May 4, 2021 - We are working on upgrading the webserver, some pages may not work.
OPENSEQ.org

PKC hhbits 50

ID: 1497556866 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 672 (647)
Sequences: 1085 (535.6)
Seq/Len: 1.677
Nf(neff/√len): 21.1

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: 1.677).

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
356_A367_I2.5161.00
446_E476_H2.3121.00
450_G479_I2.2320.99
437_E562_S2.1290.99
381_V384_T2.1250.99
74_V79_H2.0340.99
604_K609_E1.9960.98
344_V352_K1.9800.98
424_D467_D1.9430.98
452_F592_R1.9320.98
388_K406_C1.8330.97
346_G351_G1.8170.97
113_T128_Q1.7670.96
443_Y446_E1.7440.96
135_C140_H1.7290.95
417_M424_D1.7160.95
143_C151_C1.6710.94
124_G128_Q1.6640.94
653_F656_F1.6620.94
447_I469_V1.6380.93
601_D604_K1.5930.92
140_H151_C1.5790.91
418_E424_D1.5500.90
82_V87_P1.5480.90
348_G351_G1.5470.90
109_Y138_N1.5390.90
124_G129_G1.5380.90
140_H143_C1.5340.90
538_F550_I1.5340.90
605_L610_I1.5310.90
622_G633_G1.5300.90
567_S571_G1.5130.89
447_I459_I1.5100.89
557_Y561_L1.4950.88
495_T499_C1.4910.88
448_S452_F1.4860.88
568_V572_L1.4830.87
369_I488_H1.4730.87
530_E534_G1.4660.87
442_F455_H1.4650.87
112_P124_G1.4620.86
135_C151_C1.4620.86
467_D476_H1.4510.86
502_P505_I1.4390.85
157_E161_R1.4380.85
344_V354_M1.4370.85
123_Y126_I1.4180.84
135_C143_C1.4170.84
465_K471_L1.4170.84
59_G67_C1.4150.84
518_S583_C1.4120.84
486_K495_T1.4120.84
540_G545_E1.4120.84
443_Y455_H1.4090.84
548_Q551_M1.4000.83
520_D525_G1.3930.83
389_R487_E1.3920.83
484_M505_I1.3820.82
624_E629_F1.3800.82
485_C502_P1.3740.81
43_F49_F1.3730.81
574_T579_K1.3720.81
631_T639_P1.3720.81
75_H86_C1.3620.81
366_A387_E1.3580.80
463_D468_N1.3550.80
113_T124_G1.3550.80
70_C78_C1.3480.80
467_D505_I1.3410.79
556_S559_K1.3390.79
87_P123_Y1.3350.79
426_M467_D1.3340.79
115_C118_C1.3310.79
112_P129_G1.3290.78
32_H41_A1.3270.78
635_P650_Q1.3230.78
109_Y113_T1.3140.77
484_M503_D1.3120.77
112_P120_S1.3120.77
521_W568_V1.3100.77
442_F446_E1.3070.77
446_E455_H1.3000.76
109_Y112_P1.3000.76
543_E546_L1.2990.76
355_L364_L1.2930.76
533_A536_P1.2890.75
625_N629_F1.2880.75
70_C75_H1.2860.75
611_Q615_K1.2860.75
416_V424_D1.2750.74
75_H78_C1.2740.74
112_P128_Q1.2730.74
102_H132_C1.2730.74
622_G650_Q1.2730.74
426_M430_Q1.2660.74
33_E38_K1.2630.73
451_L454_L1.2630.73
114_F119_G1.2600.73
544_D547_F1.2590.73
543_E547_F1.2580.73
650_Q655_G1.2570.73
422_G425_L1.2530.72
109_Y128_Q1.2480.72
500_G506_A1.2440.72
391_L482_F1.2440.72
345_L348_G1.2420.71
418_E478_K1.2410.71
430_Q440_A1.2400.71
