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OPENSEQ.org

1 -force run

ID: 1426551602 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 1317 (1160)
Sequences: 1113 (839.1)
Seq/Len: 0.959
Nf(neff/√len): 24.6

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: 0.959).

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
658_D662_R4.9381.00
797_A801_R4.0141.00
197_A450_N3.9631.00
396_R641_E3.9501.00
446_D450_N3.8121.00
684_L688_R3.6801.00
441_W457_P3.6271.00
358_A365_R3.5611.00
530_R539_G3.5131.00
195_G199_Y3.4721.00
704_D708_N3.4611.00
382_D386_R3.4591.00
403_D407_R3.3311.00
49_V336_F3.3211.00
277_D297_H3.3201.00
616_D620_R3.3081.00
511_D515_R3.2771.00
637_N641_E3.2171.00
957_L1120_S3.1821.00
949_D953_R3.0811.00
134_E137_W3.0131.00
167_G172_L2.9811.00
775_E778_R2.9741.00
490_N494_L2.9691.00
532_D536_Q2.9271.00
572_S581_R2.9121.00
273_S277_D2.9001.00
770_D774_R2.8301.00
357_F366_W2.7761.00
64_F267_L2.7481.00
1000_D1126_R2.6931.00
595_D599_R2.6431.00
635_R644_A2.6391.00
948_Y1139_S2.5930.99
45_V51_P2.5880.99
713_S723_S2.5790.99
401_R410_E2.5500.99
848_L1094_D2.4830.99
480_P731_L2.4780.99
424_D427_T2.4610.99
133_S137_W2.4540.99
648_A930_L2.4170.99
553_D557_R2.4060.99
1143_L1147_G2.4060.99
379_F387_L2.4020.99
348_S596_E2.3960.99
488_E497_A2.3950.99
750_Y754_H2.3950.99
293_A301_A2.3760.99
983_V992_Q2.3720.99
444_E453_T2.3650.99
656_A665_S2.2890.98
377_S393_P2.2720.98
551_E560_R2.2560.98
614_R623_E2.2140.98
926_R935_E2.2040.98
532_D538_I2.1910.98
407_R428_G2.1620.97
593_L602_A2.1440.97
466_E473_R2.1230.97
1124_Y1129_Y2.1210.97
422_R432_E2.1180.97
240_R276_G2.0810.96
1069_H1080_S2.0640.96
574_G578_L2.0590.96
948_Y1138_A2.0520.96
421_K430_L2.0480.96
192_A200_R2.0480.96
539_G547_A1.9900.95
133_S136_L1.9860.95
424_D429_L1.9860.95
348_S597_A1.9690.95
917_V927_F1.9450.94
134_E138_L1.9340.94
281_V292_F1.9320.94
189_R205_W1.9310.94
56_K299_L1.9110.93
647_D651_R1.9050.93
203_F214_V1.9020.93
1081_D1085_Q1.8900.93
657_Y663_L1.8890.93
336_F347_D1.8860.93
206_S210_L1.8840.93
417_A687_G1.8830.93
167_G170_L1.8790.93
864_D868_N1.8760.92
1156_L1162_A1.8740.92
325_K333_T1.8700.92
729_D733_V1.8670.92
138_L141_G1.8320.91
701_Y709_L1.8320.91
356_E368_A1.8190.91
682_R691_S1.8170.91
295_R298_M1.8110.91
370_V376_R1.8080.91
490_N510_Y1.8070.91
509_D518_A1.8050.90
702_T711_L1.8000.90
1101_E1104_P1.7990.90
464_A476_R1.7980.90
44_L57_L1.7930.90
284_R534_L1.7830.90
794_R802_L1.7820.90
69_P199_Y1.7760.90
172_L180_F1.7700.89
947_A956_H1.7450.88
574_G580_A1.7430.88
