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OPENSEQ.org

bAS1

ID: 1442435636 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 757 (752)
Sequences: 1359 (719.3)
Seq/Len: 1.807
Nf(neff/√len): 26.2

Jackhmmer Results: (2015_08)
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: 1.807).

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_A3.4781.00
527_D559_P3.1491.00
179_C216_I2.7511.00
518_D581_Y2.7301.00
653_T674_P2.5771.00
114_H475_S2.5281.00
647_L698_P2.4761.00
598_E638_S2.4041.00
486_T516_A2.3981.00
598_E631_K2.2751.00
178_S207_I2.2571.00
683_M703_A2.2551.00
164_G173_S2.1960.99
565_S625_A2.1870.99
705_Q709_M2.1800.99
635_N638_S2.1780.99
286_L290_L2.1670.99
424_I443_A2.1600.99
230_Y234_G2.1520.99
598_E635_N2.1230.99
530_F593_A2.1070.99
415_C419_E2.0750.99
623_V642_S2.0680.99
156_Y199_A2.0640.99
561_V597_I2.0600.99
411_V731_F2.0310.99
162_D173_S1.9820.99
530_F589_C1.9740.99
106_S439_T1.9700.99
95_Y749_R1.9570.98
467_S518_D1.9300.98
623_V627_V1.9140.98
173_S206_W1.8950.98
466_R522_S1.8770.98
602_N615_F1.8500.98
186_M200_L1.8210.97
118_D408_K1.7990.97
367_I532_T1.7930.97
272_G348_L1.7910.97
156_Y190_E1.7670.96
374_L392_H1.7570.96
204_R208_L1.7500.96
687_I751_R1.7460.96
683_M702_A1.7320.96
613_I660_Y1.7100.96
382_E386_S1.6820.95
520_I567_V1.6740.95
644_K648_S1.6740.95
98_L742_I1.6720.95
678_T722_M1.6610.95
490_V570_A1.6490.94
205_S209_S1.6440.94
257_W554_I1.6320.94
683_M706_L1.6250.94
637_A641_K1.6100.93
316_R321_D1.5970.93
212_T215_A1.5830.92
640_R691_Q1.5820.92
132_S377_I1.5780.92
448_K512_R1.5770.92
320_Q324_S1.5710.92
710_Q714_G1.5630.92
228_G276_V1.5560.92
222_I267_M1.5550.92
655_G674_P1.5350.91
561_V602_N1.5350.91
656_W702_A1.5330.91
736_Y744_A1.5300.91
616_A649_K1.5270.91
206_W210_H1.5210.90
429_S747_E1.5190.90
665_N669_I1.5170.90
468_K515_D1.5100.90
463_Y522_S1.5090.90
619_C642_S1.5090.90
711_L717_P1.5040.90
483_S520_I1.5020.90
568_V625_A1.4910.89
613_I723_G1.4860.89
623_V639_I1.4820.89
221_K230_Y1.4810.89
568_V590_I1.4700.88
631_K635_N1.4690.88
564_T593_A1.4640.88
647_L694_R1.4580.88
694_R699_L1.4540.88
270_L381_V1.4520.87
424_I447_M1.4440.87
452_V472_T1.4370.87
451_Q469_G1.4200.86
644_K647_L1.4160.86
46_A50_K1.4090.85
183_A229_V1.4080.85
651_Q672_G1.4030.85
150_E402_M1.4010.85
575_K587_D1.3970.85
525_N559_P1.3970.85
129_I409_A1.3930.84
117_G415_C1.3840.84
109_Q113_G1.3830.84
112_D475_S1.3730.83
150_E153_R1.3700.83
677_V722_M1.3650.83
429_S743_M1.3630.83
642_S685_A1.3600.82
253_P265_M1.3590.82
640_R643_C1.3590.82
510_Q514_Y1.3580.82
465_H522_S1.3580.82
618_G663_S1.3560.82
631_K638_S1.3550.82
643_C691_Q1.3530.82
398_D414_G1.3510.82
517_I571_L1.3460.81
368_C409_A1.3450.81