500_G507_P1.2380.71
368_K387_E1.2370.71
111_S131_K1.2350.71
455_H465_K1.2310.70
131_K136_D1.2290.70
113_T129_G1.2280.70
632_R646_A1.2280.70
116_D120_S1.2260.70
486_K499_C1.2260.70
417_M423_G1.2250.70
440_A528_L1.2250.70
500_G508_E1.2250.70
105_K111_S1.2240.70
380_D383_C1.2240.70
353_V366_A1.2220.70
442_F461_Y1.2210.70
64_G67_C1.2210.70
522_W525_G1.2190.69
90_D94_D1.2170.69
428_H435_F1.2160.69
640_P646_A1.2160.69
536_P555_V1.2130.69
425_L430_Q1.2110.69
417_M429_I1.2050.68
346_G350_F1.2030.68
278_L282_E1.2000.68
522_W538_F1.1970.67
426_M429_I1.1970.67
442_F445_A1.1960.67
341_F352_K1.1960.67
339_F352_K1.1950.67
278_L283_G1.1860.66
605_L609_E1.1840.66
70_C86_C1.1830.66
417_M426_M1.1810.66
412_R424_D1.1800.66
461_Y486_K1.1800.66
528_L532_L1.1790.66
524_Y528_L1.1780.66
376_I381_V1.1770.65
533_A555_V1.1760.65
109_Y122_L1.1730.65
345_L351_G1.1700.65
451_L461_Y1.1620.64
640_P645_I1.1620.64
370_L384_T1.1580.64
416_V425_L1.1580.64
451_L455_H1.1560.63
348_G352_K1.1550.63
340_N357_D1.1550.63
454_L459_I1.1540.63
69_V79_H1.1540.63
629_F633_G1.1530.63
514_P524_Y1.1520.63
465_K481_D1.1520.63
187_D190_G1.1520.63
78_C86_C1.1470.63
557_Y568_V1.1460.62
453_F457_R1.1460.62
418_E426_M1.1430.62
624_E644_V1.1430.62
415_F426_M1.1420.62
550_I558_P1.1420.62
441_V599_R1.1420.62
445_A600_I1.1400.62
623_A633_G1.1390.62
651_S654_E1.1380.62
501_T507_P1.1370.62
104_F117_H1.1340.61
528_L565_A1.1330.61
59_G63_Q1.1320.61
468_N481_D1.1320.61
50_C53_C1.1310.61
104_F115_C1.1270.61
282_E286_Y1.1250.60
109_Y125_L1.1230.60
125_L128_Q1.1210.60
522_W527_L1.1210.60
567_S594_H1.1210.60
440_A445_A1.1180.60
554_N576_H1.1170.60
529_Y535_Q1.1170.60
590_D649_D1.1170.60
495_T498_F1.1140.59
465_K476_H1.1130.59
463_D481_D1.1100.59
34_V41_A1.1090.59
102_H118_C1.1080.59
245_W248_D1.1080.59
346_G352_K1.1080.59
80_E91_K1.1060.58
645_I650_Q1.1060.58
37_H53_C1.1050.58
520_D530_E1.1050.58
632_R640_P1.1040.58
484_M504_Y1.1040.58
104_F118_C1.1030.58
501_T508_E1.1030.58
487_E516_G1.1000.58
418_E425_L1.0990.58
522_W534_G1.0990.58
580_R594_H1.0980.58
104_F128_Q1.0970.57
60_F63_Q1.0970.57
32_H38_K1.0940.57
447_I458_G1.0930.57
609_E645_I1.0920.57
483_G501_T1.0910.57
561_L569_C1.0900.57
466_L498_F1.0890.57
397_P449_I1.0870.56
353_V368_K1.0870.56
375_V469_V1.0840.56
344_V351_G1.0840.56
480_A487_E1.0820.56
501_T504_Y1.0810.56
436_K441_V1.0810.56
624_E633_G1.0800.56
622_G627_D1.0800.56
622_G626_F1.0790.56
617_K658_Y1.0790.56
461_Y501_T1.0790.56
357_D467_D1.0790.56
538_F544_D1.0790.56
604_K610_I1.0770.55
392_A403_L1.0770.55