688_R703_Y1.7290.88
203_F211_L1.7230.88
754_H769_R1.7190.87
213_G221_S1.7160.87
204_R215_R1.7160.87
216_D220_R1.7090.87
1137_Y1155_A1.7090.87
99_M205_W1.7030.87
64_F74_F1.6990.87
271_Q280_A1.6970.86
51_P343_T1.6890.86
972_R981_A1.6870.86
697_C980_I1.6660.85
35_A38_V1.6490.84
197_A448_R1.6390.84
344_E354_R1.6380.84
338_Y343_T1.6340.84
571_F579_L1.6340.84
368_A376_R1.6330.83
74_F270_Y1.6300.83
703_Y706_V1.6260.83
78_Y91_G1.6220.83
61_E292_F1.6210.83
581_R589_E1.6180.83
443_F451_A1.6140.82
116_R134_E1.6090.82
77_G116_R1.5910.81
628_D916_R1.5820.81
55_S79_L1.5710.80
734_R998_D1.5680.80
995_F1115_Y1.5660.80
499_T505_V1.5640.80
44_L51_P1.5460.79
666_I951_A1.5430.78
46_G51_P1.5390.78
1111_F1154_Y1.5380.78
548_L561_I1.5270.77
694_G697_C1.5220.77
410_E418_R1.5170.77
647_D930_L1.5150.77
120_F138_L1.5140.77
916_R1152_Y1.5000.76
560_R570_L1.4930.75
1114_Q1125_N1.4930.75
405_Q428_G1.4910.75
521_D525_Q1.4880.75
590_L606_E1.4850.75
372_A618_L1.4820.74
726_H734_R1.4740.74
1164_D1167_G1.4720.74
727_S736_T1.4710.74
344_E352_V1.4670.73
443_F454_V1.4560.73
954_L957_L1.4540.72
868_N1150_N1.4470.72
644_A654_T1.4460.72
541_E547_A1.4420.71
326_Q334_R1.4390.71
313_E325_K1.4320.71
935_E945_R1.4260.70
55_S81_S1.4250.70
485_R501_C1.4240.70
56_K323_V1.4200.70
936_R1133_E1.4200.70
593_L604_T1.4190.70
546_S799_L1.4150.69
1066_A1087_R1.4150.69
974_D978_R1.4070.69
87_R211_L1.4060.69
982_K1119_E1.4030.68
134_E139_R1.4030.68
477_I487_L1.3940.68
135_E138_L1.3930.68
781_R788_A1.3920.68
615_Y621_L1.3910.68
1156_L1170_I1.3890.67
284_R533_P1.3850.67
392_D396_R1.3840.67
584_D588_G1.3840.67
1136_R1150_N1.3800.67
1125_N1137_Y1.3760.66
351_R617_L1.3740.66
63_D76_R1.3700.66
822_D826_Q1.3640.65
478_V484_E1.3640.65
1142_P1168_L1.3640.65
441_W706_V1.3590.65
711_L723_S1.3530.64
645_R655_Y1.3500.64
969_A984_V1.3430.64
1110_R1123_Y1.3380.63
377_S390_M1.3360.63
356_E370_V1.3280.62
112_D116_R1.3270.62
88_L241_L1.3260.62
956_H970_R1.3190.61
501_C773_H1.3180.61
334_R345_V1.3170.61
222_Y355_Y1.3140.61
301_A309_E1.3120.61
45_V336_F1.3100.61
136_L139_R1.3060.60
691_S698_E1.3060.60
1153_A1156_L1.3050.60
248_S264_L1.3050.60
435_D439_R1.3050.60
138_L144_S1.3020.60
703_Y709_L1.3010.60
215_R221_S1.2990.60
110_L214_V1.2960.59
456_G460_S1.2940.59
380_D397_E1.2930.59
747_W755_L1.2930.59
36_D39_S1.2900.59
303_G309_E1.2860.59
569_T585_A1.2860.59
738_R744_P1.2860.59
24_T27_V1.2840.58
623_E633_R1.2800.58
58_L292_F1.2760.58
413_S419_Y1.2760.58
750_Y773_H1.2760.58
31_A35_A1.2710.57
1014_T1107_Q1.2660.57
