.4960.93
304_L400_I1.4890.93
621_E658_N1.4780.92
43_W70_W1.4690.92
93_A97_T1.4660.92
641_G657_W1.4650.92
72_R142_P1.4610.92
289_F400_I1.4520.91
172_Y350_I1.4500.91
352_L396_H1.4490.91
309_R332_I1.4470.91
257_P302_L1.4430.91
12_E769_H1.4420.91
667_K686_E1.4410.91
46_V55_E1.4240.90
99_V116_W1.4230.90
101_V123_A1.4220.90
224_V265_C1.4210.90
427_G431_D1.4120.90
28_M144_A1.3940.89
371_G379_K1.3860.89
501_H530_S1.3850.89
106_I143_I1.3800.88
70_W146_R1.3720.88
183_F278_T1.3700.88
320_L325_M1.3700.88
233_N247_I1.3670.88
90_F93_A1.3640.88
104_T123_A1.3610.87
489_H492_W1.3560.87
99_V145_I1.3540.87
20_D146_R1.3510.87
322_E354_L1.3490.87
89_E174_N1.3490.87
297_L361_L1.3450.87
307_T337_A1.3440.87
5_D276_L1.3410.86
204_D244_S1.3370.86
223_R266_V1.3300.86
68_P146_R1.3280.86
366_I389_M1.3190.85
639_S657_W1.3180.85
289_F550_T1.3160.85
630_E644_K1.3140.85
206_A391_E1.3080.84
226_S261_A1.3050.84
323_E702_Q1.3020.84
331_Q558_K1.2990.84
313_H327_T1.2970.84
349_G353_R1.2880.83
8_Q177_Y1.2870.83
204_D242_I1.2850.83
290_E296_Y1.2820.83
28_M72_R1.2820.83
313_H328_E1.2810.83
30_P144_A1.2780.83
696_S716_L1.2730.82
733_F778_D1.2730.82
98_E146_R1.2720.82
304_L363_W1.2640.82
387_T432_L1.2610.81
181_V269_L1.2580.81
747_T750_G1.2580.81
730_F755_Q1.2540.81
329_M354_L1.2530.81
74_M142_P1.2520.81
634_F641_G1.2520.81
191_T202_S1.2480.80
705_Q708_E1.2430.80
257_P297_L1.2420.80
390_I436_L1.2370.80
188_I265_C1.2350.80
316_V324_M1.2330.79
305_R598_S1.2320.79
589_Y593_Q1.2310.79
738_S768_Q1.2290.79
309_R328_E1.2280.79
288_R299_G1.2250.79
733_F741_L1.2240.79
590_Y593_Q1.2240.79
600_P627_N1.2220.79
97_T118_A1.2210.78
224_V249_L1.2170.78
296_Y301_R1.2160.78
624_V657_W1.2150.78
109_H388_N1.2120.78
386_L390_I1.2110.78
295_F400_I1.2090.77
690_R722_I1.2080.77
172_Y348_S1.2020.77
114_D346_Q1.2020.77
355_C362_V1.1990.77
729_Q756_A1.1960.76
50_H71_Y1.1930.76
352_L364_E1.1900.76
715_E760_R1.1900.76
540_L591_V1.1860.76
640_Q643_K1.1860.76
68_P148_D1.1860.76
729_Q780_K1.1840.75
622_I633_L1.1800.75
47_T73_T1.1780.75
442_T454_V1.1780.75
302_L338_N1.1780.75
342_L347_Q1.1770.75
85_R180_A1.1760.75
602_L631_V1.1760.75
321_T324_M1.1750.75
264_T281_H1.1740.75
205_I222_L1.1730.74
634_F640_Q1.1720.74
87_C119_D1.1660.74
459_P480_G1.1650.74
105_R108_S1.1610.73
87_C182_H1.1600.73
631_V657_W1.1540.73
147_C169_L1.1540.73
289_F295_F1.1520.73
716_L783_L1.1510.72
364_E399_V1.1510.72
356_D396_H1.1490.72
700_L710_I1.1490.72
330_Q358_L1.1470.72
90_F116_W1.1460.72
734_G779_S1.1440.72
386_L429_L1.1420.72
170_Y311_E1.1410.72
322_E353_R1.1400.71
335_M589_Y1.1320.71
9_R174_N1.1310.71
87_C117_K1.1250.70
363_W401_L1.1170.69
205_I267_A1.1160.69
256_S259_S1.1140.69
93_A99_V1.1120.69
775_S789_S1.1060.68
671_T677_L1.1060.68
634_F669_T1.1050.68
13_H45_K1.1040.68
295_F302_L1.1030.68
207_F269_L1.1010.68
602_L670_A1.0990.67
325_M354_L1.0980.67
89_E176_V1.0980.67
258_H333_K1.0970.67
632_E673_Y1.0960.67
115_E349_G1.0950.67
574_N581_R1.0940.67
172_Y322_E1.0930.67
352_L393_H1.0900.66
383_R387_T1.0870.66
731_I761_A1.0870.66
78_E138_G1.0860.66
11_T48_L1.0850.66
191_T199_G1.0850.66
289_F401_L1.0850.66
30_P43_W1.0840.66
622_I659_V1.0840.66
697_R717_I1.0830.66
9_R172_Y1.0820.66
709_T742_L1.0800.65
541_K545_T1.0800.65
109_H381_Q1.0790.65
256_S333_K1.0790.65
632_E640_Q1.0770.65
202_S246_Q1.0760.65
258_H302_L1.0750.65
287_F295_F1.0750.65
125_E139_G1.0720.65
431_D434_H1.0710.64
91_E350_I1.0690.64
773_V778_D1.0640.64
640_Q657_W1.0640.64
432_L435_R1.0630.64
601_M672_G1.0620.64
326_R330_Q1.0610.63
91_E172_Y1.0600.63
584_T762_S1.0570.63
773_V776_A1.0570.63
10_L48_L1.0540.63
669_T686_E1.0500.62
11_T73_T1.0490.62
706_D767_K1.0490.62
347_Q352_L1.0470.62
735_C741_L1.0460.62
331_Q585_P1.0430.61
404_L454_V1.0420.61
75_L88_L1.0400.61
66_Q167_G1.0400.61
778_D786_A1.0380.61
332_I557_F1.0350.61
111_G114_D1.0330.60
18_R65_Y1.0320.60
342_L364_E1.0310.60
326_R354_L1.0280.60
189_E202_S1.0280.60
161_S165_L1.0270.60
231_E234_S1.0270.60
404_L442_T1.0240.59
696_S731_I1.0210.59
87_C178_T1.0200.59
323_E701_T1.0200.59
477_E489_H1.0190.59
78_E86_T1.0180.59
97_T107_A1.0180.59
226_S232_V1.0160.58
352_L362_V1.0140.58
315_G764_R1.0130.58
602_L679_L1.0110.58
688_Q720_N1.0100.58
383_R432_L1.0090.58
5_D278_T1.0090.58
245_Y267_A1.0070.57
93_A145_I1.0050.57
325_M348_S1.0050.57
632_E671_T1.0040.57
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  
4cu7A10.92691000.315Contact Map
3gm8A10.89911000.317Contact Map
4ypjA201000.317Contact Map
3fn9A40.81081000.417Contact Map
3cmgA10.7971000.422Contact Map
1yq2A60.81971000.566Contact Map
1jz7A40.82851000.575Contact Map
3bgaA20.84241000.584Contact Map
3obaA40.83981000.586Contact Map
4jklA20.67841000.589Contact 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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