241_E347_A1.3390.81
394_P397_H1.3350.81
179_C213_A1.3350.81
137_R143_L1.3340.81
162_D206_W1.3240.80
617_Y736_Y1.3170.79
632_T635_N1.3150.79
640_R701_N1.3050.79
400_L409_A1.2970.78
270_L374_L1.2910.78
243_W351_L1.2910.78
691_Q698_P1.2840.77
466_R518_D1.2800.77
565_S569_D1.2780.77
616_A646_V1.2760.76
561_V600_S1.2750.76
105_Y423_I1.2720.76
349_T353_E1.2700.76
627_V639_I1.2690.76
432_L437_I1.2690.76
190_E199_A1.2690.76
106_S437_I1.2690.76
359_D392_H1.2680.76
545_L664_D1.2670.76
723_G733_Y1.2650.75
352_M382_E1.2630.75
661_L664_D1.2600.75
51_N54_Q1.2590.75
175_M207_I1.2560.75
424_I492_A1.2530.75
687_I702_A1.2530.75
252_H255_R1.2510.74
272_G344_R1.2500.74
651_Q674_P1.2430.74
365_V480_W1.2350.73
651_Q657_G1.2340.73
146_E149_H1.2340.73
370_I411_V1.2320.73
412_Y554_I1.2310.73
600_S608_Y1.2260.72
656_W682_A1.2250.72
519_C523_F1.2230.72
531_S567_V1.2150.71
643_C689_A1.2140.71
183_A227_I1.2140.71
284_L288_Q1.2110.71
366_G371_N1.2080.71
530_F567_V1.2080.71
94_I749_R1.2040.70
595_V599_N1.2040.70
204_R289_D1.2020.70
704_R708_N1.2010.70
411_V554_I1.1960.70
596_F600_S1.1940.69
659_D668_Y1.1910.69
15_K57_E1.1860.69
287_R290_L1.1850.69
358_D364_Y1.1850.69
495_L573_L1.1850.69
483_S531_S1.1830.68
709_M719_Q1.1830.68
292_S689_A1.1830.68
682_A702_A1.1780.68
94_I98_L1.1780.68
554_I726_N1.1780.68
179_C207_I1.1730.67
257_W726_N1.1730.67
190_E197_K1.1730.67
521_L571_L1.1710.67
243_W253_P1.1710.67
358_D366_G1.1680.67
441_K445_E1.1660.67
10_G82_K1.1650.67
575_K590_I1.1650.67
108_L117_G1.1640.66
35_P39_A1.1630.66
118_D399_Y1.1620.66
368_C728_S1.1590.66
39_A42_E1.1570.66
369_P548_S1.1570.66
444_H496_L1.1570.66
364_Y392_H1.1520.65
683_M687_I1.1490.65
151_I593_A1.1490.65
67_Y74_P1.1470.65
110_A116_P1.1470.65
377_I670_D1.1470.65
690_G699_L1.1460.65
353_E356_H1.1410.64
43_R47_E1.1400.64
150_E407_M1.1360.64
122_I217_P1.1350.64
634_D701_N1.1320.63
119_Y125_I1.1310.63
153_R157_N1.1300.63
258_C367_I1.1280.63
430_T630_G1.1260.63
157_N406_G1.1240.63
247_H252_H1.1220.62
244_L421_A1.1210.62
372_K376_M1.1210.62
34_T38_R1.1200.62
733_Y736_Y1.1190.62
715_D737_R1.1170.62
40_E43_R1.1170.62
429_S687_I1.1170.62
122_I180_M1.1160.62
201_E205_S1.1150.62
279_I283_I1.1150.62
369_P725_F1.1140.61
165_W185_L1.1130.61
97_S100_R1.1130.61
118_D412_Y1.1130.61
651_Q670_D1.1130.61
123_L181_N1.1110.61
657_G662_S1.1100.61
144_S147_H1.1100.61
120_S566_S1.1070.61
269_Y376_M1.1070.61
403_A408_K1.1060.61
429_S746_G1.1040.60
483_S567_V1.1040.60
178_S748_L1.1040.60
120_S734_A1.1030.60
700_Y704_R1.1030.60
67_Y71_N1.1030.60
123_L158_Q1.1000.60
160_N166_G1.1000.60
10_G54_Q1.0970.60
494_L746_G1.0970.60
135_V377_I1.0960.60
119_Y412_Y1.0940.59
699_L702_A1.0940.59
367_I725_F1.0930.59
