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OPENSEQ.org

PKC mix

ID: 1497563303 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 672 (650)
Sequences: 940 (635.4)
Seq/Len: 1.446
Nf(neff/√len): 24.9

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: 1.446).

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_I2.3290.99
605_L610_I2.1980.99
135_C140_H2.1410.99
143_C151_C2.0840.98
452_F592_R2.0570.98
381_V384_T2.0010.98
140_H143_C1.9290.97
140_H151_C1.9120.97
445_A600_I1.8880.97
447_I469_V1.8730.96
135_C143_C1.8350.96
446_E476_H1.7980.95
135_C151_C1.7240.94
118_C132_C1.7060.93
653_F656_F1.7000.93
165_K169_A1.6900.93
50_C53_C1.6730.92
437_E562_S1.6430.91
22_R25_A1.6360.91
102_H132_C1.6270.91
344_V352_K1.6250.91
124_G129_G1.6210.91
121_L129_G1.5830.89
70_C78_C1.5720.89
105_K111_S1.5720.89
470_M479_I1.5640.88
115_C118_C1.5610.88
346_G351_G1.5600.88
70_C86_C1.5490.88
70_C75_H1.5470.88
37_H53_C1.5430.87
651_S654_E1.5320.87
159_R162_I1.5280.87
163_Y166_A1.5250.87
53_C67_C1.5160.86
389_R487_E1.5140.86
135_C152_G1.5040.86
104_F117_H1.5010.85
50_C67_C1.4950.85
601_D604_K1.4840.85
93_P96_D1.4750.84
650_Q653_F1.4750.84
604_K609_E1.4600.83
37_H50_C1.4590.83
90_D94_D1.4570.83
109_Y113_T1.4560.83
102_H118_C1.4430.82
78_C86_C1.4370.82
64_G67_C1.4340.82
528_L565_A1.4300.81
143_C152_G1.4280.81
140_H152_G1.4170.81
75_H86_C1.4150.81
104_F118_C1.4090.80
112_P129_G1.4060.80
115_C119_G1.3970.79
645_I650_Q1.3930.79
650_Q655_G1.3920.79
90_D93_P1.3880.79
356_A367_I1.3880.79
441_V599_R1.3820.78
44_F56_F1.3810.78
104_F115_C1.3750.78
74_V79_H1.3740.78
448_S452_F1.3690.77
75_H78_C1.3610.77
115_C132_C1.3480.76
348_G351_G1.3400.75
67_C70_C1.3400.75
102_H115_C1.3390.75
650_Q656_F1.3360.75
102_H117_H1.3320.75
119_G122_L1.3310.75
567_S594_H1.3310.75
52_H81_F1.3190.74
169_A172_K1.3180.74
124_G128_Q1.3170.73
39_F53_C1.3170.73
109_Y120_S1.3140.73
37_H67_C1.3110.73
117_H122_L1.3020.72
530_E534_G1.2980.72
622_G633_G1.2980.72
112_P124_G1.2960.72
160_G163_Y1.2910.71
118_C122_L1.2870.71
624_E629_F1.2860.71
512_Y547_F1.2860.71
44_F64_G1.2850.71
104_F122_L1.2840.71
418_E478_K1.2790.70
524_Y555_V1.2700.70
32_H41_A1.2680.69
104_F119_G1.2650.69
119_G132_C1.2640.69
161_R165_K1.2640.69
297_G300_E1.2640.69
50_C70_C1.2620.69
112_P120_S1.2580.69
158_K162_I1.2570.68
281_E284_E1.2550.68
143_C147_V1.2550.68
158_K161_R1.2490.68
166_A169_A1.2490.68
43_F62_K1.2470.68
163_Y168_V1.2460.67
42_R46_Q1.2450.67
34_V41_A1.2410.67
624_E633_G1.2380.67
