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OPENSEQ.org

AvBAS

ID: 1434130799 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 757 (752)
Sequences: 1167 (643.9)
Seq/Len: 1.552
Nf(neff/√len): 23.5

Jackhmmer Results: (2015_01_07)
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: 1.552).

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
623_V685_S3.2571.00
527_D559_P3.0511.00
518_D581_Y3.0221.00
179_C216_I2.7581.00
653_T674_P2.5211.00
486_T516_A2.5091.00
647_L698_P2.4521.00
114_H475_S2.4321.00
286_L290_L2.3100.99
561_V597_I2.2720.99
598_E638_S2.2690.99
230_Y234_G2.2340.99
164_G173_S2.2260.99
683_M703_A2.1950.99
424_I443_A2.1450.99
598_E631_K2.1280.99
530_F593_A2.1260.99
415_C419_E2.1180.99
156_Y199_A2.0940.99
565_S625_A2.0810.99
635_N638_S2.0680.99
178_S207_I2.0580.99
411_V731_F2.0530.99
598_E635_N2.0390.98
623_V627_V2.0230.98
467_S518_D1.9930.98
623_V642_S1.9770.98
106_S439_T1.9380.98
530_F589_C1.9210.97
162_D173_S1.9170.97
466_R522_S1.8770.97
173_S206_W1.8570.97
705_Q709_M1.8560.97
374_L392_H1.8490.97
95_H749_R1.8200.96
156_Y190_E1.8100.96
367_I532_T1.7710.95
257_W554_I1.7710.95
613_I660_Y1.7520.95
204_R208_L1.7270.94
118_D408_K1.7220.94
272_G348_L1.7170.94
132_S377_I1.7000.94
683_M706_L1.6950.94
205_S209_S1.6630.93
448_K512_R1.6580.93
602_N615_F1.6510.93
490_V570_A1.6490.92
98_L742_I1.6470.92
186_M200_L1.6330.92
212_T215_A1.6280.92
644_K648_S1.6260.92
382_E386_S1.6200.92
656_W702_A1.6080.91
619_C642_S1.5930.91
520_I567_V1.5860.90
568_L590_I1.5730.90
221_K230_Y1.5650.90
228_G276_V1.5650.90
241_E347_A1.5470.89
468_K515_D1.5430.89
687_I751_R1.5300.88
655_G674_P1.5230.88
613_I723_G1.5150.88
463_Y522_S1.5150.88
678_T722_M1.5040.87
359_D392_H1.5010.87
736_Y744_A1.4960.87
623_V639_I1.4900.86
316_R321_D1.4890.86
711_L717_P1.4880.86
642_S685_S1.4860.86
643_C691_Q1.4820.86
206_W210_H1.4810.86
320_Q324_T1.4780.86
632_T635_N1.4620.85
683_M702_A1.4520.84
47_A51_K1.4450.84
644_K647_L1.4440.84
112_D475_S1.4400.84
637_A641_K1.4380.84
723_G733_Y1.4340.83
109_Q113_G1.4310.83
517_I571_F1.4190.82
117_G415_C1.4070.82
561_V602_N1.3990.81
631_K635_N1.3990.81
204_R289_D1.3940.81
659_D668_Y1.3890.81
451_Q469_G1.3890.81
244_L343_L1.3810.80
600_S608_Y1.3780.80
179_C213_A1.3780.80
190_E197_E1.3760.80
564_T593_A1.3750.80
640_R691_Q1.3650.79
106_S437_I1.3630.79
483_S520_I1.3600.79
617_Y736_Y1.3490.78
710_Q714_G1.3480.78
465_H522_S1.3440.77
424_I447_M1.3380.77
429_S747_E1.3360.77
252_H255_R1.3300.76
350_N353_E1.3280.76
640_R701_N1.3220.76
525_N559_P1.3210.76
146_E149_H1.3160.75
452_V472_T1.3150.75
561_V600_S1.3150.75
429_S743_M1.3150.75
595_L599_K1.3120.75
349_S353_E1.3110.75
411_V554_I1.3080.75
94_I98_L1.3050.75
352_M382_E1.3050.75
183_A229_V1.3010.74