6_I25_V1.0920.59
75_A83_L1.0910.59
252_H264_Y1.0910.59
225_S235_N1.0900.59
434_S641_K1.0880.59
684_L687_I1.0870.59
152_C185_L1.0860.59
68_A73_L1.0840.58
347_A630_G1.0820.58
137_R142_F1.0820.58
55_R72_P1.0820.58
548_S551_F1.0810.58
731_F740_Y1.0810.58
131_F283_I1.0810.58
198_D201_E1.0810.58
198_D202_K1.0800.58
130_I603_K1.0790.58
216_I220_G1.0770.58
44_V49_T1.0770.58
294_P297_N1.0770.58
724_C730_N1.0740.57
240_P344_R1.0730.57
72_P76_N1.0730.57
180_M217_P1.0720.57
256_F264_Y1.0700.57
7_G16_S1.0690.57
43_R49_T1.0690.57
13_W55_R1.0680.57
680_S711_L1.0680.57
253_P479_G1.0670.57
74_P79_T1.0660.56
168_M660_Y1.0630.56
217_P728_S1.0620.56
561_V596_F1.0610.56
706_L741_P1.0610.56
78_P90_T1.0600.56
651_Q673_R1.0600.56
647_L691_Q1.0590.56
367_I729_L1.0580.56
259_F533_Y1.0570.55
71_N97_S1.0560.55
583_R587_D1.0560.55
105_Y742_I1.0560.55
263_I725_F1.0550.55
40_E44_V1.0550.55
470_S481_S1.0550.55
486_T523_F1.0530.55
303_A306_Y1.0530.55
169_V732_N1.0520.55
68_A75_A1.0520.55
677_V718_Q1.0520.55
358_D362_T1.0510.55
421_A489_A1.0510.55
121_G614_C1.0500.55
680_S713_T1.0490.55
703_A748_L1.0490.55
230_Y547_P1.0490.55
363_K477_D1.0470.54
155_I382_E1.0470.54
242_L253_P1.0450.54
368_C411_V1.0420.54
435_E438_P1.0420.54
421_A427_Y1.0420.54
180_M728_S1.0400.54
715_D738_N1.0400.54
260_T263_I1.0390.54
736_Y740_Y1.0380.53
463_Y535_C1.0380.53
33_G38_R1.0380.53
69_K74_P1.0370.53
160_N164_G1.0370.53
6_I16_S1.0370.53
20_F57_E1.0360.53
15_K63_L1.0360.53
417_S447_M1.0350.53
242_L251_I1.0350.53
46_A49_T1.0330.53
732_N737_R1.0330.53
721_H730_N1.0330.53
520_I706_L1.0320.53
604_D649_K1.0310.53
136_T389_F1.0310.53
368_C724_C1.0290.52
125_I128_I1.0280.52
97_S710_Q1.0280.52
349_T352_M1.0270.52
134_Y282_T1.0270.52
97_S707_M1.0270.52
447_M492_A1.0260.52
173_S210_H1.0260.52
119_Y731_F1.0250.52
145_P683_M1.0220.52
422_F739_L1.0210.52
164_G206_W1.0190.51
661_L665_N1.0180.51
152_C188_L1.0170.51
412_Y726_N1.0170.51
283_I287_R1.0170.51
257_W560_S1.0130.51
382_E619_C1.0130.51
348_L352_M1.0120.51
40_E65_L1.0100.50
445_E449_N1.0100.50
14_L25_V1.0060.50
675_N678_T1.0060.50
54_Q65_L1.0060.50
121_G414_G1.0040.50
119_Y128_I1.0040.50
534_E537_R1.0040.50
427_Y678_T1.0040.50
85_K89_V1.0010.49
399_Y412_Y1.0000.49
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  
1w6kA10.93391000.35Contact Map
2sqcA20.81771000.46Contact Map
5bp8A101000.807Contact Map
1r76A10.38571000.824Contact Map
3q7aB10.42541000.851Contact Map
1gxmA20.33691000.865Contact Map
1n4qB60.35141000.878Contact Map
3draB10.34481000.879Contact Map
1hzfA10.32761000.883Contact Map
3dssB10.40161000.887Contact 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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