89_A93_P1.2380.67
118_C121_L1.2320.66
67_C86_C1.2270.66
209_K212_T1.2250.66
323_D326_Q1.2230.65
345_L351_G1.2220.65
135_C147_V1.2220.65
147_V152_G1.2200.65
417_M424_D1.2180.65
339_F351_G1.2170.65
631_T639_P1.2120.64
170_D173_L1.2110.64
586_E589_R1.2110.64
186_M190_G1.2090.64
345_L348_G1.2070.64
644_V651_S1.2060.64
357_D467_D1.2050.64
67_C78_C1.2020.63
339_F348_G1.2020.63
50_C78_C1.2010.63
164_L168_V1.1990.63
118_C140_H1.1940.63
567_S571_G1.1870.62
39_F50_C1.1860.62
644_V649_D1.1860.62
346_G350_F1.1850.62
114_F117_H1.1850.62
221_P224_N1.1840.62
54_T57_I1.1840.62
49_F63_Q1.1830.62
568_V591_V1.1820.61
645_I649_D1.1820.61
414_Y477_I1.1780.61
165_K170_D1.1780.61
600_I604_K1.1780.61
114_F119_G1.1770.61
484_M503_D1.1770.61
49_F58_W1.1710.60
428_H461_Y1.1700.60
486_K499_C1.1670.60
104_F132_C1.1660.60
627_D630_F1.1650.60
391_L454_L1.1650.60
168_V171_E1.1650.60
596_F602_W1.1640.60
90_D95_T1.1630.60
447_I459_I1.1630.60
424_D467_D1.1620.60
59_G64_G1.1620.60
123_Y126_I1.1610.59
30_N394_L1.1600.59
147_V151_C1.1570.59
653_F657_S1.1540.59
611_Q615_K1.1530.59
620_G628_K1.1530.59
650_Q657_S1.1530.59
115_C122_L1.1530.59
140_H147_V1.1530.59
533_A566_V1.1530.59
150_L155_H1.1520.59
645_I653_F1.1520.59
625_N630_F1.1510.58
59_G67_C1.1480.58
40_I44_F1.1450.58
220_N223_W1.1420.58
168_V172_K1.1400.57
102_H135_C1.1400.57
102_H119_G1.1370.57
163_Y170_D1.1370.57
106_I130_M1.1360.57
167_E171_E1.1340.57
38_K57_I1.1320.57
511_A548_Q1.1320.57
225_E228_T1.1300.56
239_R245_W1.1300.56
586_E593_E1.1270.56
368_K387_E1.1260.56
59_G63_Q1.1260.56
109_Y114_F1.1240.56
135_C139_V1.1240.56
109_Y112_P1.1240.56
511_A551_M1.1210.55
118_C143_C1.1200.55
339_F346_G1.1190.55
162_I165_K1.1180.55
53_C78_C1.1170.55
417_M426_M1.1170.55
452_F530_E1.1170.55
30_N392_A1.1160.55
278_L289_P1.1150.55
426_M429_I1.1150.55
113_T129_G1.1120.54
114_F123_Y1.1120.54
301_L304_K1.1110.54
366_A387_E1.1100.54
67_C75_H1.1090.54
220_N224_N1.1080.54
114_F118_C1.1070.54
132_C143_C1.1060.54
44_F51_S1.1050.54
589_R593_E1.1020.53
143_C148_P1.1010.53
22_R26_L1.0980.53
170_D174_H1.0970.53
626_F630_F1.0960.53
165_K168_V1.0950.53
646_A660_N1.0950.53
51_S72_F1.0940.53
117_H132_C1.0930.53
513_Q634_Q1.0930.53
644_V650_Q1.0920.52
132_C135_C1.0910.52
41_A62_K1.0880.52
118_C135_C1.0880.52
314_G317_V1.0870.52
546_L608_R1.0870.52
357_D379_D1.0830.52
51_S56_F1.0830.52
164_L167_E1.0820.51
459_I551_M1.0820.51
115_C135_C1.0790.51
489_M492_G1.0790.51
53_C56_F1.0780.51
300_E305_F1.0770.51
