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OPENSEQ.org

SEC39p

ID: 1491047702 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 50% gaps before running GREMLIN.
Length: 992 (799)
Sequences: 967 (640.6)
Seq/Len: 1.210
Nf(neff/√len): 22.7

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: 1.210).

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 > 50% 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
208_T259_H2.9231.00
240_A252_L2.3460.99
777_A794_V2.1580.98
557_V616_M2.1380.98
69_Q91_K2.1210.98
421_K424_E2.1140.98
244_A252_L2.0050.97
208_T258_Y1.9860.97
834_G849_M1.8960.95
63_D66_L1.8900.95
308_R314_E1.8870.95
50_Y65_D1.8790.95
92_R120_G1.8750.95
362_E418_Q1.7650.93
52_E396_L1.7560.92
51_E84_N1.7490.92
99_C113_L1.7360.92
283_Y364_I1.7050.91
311_D314_E1.6960.90
275_P360_R1.6750.90
803_L811_A1.6730.90
66_L114_L1.6670.89
68_Y71_Q1.6620.89
422_D449_F1.6520.89
851_F855_H1.5920.86
36_T39_E1.5710.85
549_D552_E1.5670.85
200_L204_D1.5650.85
58_Q64_T1.5490.84
746_V755_L1.5430.84
89_I238_L1.5300.83
530_P544_L1.4990.81
240_A244_A1.4960.81
842_L845_R1.4950.81
610_L614_L1.4820.80
40_L56_L1.4750.80
32_L35_T1.4670.79
831_S864_L1.4640.79
549_D559_E1.4560.79
633_F637_L1.4550.79
87_S116_Y1.4410.78
196_R204_D1.4390.78
40_L44_K1.4290.77
534_Y538_T1.4290.77
356_W360_R1.4250.77
82_I113_L1.4060.75
815_C830_C1.4030.75
4_L9_E1.3930.74
48_E70_R1.3880.74
202_Y232_R1.3880.74
49_E52_E1.3870.74
637_L648_L1.3810.73
602_G605_H1.3800.73
82_I104_P1.3750.73
356_W365_E1.3750.73
7_V10_M1.3750.73
684_L688_A1.3740.73
271_L275_P1.3700.73
53_A57_A1.3620.72
693_F731_L1.3550.71
95_V99_C1.3540.71
271_L286_L1.3540.71
308_R311_D1.3510.71
215_V219_S1.3500.71
4_L8_T1.3450.71
67_V112_E1.3400.70
91_K95_V1.3390.70
433_C441_S1.3360.70
84_N108_D1.3330.70
77_V81_S1.3310.70
196_R200_L1.3280.69
87_S209_Y1.3280.69
536_Q539_E1.3250.69
544_L549_D1.3200.69
275_P280_P1.3160.68
773_L798_L1.3140.68
243_Y251_A1.3140.68
52_E66_L1.3090.68
711_L728_I1.3050.67
534_Y537_K1.3040.67
590_L593_H1.3020.67
98_E232_R1.2990.67
252_L255_L1.2970.67
255_L271_L1.2870.66
767_Y807_D1.2860.66
102_R113_L1.2850.66
48_E93_S1.2840.65
106_N109_A1.2840.65
113_L206_L1.2800.65
545_H548_V1.2790.65
232_R268_L1.2780.65
68_Y88_K1.2770.65
778_E791_R1.2760.65
519_L522_C1.2730.65
34_S40_L1.2700.64
91_K104_P1.2670.64
57_A62_L1.2660.64
761_C830_C1.2650.64
365_E370_Q1.2650.64
204_D308_R1.2620.64
209_Y239_S1.2600.63
244_A286_L1.2600.63
113_L119_K1.2550.63
395_N424_E1.2550.63
37_P60_Y1.2540.63
247_S278_T1.2440.62
67_V232_R1.2400.61
742_L745_Q1.2400.61
441_S445_W1.2370.61
357_Y381_G1.2350.61
800_E832_Q1.2340.61
360_R377_L1.2340.61
30_V36_T1.2310.61
399_L414_L1.2310.61
29_L39_E1.2300.61
360_R364_I1.2290.60
773_L780_L1.2250.60
853_L865_L1.2240.60
72_W98_E1.2220.60
25_K106_N1.2210.60
228_F231_F1.2210.60
827_W849_M1.2180.59
856_C861_I1.2170.59
54_L64_T1.2130.59
364_I368_A1.2130.59
724_E747_R1.2120.59
229_K232_R1.2120.59