359_D364_Y1.2990.74
651_Q674_P1.2950.74
291_Y295_Y1.2870.73
616_A646_I1.2850.73
134_H282_T1.2840.73
366_G371_N1.2670.71
565_S569_D1.2640.71
691_Q698_P1.2630.71
631_K638_S1.2610.71
568_L625_A1.2590.71
222_I267_M1.2520.70
677_V722_M1.2500.70
531_S567_V1.2490.70
129_I409_A1.2460.70
270_L381_V1.2450.69
424_I492_A1.2420.69
618_G663_S1.2410.69
365_V480_W1.2400.69
530_F567_V1.2380.69
367_I725_F1.2360.69
510_Q514_Y1.2350.69
16_K58_E1.2350.69
657_G662_S1.2320.68
137_R143_L1.2310.68
398_D414_G1.2270.68
131_F283_I1.2260.68
651_Q672_G1.2250.68
647_L691_Q1.2250.68
441_K445_E1.2180.67
627_V639_I1.2170.67
162_D206_W1.2170.67
150_E153_R1.2140.67
270_L374_L1.2120.66
180_M728_S1.2110.66
150_E402_M1.2100.66
640_R643_C1.2090.66
175_M207_I1.2090.66
69_A76_A1.2090.66
269_Y376_M1.2060.66
575_K587_D1.2060.66
10_A15_L1.2060.66
412_Y554_I1.2060.66
52_N55_N1.1990.65
596_F600_S1.1970.65
651_Q657_G1.1960.65
603_K606_S1.1940.65
521_L571_F1.1920.65
179_C290_L1.1920.65
364_Y392_H1.1890.64
125_I128_I1.1890.64
486_T523_F1.1850.64
41_E44_R1.1850.64
656_W682_A1.1830.64
715_D737_R1.1810.64
647_L694_R1.1750.63
73_P77_N1.1750.63
687_I702_A1.1710.63
120_S734_A1.1710.63
370_I411_V1.1700.62
694_R699_L1.1700.62
466_R518_D1.1680.62
661_L664_D1.1680.62
240_P344_R1.1670.62
130_I603_K1.1660.62
97_S545_L1.1650.62
429_S746_G1.1650.62
45_V50_T1.1640.62
150_E407_M1.1640.62
253_P265_M1.1610.62
165_W185_L1.1610.62
35_T39_R1.1590.61
345_D349_S1.1570.61
118_D399_Y1.1560.61
444_H496_L1.1550.61
394_P397_H1.1540.61
119_Y412_Y1.1540.61
7_G10_A1.1530.61
372_K376_M1.1510.61
183_A227_I1.1510.61
243_W351_L1.1490.60
21_F58_E1.1490.60
733_Y736_Y1.1470.60
400_L409_A1.1460.60
120_S566_S1.1450.60
69_A74_L1.1430.60
243_W253_P1.1410.60
677_V718_Q1.1400.59
179_C207_I1.1400.59
690_G699_L1.1380.59
363_K477_D1.1380.59
519_C523_F1.1370.59
122_I217_P1.1360.59
242_L251_I1.1310.59
368_C409_A1.1300.58
368_C411_V1.1300.58
643_C689_A1.1280.58
495_L573_L1.1270.58
160_N166_G1.1260.58
583_R587_D1.1250.58
616_A649_K1.1230.58
137_R142_F1.1210.58
545_L664_D1.1210.58
704_R708_N1.1210.58
524_M592_E1.1200.57
257_W726_N1.1170.57
6_I17_S1.1170.57
68_Y72_N1.1160.57
684_L687_I1.1150.57
230_Y547_P1.1150.57
94_I749_R1.1140.57
303_A306_Y1.1140.57
122_I180_M1.1130.57
144_S147_H1.1120.57
736_Y740_Y1.1070.56
494_L746_G1.1040.56
432_L437_I1.1030.56
119_Y125_I1.1030.56
36_P40_A1.1030.56
634_D701_N1.1000.55
533_Y726_N1.1000.55
56_R73_P1.1000.55
463_Y535_C1.0980.55
180_M217_P1.0980.55
483_S567_V1.0980.55
7_G17_S1.0980.55
16_K50_T1.0980.55
683_M699_L1.0970.55
371_N375_N1.0970.55
247_H252_H1.0960.55
190_E199_A1.0950.55
244_L421_A1.0930.55
47_A50_T1.0910.54
230_Y291_Y1.0900.54
709_M719_Q1.0900.54
368_C371_N1.0880.54
417_S447_M1.0880.54
369_P548_S1.0880.54
