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OPENSEQ.org

CA boundaries

ID: 1497640589 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 995 (992)
Sequences: 1870 (1615.1)
Seq/Len: 1.885
Nf(neff/√len): 51.3

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: 1.885).

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
739_L756_Q4.2951.00
342_I380_G3.8081.00
664_V680_L3.5611.00
326_I388_L3.3911.00
417_A450_Y3.3671.00
634_Q962_S3.2621.00
953_L987_G3.1721.00
622_I653_G3.1521.00
326_I380_G3.1371.00
634_Q738_D3.0641.00
120_D149_K2.9991.00
758_S962_S2.9711.00
686_M744_L2.9381.00
636_K662_V2.8531.00
937_I987_G2.7611.00
345_G373_L2.7151.00
111_L271_L2.6421.00
835_F905_G2.5841.00
779_D832_T2.5651.00
89_L100_L2.5401.00
631_I659_F2.4891.00
613_A617_E2.4891.00
93_S103_T2.4671.00
64_R257_D2.4301.00
622_I649_S2.4301.00
249_W261_I2.3961.00
339_E391_L2.3721.00
324_I344_L2.3531.00
896_S905_G2.3501.00
587_Q616_L2.3501.00
739_L962_S2.3281.00
937_I994_L2.2881.00
635_D659_F2.2791.00
158_F275_I2.2371.00
785_M791_A2.2371.00
761_N903_S2.2231.00
967_N970_A2.2191.00
779_D862_R2.2061.00
434_A464_Y2.1900.99
625_G629_L2.1380.99
764_S932_G2.1320.99
835_F896_S2.1200.99
122_L147_V2.0640.99
400_V427_V2.0480.99
867_G903_S2.0390.99
322_L344_L2.0190.99
620_Q656_L2.0090.99
616_L656_L1.9970.99
115_Y267_H1.9940.99
589_T593_F1.9890.99
258_G262_E1.9860.99
907_T935_L1.9780.99
108_F201_V1.9590.99
867_G905_G1.9580.99
156_P164_Q1.9510.99
835_F867_G1.9400.98
359_E363_S1.9390.98
765_R905_G1.9380.98
638_I689_R1.9280.98
620_Q624_G1.9210.98
616_L620_Q1.8710.98
633_P738_D1.8580.98
935_L955_V1.8360.98
271_L286_L1.8340.98
437_V470_L1.8040.97
909_S925_N1.7710.97
695_D698_S1.7580.97
797_H805_C1.7480.96
761_N960_V1.7480.96
765_R835_F1.7380.96
616_L619_A1.7380.96
800_D803_L1.7320.96
413_A451_L1.7300.96
327_L343_Y1.7270.96
326_I342_I1.7250.96
636_K742_F1.7120.96
496_T500_Q1.7060.96
180_F184_V1.7020.96
802_Y805_C1.6960.96
865_L896_S1.6950.96
762_L904_S1.6860.95
838_N841_Y1.6840.95
650_A654_C1.6810.95
586_L589_T1.6540.95
737_E758_S1.6540.95
801_I804_G1.6530.95
238_M247_G1.6520.95
938_V954_Q1.6520.95
192_S195_Y1.6490.95
934_C978_D1.6440.95
203_F268_F1.6430.95
892_A910_D1.6400.94
782_L826_I1.6370.94
109_A150_T1.6330.94
360_K364_F1.6290.94
183_V187_L1.6290.94
839_F869_E1.6240.94
75_T253_T1.6230.94
758_S761_N1.6220.94
359_E362_I1.6120.94
631_I657_G1.6120.94
765_R867_G1.6080.94
106_A165_V1.6060.94
361_F364_F1.6050.94
356_P359_E1.6040.94
765_R769_S1.5960.93
71_T254_D1.5900.93
837_P867_G1.5900.93
381_C389_E1.5870.93
765_R903_S1.5840.93
589_T592_K1.5800.93
780_I831_V1.5800.93
935_L953_L1.5790.93
