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OPENSEQ.org

TEB4_JH -force run

ID: 1490021617 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 725 (724)
Sequences: 419 (325)
Seq/Len: 0.579
Nf(neff/√len): 12.1

Jackhmmer Results: (2016_04)
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: 0.579).

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
454_P461_P2.6100.98
455_P458_V2.1320.92
454_P460_L2.0230.89
160_A163_L2.0100.89
457_P460_L2.0050.89
715_Y718_Q1.9850.88
170_G173_G1.9610.87
628_D634_R1.8420.82
457_P461_P1.7460.77
247_M366_I1.7240.76
82_V87_Q1.6270.70
141_D144_V1.6160.69
716_L721_L1.5970.68
132_G136_E1.5950.68
257_E322_R1.5890.67
453_N461_P1.5840.67
157_E162_E1.5670.66
332_L362_F1.5450.64
124_E128_G1.5400.64
454_P457_P1.5130.62
76_C80_S1.5120.62
314_V325_V1.5020.61
155_D160_A1.4890.60
115_G120_F1.4870.60
576_Q627_R1.4770.59
598_H608_L1.4710.58
123_L127_G1.4640.58
110_V114_N1.4630.58
257_E330_R1.4630.58
120_F124_E1.4570.57
40_A44_V1.4510.57
599_W602_G1.4510.57
479_R484_P1.4370.56
450_N453_N1.4350.56
83_W87_Q1.4280.55
237_V549_C1.4250.55
279_T366_I1.4220.55
44_V48_F1.4100.54
128_G132_G1.4000.53
568_P572_G1.3930.52
529_K548_V1.3900.52
19_V23_W1.3850.52
116_A126_R1.3750.51
157_E160_A1.3750.51
135_V139_Q1.3630.50
44_V49_A1.3630.50
307_V362_F1.3620.50
98_N103_E1.3530.49
43_S46_D1.3450.48
453_N460_L1.3420.48
284_R299_H1.3400.48
223_I227_L1.3320.47
117_P121_E1.3270.47
444_Y719_T1.3220.47
558_A639_Y1.3190.46
68_C83_W1.3170.46
125_R131_A1.3170.46
270_D274_L1.3150.46
310_S324_G1.3090.46
23_W28_P1.3090.46
431_W507_T1.3080.46
123_L126_R1.3030.45
471_Q474_A1.2990.45
254_M338_N1.2970.45
142_V147_Q1.2950.44
328_F366_I1.2950.44
127_G132_G1.2940.44
577_L654_L1.2890.44
128_G131_A1.2790.43
523_G538_E1.2770.43
141_D145_Q1.2610.42
480_E484_P1.2610.42
351_H425_K1.2600.42
135_V146_E1.2600.42
321_L326_L1.2590.42
139_Q145_Q1.2590.42
257_E324_G1.2580.42
118_N121_E1.2570.41
19_V63_D1.2550.41
261_F311_S1.2520.41
454_P459_Q1.2510.41
389_F638_L1.2450.41
715_Y723_N1.2440.40
130_L133_R1.2440.40
339_P412_P1.2430.40
27_V68_C1.2410.40
247_M323_P1.2410.40
403_E415_L1.2410.40
83_W88_I1.2360.40
15_I23_W1.2360.40
167_R538_E1.2360.40
386_P523_G1.2350.40
257_E342_E1.2350.40
79_I83_W1.2320.40
173_G200_F1.2290.39
288_F295_S1.2230.39
63_D75_L1.2220.39
313_F330_R1.2210.39
281_L548_V1.2210.39
578_S706_L1.2190.39
46_D57_M1.2190.39
112_L117_P1.2180.38
622_K626_N1.2150.38
155_D163_L1.2140.38
323_P348_V1.2140.38
565_V635_L1.2130.38
568_P582_A1.2110.38
225_I527_F1.2100.38
568_P602_G1.2090.38
229_Y328_F1.2030.37
172_D180_H1.2010.37
24_L39_F1.2010.37
19_V24_L1.2010.37
115_G131_A1.1970.37
717_V720_R1.1960.37
11_I22_A1.1940.37
315_L403_E1.1940.37
409_I654_L1.1930.37
15_I74_F1.1920.37
253_L354_R1.1900.36
92_G96_W1.1900.36
229_Y718_Q1.1890.36
261_F338_N1.1890.36
37_T46_D1.1890.36
99_L105_N1.1860.36
