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OPENSEQ.org

PKCa 27 18

ID: 1497562373 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 672 (646)
Sequences: 773 (494.7)
Seq/Len: 1.197
Nf(neff/√len): 19.5

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: 1.197).

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
450_G479_I2.5191.00
143_C151_C2.0820.98
452_F592_R2.0400.97
381_V384_T2.0370.97
135_C140_H2.0370.97
447_I469_V1.9770.97
140_H143_C1.9570.96
446_E476_H1.9550.96
445_A600_I1.9420.96
140_H151_C1.8910.95
437_E562_S1.8640.95
135_C143_C1.8540.95
605_L610_I1.7940.93
50_C53_C1.7820.93
118_C132_C1.7450.92
135_C151_C1.7400.92
22_R25_A1.7210.91
344_V352_K1.7070.91
653_F656_F1.6980.90
70_C86_C1.6810.90
70_C78_C1.6780.90
346_G351_G1.6750.90
102_H132_C1.6670.89
37_H53_C1.6610.89
70_C75_H1.6480.89
115_C118_C1.6390.88
124_G129_G1.6230.87
53_C67_C1.6060.87
50_C67_C1.6010.87
604_K609_E1.5780.85
356_A367_I1.5730.85
78_C86_C1.5570.84
37_H50_C1.5380.83
102_H118_C1.5320.83
75_H86_C1.5130.82
104_F117_H1.5040.81
135_C152_G1.4950.81
74_V79_H1.4920.81
389_R487_E1.4740.80
64_G67_C1.4730.80
624_E633_G1.4730.80
601_D604_K1.4730.80
448_S452_F1.4650.79
624_E629_F1.4640.79
124_G128_Q1.4490.78
39_F53_C1.4460.78
115_C119_G1.4430.78
650_Q653_F1.4410.77
348_G351_G1.4360.77
75_H78_C1.4360.77
102_H115_C1.4330.77
112_P124_G1.4320.77
44_F56_F1.4310.77
109_Y113_T1.4310.77
631_T639_P1.4310.77
622_G633_G1.4240.76
112_P129_G1.4200.76
441_V599_R1.4010.75
104_F118_C1.3870.74
567_S594_H1.3860.74
67_C70_C1.3820.73
37_H67_C1.3820.73
118_C121_L1.3770.73
645_I650_Q1.3760.73
530_E534_G1.3730.73
104_F115_C1.3680.72
140_H152_G1.3670.72
528_L565_A1.3580.71
119_G122_L1.3570.71
115_C132_C1.3540.71
414_Y477_I1.3530.71
417_M424_D1.3520.71
60_F63_Q1.3440.70
50_C70_C1.3360.70
118_C122_L1.3340.69
143_C152_G1.3340.69
567_S571_G1.3270.69
618_V623_A1.3220.68
345_L351_G1.3200.68
49_F63_Q1.3190.68
645_I649_D1.3140.68
67_C86_C1.3120.68
90_D94_D1.3080.67
345_L348_G1.3070.67
52_H81_F1.3010.67
339_F351_G1.3000.67
424_D467_D1.2970.66
339_F348_G1.2940.66
64_G102_H1.2920.66
445_A605_L1.2920.66
625_N630_F1.2910.66
39_F50_C1.2910.66
627_D630_F1.2830.65
90_D93_P1.2830.65
102_H117_H1.2820.65
104_F122_L1.2790.65
428_H461_Y1.2720.64
50_C78_C1.2710.64
346_G350_F1.2700.64
418_E478_K1.2700.64
117_H122_L1.2670.64
524_Y555_V1.2660.64
67_C78_C1.2660.64
417_M426_M1.2630.63
118_C140_H1.2620.63
512_Y547_F1.2600.63
54_T57_I1.2570.63
119_G132_C1.2570.63
