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OPENSEQ.org

LUS1

ID: 1442595736 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 758 (752)
Sequences: 1354 (719.8)
Seq/Len: 1.801
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: 1.801).

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
621_V685_S3.4931.00
525_N557_E3.2431.00
180_A214_I2.7621.00
596_E634_S2.7541.00
516_N579_H2.6351.00
651_N674_A2.5501.00
115_H473_M2.5421.00
645_L698_P2.4341.00
596_E636_S2.3961.00
484_T514_A2.3921.00
596_E629_K2.2831.00
683_L703_M2.2661.00
284_L288_L2.2150.99
179_S205_I2.2080.99
228_Y232_G2.2030.99
165_G174_S2.1980.99
563_G623_G2.1400.99
528_F591_A2.1190.99
705_L709_S2.1110.99
559_V595_I2.0990.99
421_I440_A2.0790.99
649_L668_N2.0680.99
412_C416_D2.0660.99
621_V640_A2.0240.99
621_V625_T2.0200.99
157_Y197_A2.0130.99
528_F587_C1.9810.99
163_D174_S1.9750.99
107_S436_T1.9600.98
629_K634_S1.9340.98
96_V749_R1.9320.98
465_S516_N1.9180.98
374_L390_H1.8690.98
464_I520_S1.8660.98
174_S204_W1.8400.97
409_S731_L1.8310.97
187_R198_M1.8240.97
600_N613_Y1.8160.97
687_T751_Q1.8060.97
268_L379_V1.7690.96
157_Y191_E1.7540.96
202_R206_L1.7500.96
270_G346_L1.7350.96
119_E406_K1.7270.96
365_I530_A1.6990.95
255_L552_T1.6770.95
611_I658_Y1.6750.95
683_L706_L1.6750.95
488_L568_G1.6700.95
683_L702_G1.6670.95
226_G274_V1.6590.94
518_I565_A1.6550.94
642_Q646_S1.6480.94
635_L639_K1.6430.94
99_I742_I1.6410.94
314_H319_D1.6260.94
638_R691_Q1.5980.93
203_K207_D1.5980.93
710_Q714_G1.5910.93
380_E384_S1.5740.92
133_A375_I1.5720.92
678_Q722_T1.5530.91
210_G213_A1.5490.91
445_K510_R1.5470.91
645_L696_P1.5410.91
559_V600_N1.5350.91
614_T647_K1.5310.91
204_W208_H1.5280.91
220_F265_M1.5240.90
357_D390_H1.5220.90
654_W702_G1.5170.90
621_V637_L1.5160.90
711_M717_P1.5110.90
466_K513_D1.5080.90
611_I723_G1.5060.90
452_N457_F1.5050.90
653_G674_A1.5020.90
426_A747_E1.5010.90
573_R585_D1.4980.89
566_M588_I1.4930.89
617_T640_A1.4720.88
736_Y744_A1.4640.88
261_V369_E1.4510.87
45_R49_K1.4510.87
642_Q645_L1.4470.87
463_H520_S1.4390.87
151_E400_L1.4370.87
566_M623_G1.4310.86
523_S557_E1.4310.86
461_Y520_S1.4280.86
481_S518_I1.4230.86
421_I444_V1.4180.86
448_Q467_G1.4160.86
562_T591_A1.4160.86
219_K228_Y1.4140.85
663_N667_T1.4000.85
426_A743_W1.3940.84
640_A685_S1.3810.84
130_L407_I1.3800.83
151_E154_R1.3800.83
110_Q114_G1.3780.83
449_V470_T1.3740.83
118_A412_C1.3740.83
330_E342_R1.3640.82
629_K636_S1.3610.82
239_E345_A1.3580.82
241_W349_A1.3470.81
113_D473_M1.3460.81
616_G661_S1.3460.81
392_A395_P1.3390.81
641_C691_Q1.3350.81
396_D411_G1.3320.80
50_N53_S1.3290.80
659_L662_Q1.3270.80
250_H253_K1.3270.80
508_T512_Y1.3250.80