586_L590_A1.5780.93
361_F365_I1.5740.93
837_P841_Y1.5700.93
765_R906_I1.5700.93
104_L203_F1.5680.93
742_F965_Y1.5630.92
757_L903_S1.5600.92
642_K695_D1.5500.92
43_Q175_H1.5450.92
799_R805_C1.5440.92
769_S896_S1.5420.92
653_G693_L1.5360.92
360_K363_S1.5360.92
682_N751_M1.5340.91
109_A123_I1.5340.91
50_Q168_T1.5240.91
639_L651_F1.5150.91
323_Q345_G1.5150.91
343_Y954_Q1.4980.90
903_S906_I1.4970.90
79_F247_G1.4950.90
871_I895_P1.4910.90
631_I635_D1.4910.90
682_N744_L1.4850.90
313_Y317_L1.4840.90
791_A835_F1.4800.89
593_F596_K1.4720.89
100_L245_L1.4710.89
779_D833_V1.4700.89
799_R804_G1.4690.89
400_V405_I1.4690.89
120_D151_R1.4670.89
939_N945_L1.4660.89
765_R904_S1.4640.89
634_Q739_L1.4610.89
338_V949_E1.4600.89
249_W265_T1.4510.88
784_W791_A1.4500.88
818_K821_R1.4490.88
360_K365_I1.4490.88
835_F838_N1.4400.88
867_G896_S1.4380.88
836_A905_G1.4370.87
151_R156_P1.4300.87
324_I342_I1.4250.87
380_G388_L1.4200.87
534_Q538_N1.4190.87
970_A974_A1.4180.87
783_N791_A1.4150.86
359_E364_F1.4140.86
497_W500_Q1.4100.86
956_K960_V1.4090.86
671_D676_N1.4090.86
639_L650_A1.4090.86
263_R267_H1.4060.86
152_F156_P1.4050.86
785_M896_S1.4020.86
634_Q659_F1.3950.85
497_W501_I1.3930.85
755_V961_T1.3910.85
935_L987_G1.3880.85
425_V434_A1.3870.85
632_K635_D1.3800.84
768_G896_S1.3760.84
627_R734_A1.3750.84
274_A287_P1.3720.84
1_E5_L1.3660.84
105_H203_F1.3660.84
331_Q343_Y1.3630.83
167_E171_E1.3620.83
788_D791_A1.3550.83
641_L650_A1.3530.83
780_I807_Q1.3520.83
797_H800_D1.3510.83
43_Q177_D1.3510.83
835_F906_I1.3410.82
764_S905_G1.3350.82
786_P789_H1.3330.82
779_D863_L1.3310.81
797_H801_I1.3300.81
538_N541_S1.3300.81
783_N905_G1.3290.81
326_I937_I1.3270.81
937_I953_L1.3260.81
44_L186_V1.3230.81
380_G987_G1.3200.81
784_W905_G1.3170.80
71_T252_N1.3160.80
737_E760_L1.3140.80
879_F896_S1.3120.80
236_V249_W1.3110.80
357_E361_F1.3070.80
835_F840_A1.3070.80
532_S538_N1.3060.80
436_V466_P1.3030.79
44_L178_V1.3020.79
321_N347_C1.2970.79
786_P791_A1.2970.79
436_V464_Y1.2940.79
796_F800_D1.2940.79
383_R389_E1.2920.79
784_W904_S1.2890.78
765_R902_V1.2890.78
375_K982_N1.2890.78
313_Y316_F1.2850.78
473_T479_D1.2850.78
583_G587_Q1.2840.78
783_N896_S1.2840.78
616_L729_K1.2790.78
902_V905_G1.2790.78
1_E139_I1.2780.78
24_Y27_F1.2760.77
835_F902_V1.2760.77
769_S905_G1.2760.77
145_T202_M1.2740.77
108_F203_F1.2740.77
765_R896_S1.2730.77
769_S835_F1.2730.77
153_E156_P1.2730.77
324_I380_G1.2660.77
287_P294_Q1.2660.77
785_M836_A1.2630.76
835_F904_S1.2630.76
485_S490_D1.2610.76
968_P972_K1.2610.76
837_P905_G1.2600.76
791_A905_G1.2580.76
961_T975_F1.2580.76
785_M905_G1.2570.76
345_G371_G1.2560.76
411_E425_V1.2550.76