32_H41_A1.2540.62
113_T129_G1.2530.62
123_Y126_I1.2500.62
357_D467_D1.2480.62
49_F58_W1.2450.62
650_Q656_F1.2450.62
484_M503_D1.2440.62
650_Q655_G1.2440.62
104_F119_G1.2440.62
113_T124_G1.2400.61
447_I459_I1.2360.61
626_F630_F1.2340.61
486_K499_C1.2320.60
40_I44_F1.2310.60
568_V591_V1.2280.60
518_S583_C1.2270.60
511_A548_Q1.2260.60
143_C147_V1.2240.60
114_F117_H1.2220.59
44_F51_S1.2130.59
115_C122_L1.2080.58
113_T128_Q1.2040.58
651_S654_E1.2020.58
114_F119_G1.2010.57
42_R46_Q1.2010.57
44_F64_G1.1960.57
366_A387_E1.1960.57
51_S56_F1.1950.57
653_F657_S1.1920.57
501_T522_W1.1900.56
368_K387_E1.1900.56
339_F346_G1.1890.56
59_G63_Q1.1890.56
48_T58_W1.1890.56
105_K111_S1.1880.56
109_Y120_S1.1870.56
135_C147_V1.1860.56
624_E644_V1.1830.56
22_R26_L1.1830.56
596_F602_W1.1820.56
440_A528_L1.1800.55
147_V152_G1.1780.55
102_H119_G1.1770.55
140_H147_V1.1770.55
115_C135_C1.1760.55
600_I604_K1.1750.55
47_P53_C1.1720.55
118_C135_C1.1710.55
209_K212_T1.1690.54
48_T59_G1.1680.54
53_C78_C1.1680.54
67_C75_H1.1670.54
115_C124_G1.1670.54
650_Q657_S1.1670.54
109_Y124_G1.1660.54
301_L304_K1.1650.54
118_C143_C1.1650.54
121_L132_C1.1600.54
59_G67_C1.1590.53
109_Y128_Q1.1580.53
109_Y114_F1.1580.53
586_E589_R1.1550.53
49_F59_G1.1520.53
114_F118_C1.1500.53
147_V151_C1.1480.52
53_C56_F1.1470.52
482_F504_Y1.1470.52
31_V44_F1.1470.52
426_M429_I1.1460.52
644_V651_S1.1450.52
112_P117_H1.1450.52
388_K406_C1.1440.52
660_N663_F1.1440.52
511_A551_M1.1430.52
645_I653_F1.1430.52
523_A555_V1.1430.52
109_Y138_N1.1420.52
167_E171_E1.1400.52
378_D484_M1.1390.52
536_P539_D1.1390.52
121_L129_G1.1390.52
112_P128_Q1.1360.51
533_A566_V1.1340.51
414_Y633_G1.1290.51
644_V649_D1.1290.51
143_C148_P1.1260.50
465_K481_D1.1250.50
280_Q289_P1.1250.50
497_T515_Y1.1250.50
132_C135_C1.1240.50
631_T638_T1.1230.50
33_E38_K1.1230.50
104_F121_L1.1200.50
418_E424_D1.1200.50
398_P408_Q1.1200.50
34_V41_A1.1180.49
50_C86_C1.1180.49
104_F132_C1.1150.49
115_C143_C1.1150.49
375_V549_S1.1140.49
122_L132_C1.1140.49
390_V513_Q1.1140.49
428_H536_P1.1130.49
114_F124_G1.1130.49
452_F530_E1.1130.49
109_Y122_L1.1120.49
102_H135_C1.1120.49
47_P59_G1.1110.49
48_T53_C1.1110.49
459_I551_M1.1060.48
346_G352_K1.1050.48
56_F65_F1.1030.48
297_G300_E1.1020.48
472_D482_F1.1000.48
118_C151_C1.0990.48
343_M386_V1.0990.48
43_F56_F1.0960.47
443_Y446_E1.0940.47
27_R44_F1.0930.47
109_Y112_P1.0910.47
118_C124_G1.0890.47
27_R33_E1.0890.47
87_P123_Y1.0870.46
115_C121_L1.0870.46
157_E160_G1.0850.46