287_R290_L1.0870.54
368_C728_S1.0870.54
299_N642_S1.0870.54
682_A702_A1.0850.54
44_R50_T1.0850.54
217_P728_S1.0840.54
102_L427_Y1.0840.54
253_P479_G1.0830.54
15_L26_V1.0820.54
216_I220_G1.0820.54
68_Y75_P1.0810.53
478_N482_V1.0780.53
126_M263_I1.0770.53
102_L106_S1.0770.53
72_N97_S1.0760.53
548_S554_I1.0760.53
55_N66_L1.0730.53
41_E79_P1.0730.53
447_M492_A1.0730.53
382_E619_C1.0690.52
97_S100_R1.0680.52
429_S687_I1.0680.52
6_I26_V1.0670.52
17_S21_F1.0640.52
372_K396_F1.0640.52
152_C188_L1.0640.52
3_R10_A1.0630.52
263_I725_F1.0620.51
561_V596_F1.0620.51
699_L703_A1.0610.51
34_G39_R1.0600.51
715_D738_N1.0600.51
403_S408_K1.0600.51
76_A83_L1.0600.51
680_S713_T1.0600.51
481_S557_D1.0570.51
41_E45_V1.0570.51
354_H480_W1.0550.51
554_I726_N1.0530.51
213_A298_V1.0520.50
14_W56_R1.0520.50
434_S641_K1.0510.50
52_N56_R1.0500.50
222_I238_I1.0490.50
123_L181_T1.0480.50
556_V713_T1.0460.50
349_S352_M1.0460.50
74_L77_N1.0460.50
44_R48_E1.0450.50
717_P737_R1.0430.49
47_A77_N1.0430.49
157_N406_G1.0420.49
575_K590_I1.0420.49
274_K335_L1.0410.49
272_G344_R1.0390.49
16_K64_L1.0380.49
136_T389_F1.0370.49
55_N73_P1.0360.49
348_L352_M1.0360.49
724_C730_N1.0350.49
198_D201_T1.0350.49
419_E724_C1.0350.49
242_L253_P1.0300.48
680_S711_L1.0290.48
105_Y742_I1.0280.48
94_I707_M1.0270.48
118_D412_Y1.0270.48
110_A116_P1.0270.48
568_L571_F1.0270.48
11_G80_T1.0250.48
651_Q673_R1.0250.48
411_V726_N1.0240.47
198_D202_K1.0240.47
349_S594_V1.0230.47
41_E66_L1.0230.47
675_N678_T1.0190.47
555_V621_F1.0180.47
435_E440_I1.0180.47
422_F739_L1.0180.47
390_K394_P1.0170.47
14_W64_L1.0160.47
230_Y566_S1.0150.47
119_Y731_F1.0150.47
123_L158_Q1.0150.47
40_A44_R1.0140.46
630_G685_S1.0130.46
160_N164_G1.0130.46
377_I670_D1.0120.46
70_K75_P1.0120.46
120_S125_I1.0120.46
48_E51_K1.0110.46
452_V685_S1.0110.46
543_E621_F1.0110.46
699_L702_A1.0100.46
121_G263_I1.0100.46
201_T204_R1.0100.46
121_G614_C1.0090.46
703_A748_L1.0090.46
594_V597_I1.0080.46
675_N722_M1.0070.46
153_R157_N1.0060.46
368_C724_C1.0060.46
353_E357_Y1.0050.46
10_A48_E1.0050.46
119_Y411_V1.0050.46
260_T263_I1.0040.45
201_T205_S1.0020.45
168_M689_A1.0020.45
283_I287_R1.0010.45
604_D649_K1.0000.45
294_P613_I1.0000.45
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: (31Jan15)
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  
1w6kA10.93261000.347Contact Map
2sqcA20.82031000.402Contact Map
1r76A10.38571000.821Contact Map
3q7aB10.42671000.851Contact Map
1gxmA20.33691000.864Contact Map
1n4qB60.35141000.877Contact Map
3draB10.34741000.879Contact Map
1hzfA10.32891000.882Contact Map
3dssB10.39761000.886Contact Map
2h6fB10.26021000.888Contact 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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