170_G524_R1.1860.36
36_R63_D1.1850.36
156_W159_V1.1830.36
126_R139_Q1.1770.35
397_L400_L1.1750.35
3_P10_G1.1750.35
72_S82_V1.1740.35
503_A506_V1.1740.35
127_G148_G1.1700.35
304_M351_H1.1700.35
405_L540_Y1.1690.35
488_S491_K1.1670.35
273_S327_W1.1650.35
129_N135_V1.1640.34
718_Q722_V1.1630.34
314_V330_R1.1600.34
308_F365_T1.1590.34
20_F25_G1.1580.34
358_S362_F1.1580.34
121_E124_E1.1580.34
330_R333_N1.1570.34
159_V163_L1.1560.34
619_W622_K1.1550.34
98_N104_S1.1540.34
171_L537_H1.1520.34
131_A134_I1.1520.34
307_V358_S1.1510.34
257_E328_F1.1490.33
407_L684_P1.1480.33
256_V355_L1.1480.33
142_V145_Q1.1470.33
116_A121_E1.1450.33
573_M654_L1.1440.33
268_W337_F1.1440.33
84_L88_I1.1430.33
311_S318_R1.1420.33
173_G339_P1.1420.33
322_R490_P1.1410.33
462_P466_G1.1360.32
120_F123_L1.1350.32
50_L57_M1.1340.32
186_A367_I1.1320.32
15_I35_Y1.1320.32
530_V656_V1.1320.32
109_G115_G1.1310.32
261_F322_R1.1300.32
458_V461_P1.1300.32
170_G180_H1.1290.32
138_G142_V1.1280.32
251_F341_Q1.1270.32
268_W355_L1.1250.32
144_V152_N1.1250.32
468_L471_Q1.1240.32
297_F324_G1.1240.32
75_L82_V1.1240.32
282_T573_M1.1220.32
426_V526_L1.1220.32
151_D522_L1.1210.31
338_N355_L1.1210.31
318_R358_S1.1200.31
15_I28_P1.1180.31
139_Q146_E1.1180.31
122_D132_G1.1170.31
308_F355_L1.1160.31
83_W90_N1.1160.31
253_L351_H1.1160.31
510_C696_L1.1160.31
170_G174_S1.1140.31
242_G347_P1.1140.31
13_W25_G1.1130.31
137_E145_Q1.1130.31
127_G135_V1.1120.31
48_F51_P1.1090.31
124_E133_R1.1090.31
479_R483_G1.1080.31
111_R117_P1.1080.31
304_M307_V1.1080.31
311_S330_R1.1060.30
568_P716_L1.1040.30
30_T77_T1.1030.30
383_F661_C1.1020.30
440_S488_S1.1010.30
112_L115_G1.1010.30
144_V148_G1.1000.30
84_L87_Q1.0990.30
440_S491_K1.0990.30
135_V142_V1.0960.30
122_D125_R1.0960.30
63_D78_F1.0950.30
254_M365_T1.0950.30
159_V162_E1.0940.30
355_L359_I1.0920.29
328_F334_D1.0920.29
71_V90_N1.0890.29
190_I413_A1.0890.29
464_D471_Q1.0880.29
322_R334_D1.0880.29
161_D593_F1.0870.29
43_S48_F1.0860.29
433_K566_V1.0850.29
313_F335_P1.0840.29
122_D126_R1.0830.29
155_D572_G1.0830.29
470_A475_L1.0830.29
138_G234_F1.0820.29
352_M497_I1.0820.29
45_A48_F1.0800.29
46_D49_A1.0790.29
3_P8_V1.0790.29
502_V636_T1.0790.29
451_A454_P1.0780.29
270_D299_H1.0770.28
331_N403_E1.0770.28
3_P6_E1.0760.28
51_P54_L1.0750.28
145_Q149_D1.0740.28
155_D159_V1.0730.28
402_V685_C1.0730.28
645_P716_L1.0710.28
343_M351_H1.0700.28
579_V691_L1.0700.28
307_V332_L1.0680.28
139_Q143_A1.0680.28
352_M501_L1.0670.28
715_Y722_V1.0670.28
168_L432_C1.0650.28
681_L697_Y1.0650.28
384_V448_E1.0640.28
519_P523_G1.0630.28
551_L632_G1.0630.28
717_V721_L1.0630.28
444_Y475_L1.0620.28
268_W351_H1.0610.27
468_L474_A1.0600.27
119_V123_L1.0600.27
572_G602_G1.0590.27
44_V52_F1.0590.27
265_C269_L1.0590.27
167_R332_L1.0570.27
439_L496_R1.0570.27
112_L140_G1.0570.27
685_C689_L1.0570.27
35_Y71_V1.0570.27