184_V227_A1.3200.80
649_L672_N1.3200.80
691_Q698_P1.3130.79
366_G407_I1.3110.79
517_V521_L1.3090.79
638_R641_C1.3090.79
72_Y76_N1.3080.79
614_T644_L1.3040.78
180_A211_L1.3000.78
163_D204_W1.2960.78
363_L390_H1.2910.77
147_E150_K1.2880.77
251_P263_M1.2870.77
687_T702_G1.2790.76
354_H377_R1.2760.76
438_R442_H1.2740.76
421_I490_A1.2730.76
625_T637_L1.2720.76
95_L749_R1.2670.76
593_R597_N1.2670.76
563_G567_Q1.2610.75
364_C369_E1.2610.75
285_R288_L1.2610.75
528_F565_A1.2600.75
615_Y736_Y1.2600.75
318_Q322_W1.2540.74
191_E197_A1.2540.74
464_I516_N1.2540.74
66_L73_G1.2520.74
398_F407_I1.2520.74
481_S529_P1.2520.74
696_P699_I1.2510.74
270_G342_R1.2500.74
638_R701_R1.2490.74
704_K708_N1.2480.74
649_L674_A1.2480.74
357_D363_L1.2470.74
347_E351_N1.2390.73
559_V598_M1.2380.73
256_C365_I1.2380.73
654_W682_A1.2380.73
106_Y420_A1.2330.73
552_T726_M1.2320.73
282_R286_E1.2320.73
657_S666_Y1.2300.72
515_V569_L1.2290.72
241_W251_P1.2280.72
184_V225_L1.2250.72
363_L397_Y1.2240.72
649_L655_G1.2220.72
220_F372_L1.2200.72
370_K374_L1.2180.71
350_I380_E1.2160.71
594_Y598_M1.2160.71
580_R583_E1.2120.71
696_P700_H1.2110.71
136_I375_I1.2090.71
493_L571_L1.2060.70
441_H494_L1.2020.70
366_G410_F1.2010.70
529_P565_A1.2010.70
14_I56_Q1.2000.70
176_M205_I1.1990.70
677_V722_T1.1980.70
682_A702_G1.1980.70
429_V434_G1.1930.69
202_R287_E1.1900.69
107_S434_G1.1890.69
543_F662_Q1.1840.68
598_M606_Y1.1810.68
641_C689_A1.1810.68
683_L687_T1.1800.68
33_T37_H1.1780.68
245_K250_H1.1770.68
119_E397_Y1.1750.67
191_E195_D1.1710.67
138_G144_L1.1700.67
724_V730_T1.1690.67
152_I591_A1.1670.67
255_L726_M1.1630.66
361_R475_D1.1610.66
39_E42_R1.1590.66
131_V601_P1.1570.66
573_R588_I1.1570.66
123_P215_P1.1520.65
158_N404_G1.1500.65
699_I702_G1.1470.65
431_E639_K1.1440.64
154_R158_N1.1440.64
290_N689_A1.1420.64
121_A564_S1.1400.64
120_S126_F1.1390.64
277_I281_I1.1380.64
109_I118_A1.1380.64
38_A41_E1.1380.64
111_A117_P1.1370.64
54_I71_H1.1350.64
151_E405_L1.1340.63
242_L418_A1.1330.63
519_L569_L1.1320.63
34_P38_A1.1320.63
267_Y376_A1.1320.63
481_S565_A1.1280.63
351_N355_Y1.1280.63
655_G668_N1.1270.63
733_Y736_Y1.1200.62
123_P181_L1.1190.62
73_G77_N1.1140.61
42_R48_T1.1110.61
6_I24_H1.1100.61
6_I15_S1.1090.61
240_L251_P1.1080.61
67_R72_Y1.1080.61
135_Y280_L1.1040.60
251_P477_G1.1000.60
250_H262_Y1.0990.60
301_A304_T1.0990.60
426_A687_T1.0980.60
42_R46_E1.0980.60
715_D737_R1.0970.60
492_L746_G1.0970.60
13_L24_H1.0970.60
426_A746_G1.0970.60
401_A406_K1.0960.60
461_Y533_P1.0950.59
124_L182_S1.0950.59
254_M262_Y1.0930.59
179_S748_Y1.0920.59
645_L691_Q1.0910.59
121_A734_S1.0900.59
161_N167_G1.0890.59
66_L70_N1.0890.59
680_S711_M1.0880.59