30_N33_E1.0840.46
618_V636_V1.0830.46
546_L608_R1.0820.46
124_G132_C1.0810.46
465_K468_N1.0810.46
357_D379_D1.0810.46
447_I457_R1.0800.46
104_F109_Y1.0790.46
38_K57_I1.0780.46
43_F49_F1.0770.45
114_F122_L1.0770.45
461_Y486_K1.0740.45
132_C143_C1.0720.45
59_G64_G1.0700.45
644_V650_Q1.0700.45
114_F123_Y1.0700.45
42_R66_Q1.0680.45
642_Q646_A1.0660.44
281_E284_E1.0640.44
47_P63_Q1.0630.44
43_F62_K1.0610.44
112_P120_S1.0590.44
109_Y121_L1.0580.44
118_C128_Q1.0580.44
46_Q58_W1.0550.43
489_M492_G1.0540.43
353_V368_K1.0540.43
115_C140_H1.0530.43
548_Q552_E1.0530.43
117_H132_C1.0530.43
36_D65_F1.0530.43
498_F527_L1.0520.43
602_W614_F1.0500.43
522_W538_F1.0500.43
353_V366_A1.0500.43
102_H121_L1.0500.43
548_Q551_M1.0500.43
513_Q634_Q1.0500.43
36_D83_T1.0490.43
565_A601_D1.0490.43
434_K438_P1.0490.43
83_T87_P1.0470.43
148_P151_C1.0470.43
102_H124_G1.0460.43
437_E575_K1.0440.42
186_M190_G1.0430.42
380_D383_C1.0430.42
193_D199_K1.0430.42
643_L646_A1.0430.42
41_A46_Q1.0420.42
104_F124_G1.0420.42
401_T544_D1.0410.42
170_D174_H1.0400.42
135_C139_V1.0390.42
117_H121_L1.0380.42
139_V143_C1.0380.42
116_D120_S1.0380.42
323_D326_Q1.0360.42
642_Q649_D1.0350.41
379_D467_D1.0340.41
299_M306_E1.0310.41
122_L128_Q1.0300.41
629_F633_G1.0290.41
530_E592_R1.0290.41
28_Q93_P1.0280.41
48_T63_Q1.0280.41
115_C151_C1.0280.41
47_P64_G1.0270.41
300_E306_E1.0270.41
102_H140_H1.0270.41
101_K132_C1.0260.41
135_C148_P1.0240.40
340_N419_Y1.0240.40
632_R640_P1.0240.40
301_L306_E1.0220.40
390_V604_K1.0210.40
125_L128_Q1.0200.40
430_Q497_T1.0200.40
436_K441_V1.0190.40
370_L408_Q1.0190.40
34_V79_H1.0170.40
150_L155_H1.0150.40
423_G455_H1.0150.40
112_P118_C1.0150.40
474_E511_A1.0140.39
69_V79_H1.0120.39
386_V487_E1.0120.39
37_H70_C1.0120.39
658_Y661_P1.0110.39
52_H57_I1.0100.39
416_V565_A1.0090.39
534_G565_A1.0080.39
353_V387_E1.0070.39
132_C140_H1.0070.39
45_K48_T1.0060.39
467_D627_D1.0060.39
417_M429_I1.0020.38
425_L428_H1.0020.38
66_Q85_S1.0020.38
71_C93_P1.0010.38
44_F53_C1.0010.38
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  
3pfqA10.77381000.319Contact Map
2i0eA20.48511000.557Contact Map
4gv1A10.48071000.577Contact Map
3txoA10.46881000.581Contact Map
1xjdA10.41671000.582Contact Map
4dc2A10.48071000.582Contact Map
2r5tA10.42261000.584Contact Map
3a8xA20.49261000.587Contact Map
4aw2A10.57291000.59Contact Map
4lqsA10.52081000.596Contact 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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