631_I637_V1.2550.76
939_N943_E1.2540.76
813_Q816_I1.2540.76
663_P743_M1.2490.75
801_I805_C1.2470.75
942_M954_Q1.2450.75
115_Y264_M1.2450.75
105_H123_I1.2430.75
349_L960_V1.2400.75
866_N896_S1.2400.75
108_F123_I1.2380.74
764_S769_S1.2360.74
590_A594_P1.2330.74
803_L806_K1.2320.74
768_G835_F1.2310.74
662_V687_L1.2300.74
863_L892_A1.2280.74
452_K460_L1.2270.73
867_G902_V1.2270.73
768_G871_I1.2250.73
863_L894_T1.2230.73
105_H109_A1.2210.73
282_K285_E1.2170.73
762_L905_G1.2140.72
785_M788_D1.2130.72
766_T871_I1.2130.72
797_H803_L1.2100.72
797_H804_G1.2080.72
835_F866_N1.2070.72
824_D828_T1.2060.72
587_Q619_A1.2030.71
876_A879_F1.2010.71
896_S904_S1.1990.71
795_Y804_G1.1980.71
899_M905_G1.1980.71
336_L947_E1.1970.71
896_S906_I1.1910.70
535_A538_N1.1880.70
899_M933_T1.1880.70
871_I893_M1.1880.70
461_P477_E1.1850.70
410_I425_V1.1830.70
757_L867_G1.1820.69
102_M166_R1.1810.69
799_R803_L1.1810.69
96_S159_E1.1800.69
108_F236_V1.1800.69
107_A275_I1.1780.69
321_N344_L1.1770.69
324_I388_L1.1760.69
836_A840_A1.1760.69
960_V978_D1.1750.69
769_S867_G1.1750.69
783_N835_F1.1730.69
694_T698_S1.1690.68
332_Q943_E1.1680.68
362_I365_I1.1670.68
895_P926_L1.1670.68
382_R989_I1.1670.68
339_E379_W1.1660.68
159_E280_Q1.1650.68
906_I935_L1.1620.68
800_D806_K1.1610.67
383_R387_S1.1600.67
624_G730_D1.1600.67
331_Q942_M1.1600.67
619_A656_L1.1600.67
867_G900_A1.1590.67
734_A738_D1.1590.67
764_S768_G1.1580.67
838_N905_G1.1580.67
635_D690_P1.1580.67
798_I805_C1.1510.67
435_Y484_A1.1510.67
800_D805_C1.1500.66
785_M835_F1.1490.66
739_L758_S1.1480.66
896_S902_V1.1470.66
786_P835_F1.1470.66
876_A896_S1.1460.66
785_M866_N1.1460.66
73_R254_D1.1440.66
785_M792_G1.1430.66
278_N281_Q1.1420.66
865_L905_G1.1420.66
124_G199_F1.1400.65
660_I739_L1.1380.65
326_I382_R1.1370.65
781_T835_F1.1370.65
797_H802_Y1.1360.65
768_G905_G1.1360.65
416_T454_Q1.1350.65
413_A416_T1.1350.65
896_S899_M1.1340.65
735_Q738_D1.1330.65
684_W689_R1.1320.65
781_T905_G1.1320.65
775_F783_N1.1320.65
63_D260_T1.1280.64
785_M790_V1.1240.64
967_N973_E1.1220.64
837_P840_A1.1220.64
355_H966_Q1.1220.64
467_V470_L1.1220.64
866_N905_G1.1210.64
765_R783_N1.1200.63
682_N686_M1.1180.63
5_L9_F1.1170.63
471_P477_E1.1150.63
795_Y799_R1.1140.63
388_L994_L1.1120.63
781_T896_S1.1110.62
158_F279_P1.1100.62
493_L497_W1.1080.62
359_E365_I1.1070.62
655_V740_A1.1070.62
783_N902_V1.1070.62
327_L938_V1.1060.62
785_M789_H1.1050.62
647_F787_L1.1020.62
172_A176_Q1.1020.62
267_H293_E1.0980.61
765_R791_A1.0930.61
494_I497_W1.0930.61
580_E588_K1.0920.61
872_V875_T1.0920.61
825_W829_F1.0920.61
786_P793_L1.0900.60
312_K316_F1.0890.60
869_E896_S1.0880.60