109_Y129_G1.0740.55
515_Y520_D1.0730.55
466_L471_L1.0730.55
418_E423_G1.0720.55
474_E511_A1.0700.55
500_G504_Y1.0690.55
79_H87_P1.0670.54
339_F351_G1.0670.54
478_K502_P1.0670.54
498_F519_V1.0660.54
182_N193_D1.0660.54
622_G635_P1.0650.54
442_F451_L1.0650.54
430_Q497_T1.0640.54
186_M193_D1.0620.54
628_K632_R1.0610.54
121_L129_G1.0610.54
447_I457_R1.0600.54
114_F124_G1.0590.53
390_V485_C1.0580.53
562_S571_G1.0580.53
114_F117_H1.0580.53
589_R592_R1.0570.53
167_E171_E1.0560.53
600_I618_V1.0560.53
580_R597_F1.0560.53
428_H439_Q1.0520.53
643_L646_A1.0520.53
22_R25_A1.0510.53
519_V531_M1.0510.53
122_L128_Q1.0500.52
372_K387_E1.0500.52
399_F409_T1.0480.52
436_K439_Q1.0480.52
105_K133_D1.0470.52
83_T92_G1.0460.52
130_M144_V1.0450.52
202_P213_K1.0430.52
137_M147_V1.0430.52
653_F657_S1.0430.52
499_C519_V1.0430.52
520_D526_V1.0420.52
115_C132_C1.0420.52
422_G426_M1.0400.51
478_K487_E1.0400.51
186_M190_G1.0400.51
344_V347_K1.0390.51
157_E160_G1.0390.51
523_A554_N1.0360.51
20_F54_T1.0350.51
381_V389_R1.0350.51
49_F58_W1.0340.51
48_T58_W1.0330.51
619_C629_F1.0330.51
104_F122_L1.0330.51
102_H115_C1.0330.51
534_G538_F1.0310.50
501_T506_A1.0310.50
52_H57_I1.0290.50
57_I61_G1.0280.50
634_Q649_D1.0270.50
109_Y120_S1.0260.50
486_K501_T1.0260.50
465_K468_N1.0250.50
401_T544_D1.0240.50
642_Q646_A1.0210.49
610_I617_K1.0200.49
379_D382_E1.0200.49
443_Y451_L1.0180.49
629_F640_P1.0180.49
464_L486_K1.0170.49
346_G349_S1.0170.49
73_V79_H1.0160.49
455_H461_Y1.0160.49
114_F128_Q1.0150.49
446_E461_Y1.0150.49
523_A556_S1.0130.49
520_D534_G1.0130.49
533_A566_V1.0110.48
461_Y495_T1.0110.48
467_D487_E1.0110.48
469_V484_M1.0110.48
429_I435_F1.0110.48
636_V642_Q1.0110.48
398_P408_Q1.0110.48
280_Q285_Y1.0100.48
339_F348_G1.0090.48
600_I604_K1.0090.48
193_D197_K1.0080.48
43_F47_P1.0080.48
631_T655_G1.0080.48
139_V144_V1.0070.48
187_D193_D1.0060.48
136_D142_Q1.0040.48
100_S127_H1.0030.47
221_P224_N1.0030.47
339_F350_F1.0030.47
349_S352_K1.0020.47
141_K155_H1.0020.47
185_P195_Y1.0010.47
371_K400_L1.0010.47
30_N33_E1.0010.47
494_T516_G1.0000.47
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  
3pfqA10.77381000.3Contact Map
2i0eA20.48511000.608Contact Map
4gv1A10.48211000.628Contact Map
4dc2A10.48071000.628Contact Map
3txoA10.46881000.629Contact Map
1xjdA10.41671000.631Contact Map
2r5tA10.42261000.633Contact Map
3a8xA20.49261000.633Contact Map
4aw2A10.57141000.641Contact Map
4othA10.44791000.649Contact 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.

Page generated in 1.7809 seconds.