721_I730_T1.0880.59
257_Y531_W1.0860.58
132_M281_I1.0850.58
559_V594_Y1.0840.58
655_G660_S1.0820.58
366_G729_C1.0820.58
71_H77_N1.0810.58
731_L740_F1.0810.58
684_L687_T1.0810.58
153_V186_L1.0810.58
180_A205_I1.0800.58
181_L215_P1.0790.58
145_G148_H1.0790.58
12_G73_G1.0780.58
418_A487_G1.0780.58
723_G733_Y1.0780.58
260_L365_I1.0780.58
427_C628_G1.0770.58
700_H704_K1.0760.57
166_W186_L1.0750.57
32_G37_H1.0750.57
120_S731_L1.0750.57
14_I62_M1.0730.57
12_G70_N1.0720.57
170_I732_N1.0710.57
223_T233_C1.0700.57
124_L159_H1.0670.56
337_P340_M1.0670.56
261_V409_S1.0660.56
134_L139_S1.0650.56
214_I218_G1.0650.56
7_G15_S1.0630.56
368_V409_S1.0630.56
106_Y742_I1.0630.56
19_F56_Q1.0630.56
211_L288_L1.0610.56
602_D647_K1.0550.55
10_G83_K1.0540.55
39_E43_L1.0490.55
240_L249_F1.0490.55
281_I285_R1.0490.55
126_F129_P1.0470.54
706_L741_P1.0460.54
67_R76_N1.0460.54
451_E474_H1.0460.54
736_Y740_F1.0440.54
703_M748_Y1.0440.54
365_I478_W1.0420.54
43_L48_T1.0420.54
715_D738_N1.0410.54
169_H658_Y1.0410.54
98_T101_R1.0400.54
690_G699_I1.0390.53
238_P342_R1.0390.53
181_L728_N1.0380.53
81_A86_D1.0380.53
273_F379_V1.0380.53
14_I48_T1.0370.53
333_L336_W1.0370.53
295_Q344_K1.0360.53
330_E346_L1.0350.53
199_A202_R1.0330.53
484_T521_L1.0330.53
317_I321_L1.0320.53
199_A203_K1.0310.53
165_G204_W1.0310.53
137_T387_Y1.0300.52
95_L99_I1.0290.52
161_N165_G1.0290.52
468_A479_Q1.0280.52
668_N672_N1.0280.52
62_M76_N1.0260.52
419_F739_I1.0260.52
347_E350_I1.0260.52
122_G411_G1.0250.52
258_C261_V1.0240.52
647_K666_Y1.0240.52
456_D475_D1.0240.52
732_N737_R1.0230.52
135_Y149_K1.0230.52
196_K199_A1.0210.51
12_G62_M1.0210.51
70_N98_T1.0200.51
153_V189_L1.0180.51
67_R77_N1.0170.51
182_S683_L1.0170.51
123_P365_I1.0170.51
174_S208_H1.0170.51
24_H56_Q1.0160.51
418_A424_I1.0100.50
120_S410_F1.0100.50
367_S409_S1.0090.50
722_T726_M1.0080.50
365_I472_S1.0070.50
354_H386_A1.0070.50
414_M444_V1.0060.50
53_S64_M1.0060.50
291_E295_Q1.0040.50
680_S713_D1.0040.50
255_L558_Y1.0040.50
709_S719_Q1.0040.50
546_T549_F1.0040.50
215_P728_N1.0030.50
532_E535_K1.0030.50
62_M66_L1.0020.49
630_N633_N1.0020.49
698_P702_G1.0020.49
675_N678_Q1.0010.49
103_I424_I1.0000.49
172_G175_T1.0000.49
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  
1w6kA10.93141000.349Contact Map
2sqcA20.81791000.447Contact Map
5bp8A101000.804Contact Map
1r76A10.39051000.82Contact Map
3q7aB10.41421000.855Contact Map
1gxmA20.33771000.861Contact Map
3draB10.34431000.878Contact Map
1n4qB60.35221000.878Contact Map
1hzfA10.32591000.88Contact Map
3dssB10.39971000.887Contact 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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