930_L952_Q1.2650.57
1141_D1167_G1.2640.57
834_Q1086_L1.2620.56
972_R983_V1.2610.56
304_E555_L1.2600.56
25_V28_G1.2590.56
683_W728_H1.2560.56
817_R832_D1.2550.56
302_H312_Y1.2530.56
381_Y407_R1.2510.55
1014_T1018_P1.2500.55
225_V245_I1.2490.55
1016_H1020_G1.2490.55
700_R713_S1.2460.55
935_E938_G1.2460.55
58_L1136_R1.2410.55
832_D836_P1.2380.54
602_A610_Q1.2300.54
479_D483_G1.2290.53
135_E139_R1.2210.53
1116_H1123_Y1.2190.52
1014_T1020_G1.2180.52
311_R327_I1.2170.52
18_I25_V1.2170.52
626_G932_N1.2140.52
679_E975_A1.2120.52
1005_E1115_Y1.2110.52
520_S526_L1.2100.52
398_T411_E1.2090.52
657_Y662_R1.2080.51
699_V976_L1.2080.51
120_F131_S1.2070.51
33_G36_D1.2060.51
497_A507_R1.2060.51
309_E329_A1.2050.51
413_S417_A1.2050.51
579_L657_Y1.2020.51
51_P345_V1.2020.51
502_S751_G1.2010.51
697_C718_D1.1980.51
490_N496_A1.1980.51
628_D1152_Y1.1960.50
718_D980_I1.1960.50
487_L495_L1.1950.50
583_S690_A1.1910.50
518_A528_R1.1900.50
88_L268_V1.1850.49
387_L390_M1.1850.49
18_I21_G1.1830.49
599_R1095_W1.1820.49
1119_E1129_Y1.1820.49
592_Y681_Y1.1820.49
529_R537_L1.1800.49
1060_L1063_A1.1760.49
699_V975_A1.1760.49
1154_Y1159_P1.1760.49
1202_V1205_Q1.1750.48
55_S407_R1.1680.48
795_Q804_R1.1670.48
1183_A1187_A1.1610.47
365_R384_F1.1590.47
334_R348_S1.1590.47
573_W579_L1.1580.47
1141_D1164_D1.1560.47
22_S25_V1.1560.47
1123_Y1137_Y1.1540.47
15_G18_I1.1520.46
842_Y848_L1.1510.46
430_L433_L1.1490.46
205_W323_V1.1470.46
970_R983_V1.1460.46
646_E652_E1.1450.46
1108_P1115_Y1.1440.46
22_S26_H1.1440.46
175_H180_F1.1440.46
78_Y347_D1.1410.45
694_G1139_S1.1380.45
283_D287_Q1.1330.45
198_G403_D1.1320.45
281_V312_Y1.1310.44
542_L548_L1.1300.44
605_N609_V1.1280.44
62_V75_A1.1270.44
605_N624_E1.1260.44
347_D351_R1.1230.44
394_L639_A1.1220.44
506_W519_S1.1220.44
1093_D1097_A1.1210.44
466_E475_T1.1200.43
16_G21_G1.1190.43
25_V29_S1.1190.43
58_L61_E1.1180.43
1076_P1125_N1.1180.43
52_M357_F1.1180.43
266_W269_R1.1160.43
190_L203_F1.1140.43
358_A385_G1.1130.43
982_K1115_Y1.1110.43
841_E852_R1.1100.43
1174_V1177_A1.1080.42
1032_E1056_C1.1070.42
88_L932_N1.1070.42
365_R388_V1.1060.42
31_A36_D1.1020.42
308_L326_Q1.1010.42
226_Y241_L1.1000.42
1117_D1129_Y1.1000.42
502_S752_P1.0970.41
665_S678_V1.0950.41
111_V114_Q1.0920.41
345_V355_Y1.0910.41
1185_G1189_G1.0910.41
464_A478_V1.0900.41
45_V369_L1.0870.40
167_G171_V1.0860.40
245_I266_W1.0850.40
938_G941_G1.0850.40
562_A568_A1.0840.40
1058_P1062_E1.0840.40
1183_A1189_G1.0840.40
745_V1015_V1.0830.40
380_D389_A1.0830.40
78_Y299_L1.0820.40