842_S869_E1.0870.60
765_R785_M1.0870.60
840_A844_I1.0870.60
784_W865_L1.0860.60
896_S903_S1.0850.60
954_Q974_A1.0830.60
897_W926_L1.0790.59
782_L811_T1.0780.59
932_G936_R1.0770.59
597_G611_S1.0760.59
769_S779_D1.0740.59
323_Q373_L1.0730.58
538_N542_T1.0730.58
536_I539_Q1.0730.58
629_L691_L1.0730.58
66_R255_L1.0690.58
75_T258_G1.0680.58
23_Q43_Q1.0660.58
350_L353_K1.0660.58
376_T983_T1.0660.58
113_Y116_S1.0640.58
349_L353_K1.0640.58
486_I490_D1.0640.58
781_T906_I1.0610.57
496_T501_I1.0590.57
872_V896_S1.0570.57
900_A904_S1.0560.57
110_T161_L1.0550.57
398_V407_L1.0540.56
365_I373_L1.0540.56
615_L652_W1.0530.56
879_F905_G1.0510.56
836_A841_Y1.0500.56
637_V659_F1.0500.56
456_P461_P1.0470.56
765_R773_N1.0460.56
871_I876_A1.0450.55
834_T905_G1.0440.55
147_V183_V1.0430.55
353_K364_F1.0430.55
837_P845_N1.0430.55
297_V336_L1.0420.55
610_Q649_S1.0420.55
348_D959_T1.0410.55
448_H464_Y1.0410.55
54_A122_L1.0400.55
111_L268_F1.0400.55
456_P477_E1.0400.55
867_G906_I1.0400.55
338_V382_R1.0380.55
424_Y478_V1.0380.55
496_T499_E1.0370.55
769_S785_M1.0370.55
870_Q896_S1.0370.55
800_D804_G1.0360.54
106_A161_L1.0360.54
780_I816_I1.0350.54
761_N961_T1.0340.54
23_Q28_A1.0340.54
359_E368_T1.0320.54
236_V247_G1.0320.54
343_Y375_K1.0310.54
766_T896_S1.0310.54
125_S148_L1.0300.54
354_L965_Y1.0300.54
589_T594_P1.0290.54
902_V960_V1.0280.54
107_A272_C1.0280.54
755_V900_A1.0270.54
634_Q758_S1.0260.53
459_P477_E1.0250.53
169_T173_Y1.0240.53
937_I945_L1.0230.53
864_M896_S1.0230.53
358_P969_K1.0210.53
151_R164_Q1.0210.53
836_A866_N1.0190.53
345_G956_K1.0180.53
329_N940_Q1.0180.53
769_S904_S1.0160.52
967_N974_A1.0160.52
328_D334_V1.0160.52
379_W394_E1.0160.52
870_Q906_I1.0160.52
766_T835_F1.0150.52
361_F368_T1.0150.52
765_R840_A1.0140.52
870_Q904_S1.0130.52
204_V235_T1.0120.52
764_S904_S1.0120.52
794_I797_H1.0120.52
698_S701_E1.0110.52
782_L825_W1.0110.52
8_A12_G1.0110.52
769_S780_I1.0100.52
871_I896_S1.0100.52
779_D806_K1.0100.52
934_C956_K1.0090.52
532_S535_A1.0090.52
789_H792_G1.0090.52
533_I541_S1.0080.51
761_N958_L1.0070.51
796_F799_R1.0030.51
82_N273_S1.0020.51
841_Y905_G1.0020.51
57_L195_Y1.0010.51
182_Q185_E1.0010.51
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  
2vsqA10.68241000.505Contact Map
4r0mB20.42811000.678Contact Map
4dg8A10.38991000.68Contact Map
4iz6A20.4051000.693Contact Map
3tsyA10.4081000.706Contact Map
1amuA20.3991000.706Contact Map
4d4iA101000.707Contact Map
3kxwA10.41511000.711Contact Map
3ni2A10.4091000.711Contact Map
3g7sA20.41311000.713Contact 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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