114_N120_F1.0560.27
333_N342_E1.0560.27
111_R123_L1.0540.27
25_G38_I1.0530.27
326_L608_L1.0530.27
261_F334_D1.0530.27
691_L710_I1.0520.27
575_F650_L1.0520.27
161_D323_P1.0510.27
113_N130_L1.0480.27
566_V646_I1.0470.27
257_E311_S1.0460.26
118_N122_D1.0460.26
110_V113_N1.0460.26
141_D515_F1.0440.26
318_R362_F1.0430.26
453_N659_V1.0430.26
257_E265_C1.0430.26
123_L136_E1.0420.26
3_P7_I1.0420.26
120_F129_N1.0410.26
577_L620_W1.0410.26
134_I147_Q1.0410.26
715_Y721_L1.0400.26
143_A146_E1.0390.26
92_G95_E1.0390.26
575_F675_H1.0390.26
452_S460_L1.0390.26
107_G453_N1.0380.26
342_E444_Y1.0380.26
68_C90_N1.0380.26
148_G151_D1.0370.26
137_E146_E1.0370.26
155_D158_R1.0370.26
127_G130_L1.0360.26
307_V351_H1.0350.26
22_A39_F1.0350.26
22_A35_Y1.0350.26
35_Y82_V1.0350.26
63_D84_L1.0340.26
111_R114_N1.0330.26
404_L540_Y1.0310.26
304_M329_L1.0310.26
188_N351_H1.0310.26
268_W369_V1.0310.26
152_N155_D1.0300.26
280_T651_S1.0300.26
522_L531_A1.0300.26
663_I669_G1.0300.26
455_P459_Q1.0300.26
137_E141_D1.0300.26
111_R116_A1.0300.26
31_A74_F1.0290.25
354_R706_L1.0290.25
325_V330_R1.0290.25
306_Y312_S1.0280.25
41_A52_F1.0280.25
103_E106_Q1.0260.25
98_N101_T1.0260.25
261_F308_F1.0260.25
38_I77_T1.0250.25
534_S642_L1.0250.25
302_F499_A1.0240.25
123_L692_S1.0230.25
624_V642_L1.0220.25
409_I415_L1.0220.25
323_P443_H1.0210.25
329_L501_L1.0210.25
95_E100_E1.0210.25
241_L687_L1.0210.25
706_L716_L1.0210.25
117_P123_L1.0200.25
120_F134_I1.0200.25
426_V583_L1.0180.25
634_R643_V1.0180.25
519_P645_P1.0180.25
519_P602_G1.0180.25
308_F337_F1.0180.25
62_F80_S1.0170.25
304_M487_Y1.0160.25
519_P524_R1.0160.25
194_C238_Y1.0160.25
125_R134_I1.0160.25
144_V230_V1.0160.25
12_T41_A1.0160.25
355_L478_V1.0150.25
164_T167_R1.0150.25
198_L225_I1.0150.25
712_N721_L1.0150.25
164_T331_N1.0140.25
322_R328_F1.0140.25
112_L116_A1.0130.24
116_A129_N1.0130.24
430_L511_F1.0120.24
570_L650_L1.0120.24
126_R131_A1.0120.24
286_I510_C1.0120.24
218_Y222_P1.0110.24
140_G144_V1.0110.24
331_N339_P1.0100.24
84_L92_G1.0100.24
173_G228_G1.0100.24
113_N117_P1.0100.24
131_A135_V1.0090.24
110_V115_G1.0080.24
602_G645_P1.0070.24
121_E129_N1.0070.24
306_Y325_V1.0070.24
110_V118_N1.0060.24
524_R538_E1.0060.24
232_V506_V1.0030.24
4_F7_I1.0030.24
386_P524_R1.0020.24
234_F583_L1.0020.24
434_F438_L1.0020.24
338_N359_I1.0010.24
150_A153_W1.0010.24
129_N140_G1.0010.24
194_C557_L1.0000.24
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  
4fp9B40.102184.90.977Contact Map
3wdoA10.206960.10.981Contact Map
4m64A40.126947.50.983Contact Map
2ca6A20.0924470.983Contact Map
4pypA10.1236.10.984Contact Map
3pjsK40.180724.10.985Contact Map
4px7A10.14923.30.985Contact Map
3uc3A10.104812.30.987Contact Map
4bgnA20.125590.988Contact Map
4zw9A108.60.988Contact 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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