1175_I1180_A1.0800.40
349_L617_L1.0790.40
21_G25_V1.0790.40
381_Y387_L1.0780.40
933_L1139_S1.0760.40
933_L1138_A1.0760.40
241_L425_E1.0750.39
982_K1117_D1.0750.39
51_P366_W1.0730.39
432_E442_T1.0720.39
67_A545_G1.0710.39
56_K312_Y1.0700.39
604_T610_Q1.0690.39
78_Y326_Q1.0690.39
75_A113_A1.0690.39
579_L648_A1.0680.39
24_T28_G1.0670.39
754_H773_H1.0660.39
1016_H1023_P1.0650.39
935_E943_R1.0640.38
172_L178_L1.0620.38
78_Y334_R1.0600.38
709_L726_H1.0570.38
535_G621_L1.0570.38
860_T871_E1.0550.38
18_I27_V1.0540.38
796_H1003_C1.0540.38
169_V172_L1.0520.37
24_T29_S1.0510.37
11_E18_I1.0510.37
78_Y309_E1.0500.37
201_T217_S1.0490.37
904_Q907_E1.0480.37
1195_G1199_G1.0470.37
131_S134_E1.0470.37
937_I943_R1.0460.37
843_D847_R1.0460.37
790_F796_H1.0460.37
978_R1125_N1.0460.37
948_Y954_L1.0460.37
16_G22_S1.0450.37
1159_P1164_D1.0440.37
17_V21_G1.0430.37
11_E16_G1.0420.37
829_G839_R1.0400.36
250_D261_S1.0400.36
316_V321_G1.0380.36
46_G58_L1.0380.36
326_Q336_F1.0380.36
476_R484_E1.0340.36
932_N952_Q1.0340.36
337_R352_V1.0340.36
288_V305_P1.0320.36
932_N1140_Q1.0320.36
321_G326_Q1.0320.36
519_S769_R1.0320.36
18_I22_S1.0310.36
1182_A1186_A1.0310.36
94_L97_E1.0310.36
1017_E1021_F1.0300.36
485_R662_R1.0280.35
38_V41_C1.0270.35
1200_K1205_Q1.0260.35
502_S754_H1.0260.35
1075_T1111_F1.0260.35
542_L546_S1.0250.35
172_L179_H1.0240.35
82_N93_W1.0240.35
445_R483_G1.0240.35
667_R670_A1.0240.35
77_G81_S1.0230.35
380_D383_L1.0220.35
565_E823_G1.0220.35
800_G1025_L1.0220.35
1068_F1107_Q1.0210.35
139_R144_S1.0200.35
581_R591_S1.0180.35
311_R329_A1.0170.34
649_D930_L1.0160.34
77_G349_L1.0150.34
979_R982_K1.0150.34
1183_A1188_L1.0140.34
22_S29_S1.0120.34
1159_P1167_G1.0110.34
133_S139_R1.0090.34
582_V592_Y1.0090.34
309_E326_Q1.0090.34
350_G971_Y1.0070.34
205_W211_L1.0060.34
371_R375_S1.0060.34
1199_G1202_V1.0040.33
778_R1017_E1.0030.33
63_D270_Y1.0020.33
34_L39_S1.0020.33
1160_T1163_Y1.0020.33
32_V35_A1.0020.33
205_W214_V1.0010.33
592_Y932_N1.0010.33
842_Y1094_D1.0010.33
57_L325_K1.0010.33
778_R817_R1.0010.33
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  
4o9xA10.71831000.599Contact Map
4iglB20.44121000.664Contact Map
4iglA20.44121000.913Contact Map
4ghbA20.16797.20.975Contact Map
1gxrA20.249897.20.975Contact Map
4qrjA20.2377970.976Contact Map
2ojhA10.1944970.976Contact Map
1nr0A10.383496.90.976Contact Map
2ymuA20.39196.70.977Contact Map
1jofA80.235496.50.977Contact 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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