90_D96_D1.0760.51
139_V144_V1.0760.51
398_P408_Q1.0760.51
101_K104_F1.0730.51
588_E592_R1.0690.50
465_K481_D1.0680.50
445_A605_L1.0660.50
193_D199_K1.0660.50
148_P151_C1.0660.50
64_G102_H1.0650.50
56_F65_F1.0630.49
501_T522_W1.0630.49
87_P123_Y1.0630.49
101_K132_C1.0620.49
530_E592_R1.0600.49
518_S583_C1.0600.49
118_C151_C1.0580.49
187_D190_G1.0580.49
109_Y128_Q1.0560.49
112_P128_Q1.0560.49
482_F504_Y1.0560.49
375_V549_S1.0550.49
428_H536_P1.0550.49
113_T124_G1.0540.49
386_V487_E1.0540.49
47_P53_C1.0540.49
392_A395_D1.0510.48
112_P117_H1.0510.48
92_G96_D1.0490.48
115_C143_C1.0490.48
89_A95_T1.0490.48
104_F121_L1.0490.48
346_G352_K1.0480.48
36_D65_F1.0470.48
108_T619_C1.0460.48
66_Q85_S1.0450.48
647_N651_S1.0440.48
378_D484_M1.0430.47
534_G633_G1.0420.47
102_H122_L1.0410.47
135_C148_P1.0410.47
30_N164_L1.0390.47
602_W614_F1.0390.47
222_Q225_E1.0380.47
167_E170_D1.0380.47
161_R169_A1.0370.47
164_L171_E1.0370.47
114_F122_L1.0340.47
109_Y122_L1.0340.47
160_G164_L1.0340.47
46_Q61_G1.0330.46
185_P188_P1.0320.46
171_E175_V1.0320.46
425_L428_H1.0310.46
91_K94_D1.0300.46
440_A528_L1.0300.46
278_L283_G1.0300.46
35_K41_A1.0290.46
28_Q514_P1.0290.46
36_D83_T1.0250.46
231_L238_R1.0230.45
646_A649_D1.0220.45
461_Y486_K1.0220.45
465_K468_N1.0220.45
115_C124_G1.0200.45
624_E644_V1.0200.45
149_S154_D1.0200.45
433_G514_P1.0200.45
536_P539_D1.0190.45
620_G629_F1.0190.45
102_H140_H1.0190.45
511_A575_K1.0180.45
418_E424_D1.0170.45
107_H124_G1.0170.45
48_T58_W1.0170.45
618_V623_A1.0160.45
565_A601_D1.0130.44
166_A173_L1.0130.44
41_A46_Q1.0130.44
48_T53_C1.0120.44
31_V44_F1.0120.44
115_C140_H1.0110.44
340_N419_Y1.0100.44
251_T254_D1.0100.44
443_Y446_E1.0100.44
34_V68_Q1.0080.44
159_R165_K1.0080.44
50_C86_C1.0080.44
113_T128_Q1.0060.44
436_K441_V1.0040.43
62_K76_K1.0020.43
47_P59_G1.0020.43
178_R181_K1.0020.43
122_L132_C1.0020.43
243_E246_D1.0020.43
164_L172_K1.0010.43
109_Y138_N1.0010.43
497_T515_Y1.0010.43
380_D383_C1.0010.43
48_T63_Q1.0000.43
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  
3pfqA10.77381000.323Contact Map
2i0eA20.48511000.557Contact Map
4gv1A10.48211000.578Contact Map
4dc2A10.48071000.58Contact Map
3txoA10.46881000.581Contact Map
1xjdA10.41671000.581Contact Map
2r5tA10.42261000.584Contact Map
3a8xA20.49261000.587Contact Map
4aw2A10.57291000.591Contact Map
4lqsA10.52081000.597Contact 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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