52_E64_T1.2090.59
121_T196_R1.2050.58
36_T65_D1.2040.58
493_Q787_P1.2040.58
23_I27_Y1.2030.58
802_A807_D1.2000.58
28_R116_Y1.1960.57
84_N92_R1.1920.57
45_I50_Y1.1910.57
399_L404_Y1.1900.57
48_E55_S1.1890.57
63_D67_V1.1860.56
83_Q115_Q1.1850.56
41_Y45_I1.1840.56
212_I243_Y1.1820.56
41_Y62_L1.1810.56
612_D624_L1.1810.56
209_Y224_D1.1800.56
847_E853_L1.1800.56
196_R202_Y1.1790.56
830_C852_A1.1780.56
48_E74_K1.1780.56
45_I48_E1.1780.56
25_K30_V1.1740.55
708_R728_I1.1740.55
837_E874_E1.1710.55
713_L721_I1.1690.55
866_A874_E1.1690.55
37_P40_L1.1680.55
340_L343_Y1.1670.55
95_V120_G1.1660.54
28_R99_C1.1650.54
855_H864_L1.1620.54
229_K233_S1.1610.54
682_I707_A1.1590.54
633_F648_L1.1530.53
711_L743_P1.1530.53
268_L276_E1.1530.53
813_V844_T1.1530.53
801_Q815_C1.1520.53
15_P18_K1.1510.53
82_I117_G1.1510.53
228_F240_A1.1490.53
827_W834_G1.1490.53
131_K135_D1.1480.53
390_L422_D1.1470.53
422_D425_K1.1460.53
396_L399_L1.1460.53
425_K449_F1.1430.52
45_I57_A1.1410.52
27_Y44_K1.1390.52
704_M746_V1.1390.52
36_T232_R1.1390.52
247_S258_Y1.1360.52
850_A868_S1.1340.51
564_H612_D1.1330.51
35_T39_E1.1320.51
10_M20_P1.1310.51
721_I861_I1.1300.51
60_Y80_A1.1280.51
55_S111_K1.1280.51
256_F259_H1.1270.51
93_S97_H1.1260.51
77_V105_E1.1250.50
225_A232_R1.1250.50
46_E70_R1.1240.50
830_C867_A1.1220.50
46_E49_E1.1220.50
265_P280_P1.1220.50
755_L767_Y1.1200.50
30_V39_E1.1190.50
99_C117_G1.1180.50
691_E728_I1.1180.50
751_D755_L1.1170.50
401_A426_L1.1170.50
80_A85_Y1.1170.50
592_R691_E1.1160.50
251_A265_P1.1150.50
828_D855_H1.1140.49
37_P52_E1.1100.49
260_G264_L1.1090.49
31_S48_E1.1080.49
45_I65_D1.1070.49
283_Y377_L1.1070.49
97_H101_E1.1060.49
251_A271_L1.1060.49
52_E62_L1.1050.49
27_Y30_V1.1040.48
57_A63_D1.1020.48
744_L747_R1.1010.48
734_L759_C1.1000.48
207_A230_K1.1000.48
12_R23_I1.0990.48
53_A62_L1.0990.48
752_R755_L1.0990.48
121_T200_L1.0990.48
104_P109_A1.0980.48
117_G283_Y1.0970.48
684_L692_Y1.0970.48
11_E14_A1.0960.48
769_Q772_K1.0950.48
614_L861_I1.0940.47
710_C724_E1.0940.47
73_R122_D1.0940.47
51_E55_S1.0910.47
35_T48_E1.0900.47
879_R882_F1.0900.47
534_Y540_V1.0880.47
308_R313_C1.0880.47
71_Q85_Y1.0870.47
46_E105_E1.0860.47
549_D555_L1.0850.47
83_Q112_E1.0850.47
527_E530_P1.0850.47
781_R790_R1.0850.47
85_Y110_A1.0850.47
202_Y228_F1.0830.46
813_V871_L1.0810.46
841_D871_L1.0800.46
690_R724_E1.0800.46
82_I102_R1.0780.46
780_L848_L1.0780.46
276_E364_I1.0780.46
41_Y67_V1.0780.46
27_Y40_L1.0740.46
394_D510_I1.0740.46
420_M627_D1.0730.45
324_P330_S1.0730.45
36_T40_L1.0730.45
34_S44_K1.0730.45
537_K542_T1.0720.45
34_S47_S1.0720.45
881_N884_I1.0710.45
853_L871_L1.0700.45
72_W483_I1.0690.45
57_A67_V1.0690.45
200_L314_E1.0680.45
437_K441_S1.0660.45
636_S639_C1.0650.45
446_M548_V1.0650.45
835_Q848_L1.0640.45
569_P697_T1.0640.45
28_R44_K1.0640.45
56_L94_W1.0620.44
96_L418_Q1.0590.44
99_C102_R1.0590.44
9_E30_V1.0590.44
694_N744_L1.0590.44
728_I745_Q1.0580.44
357_Y386_I1.0570.44
417_L552_E1.0570.44
101_E205_R1.0570.44
728_I734_L1.0560.44
489_P532_R1.0560.44
122_D222_R1.0560.44
252_L256_F1.0550.44
26_N64_T1.0550.44
704_M856_C1.0540.44
111_K413_T1.0540.44
110_A507_L1.0540.44
27_Y54_L1.0520.43
707_A848_L1.0520.43
611_Q693_F1.0510.43
743_P767_Y1.0510.43
49_E69_Q1.0510.43
72_W86_L1.0500.43
118_L196_R1.0480.43
694_N705_D1.0470.43
38_E98_E1.0460.43
230_K245_R1.0460.43
280_P373_C1.0460.43
806_H836_S1.0460.43
240_A255_L1.0460.43
602_G606_W1.0460.43
724_E841_D1.0450.43
27_Y46_E1.0440.43
630_Y633_F1.0440.43
38_E48_E1.0430.43
425_K446_M1.0430.43
84_N205_R1.0430.43
373_C377_L1.0420.42
77_V109_A1.0410.42
696_S730_A1.0400.42
35_T66_L1.0400.42
209_Y229_K1.0400.42
42_Q49_E1.0390.42
48_E64_T1.0390.42
842_L847_E1.0390.42
29_L79_I1.0390.42
228_F232_R1.0380.42
832_Q835_Q1.0380.42
99_C356_W1.0380.42
372_D402_L1.0370.42
425_K465_L1.0370.42
236_I379_R1.0350.42
196_R199_L1.0340.42
256_F260_G1.0340.42
846_Q874_E1.0340.42
859_S868_S1.0340.42
268_L277_T1.0340.42
391_V398_T1.0330.42
799_V836_S1.0320.41
10_M21_R1.0320.41
22_T25_K1.0310.41
274_F287_L1.0310.41
12_R15_P1.0310.41
244_A275_P1.0300.41
69_Q94_W1.0300.41
96_L195_C1.0300.41
119_K230_K1.0290.41
800_E860_S1.0280.41
103_V109_A1.0280.41
591_T652_M1.0280.41
636_S640_S1.0260.41
686_L724_E1.0260.41
44_K94_W1.0260.41
831_S835_Q1.0260.41
42_Q70_R1.0250.41
196_R276_E1.0250.41
268_L283_Y1.0240.41
279_S282_Q1.0230.41
361_A377_L1.0230.41
34_S56_L1.0230.41
96_L119_K1.0230.41
851_F854_T1.0230.41
632_I635_E1.0220.41
791_R805_F1.0220.41
331_E334_Y1.0210.40
352_E357_Y1.0200.40
869_S873_T1.0200.40
696_S743_P1.0190.40
704_M707_A1.0190.40
647_H653_M1.0180.40
568_K572_Y1.0180.40
235_N264_L1.0180.40
39_E49_E1.0170.40
131_K134_D1.0170.40
570_I780_L1.0160.40
694_N747_R1.0160.40
835_Q868_S1.0160.40
48_E98_E1.0150.40
487_S528_C1.0150.40
799_V829_V1.0140.40
96_L206_L1.0140.40
42_Q46_E1.0140.40
724_E728_I1.0130.40
231_F236_I1.0130.40
54_L68_Y1.0130.40
97_H227_F1.0120.40
830_C856_C1.0120.40
94_W99_C1.0110.40
191_E194_R1.0110.40
63_D119_K1.0100.39
23_I29_L1.0100.39
29_L36_T1.0100.39
30_V109_A1.0090.39
48_E58_Q1.0090.39
270_I276_E1.0090.39
49_E88_K1.0080.39
755_L772_K1.0070.39
22_T26_N1.0070.39
794_V845_R1.0070.39
532_R537_K1.0070.39
232_R469_L1.0060.39
42_Q50_Y1.0050.39
2_Q6_L1.0050.39
102_R109_A1.0050.39
72_W111_K1.0030.39
40_L65_D1.0030.39
712_Q725_L1.0020.39
288_P381_G1.0020.39
212_I230_K1.0020.39
66_L91_K1.0010.39
37_P57_A1.0000.38
629_C635_E1.0000.38
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  
3k8pD10.53631000.684Contact Map
4pjrA10.166343.80.983Contact Map
2yhcA10.207721.70.985Contact Map
2katA10.114911.60.987Contact Map
3zn3A10.225810.10.987Contact Map
3as5A20.18359.50.988Contact Map
2pl2A20.18859.30.988Contact Map
4r7sA10.23598.10.988Contact Map
3vtxA20.18458.10.988Contact Map
4houA20.257.50.988Contact 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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