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cMyBP-C_1

ID: 1500502126 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 970 (784)
Sequences: 18466 (8796.5)
Seq/Len: 23.554
Nf(neff/√len): 314.2

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: 23.554).

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
619_G622_C4.1421.00
478_E481_A3.4491.00
569_D572_V3.4341.00
670_V750_V3.4141.00
674_G678_P3.4111.00
555_V605_V3.4071.00
464_V516_A3.3711.00
565_C615_F3.2281.00
577_L616_V3.1031.00
588_R609_D2.9911.00
474_C526_L2.9521.00
754_N757_G2.9211.00
387_A391_A2.7441.00
487_K524_Y2.6871.00
470_V537_L2.6701.00
486_L527_C2.6331.00
396_L436_V2.6271.00
384_V435_C2.6121.00
380_I446_L2.5591.00
753_K758_E2.5551.00
179_G186_P2.4851.00
374_V425_C2.4581.00
723_R744_D2.3951.00
562_V601_T2.3861.00
683_Q751_T2.3761.00
849_N852_G2.3371.00
499_K520_D2.3311.00
578_K613_Y2.2741.00
171_I253_L2.2681.00
666_L765_V2.2651.00
684_K689_G2.2481.00
808_E844_R2.2251.00
471_E512_I2.1931.00
556_G559_D2.1881.00
439_G442_C2.1531.00
465_M468_Q2.1481.00
660_V740_A2.1221.00
577_L582_E2.0781.00
908_C940_L2.0681.00
395_W420_L2.0341.00
472_F537_L2.0241.00
906_E942_R2.0201.00
397_K433_Y2.0151.00
487_K520_D2.0141.00
810_K842_E1.9981.00
557_A607_P1.9871.00
555_V561_A1.9851.00
749_T760_Q1.9771.00
560_Q603_D1.9231.00
381_R421_T1.9181.00
486_L491_E1.9171.00
749_T762_N1.9021.00
902_G946_H1.8831.00
466_V518_L1.8811.00
564_K599_K1.8721.00
173_F253_L1.8671.00
396_L401_E1.8521.00
667_R736_T1.8511.00
469_R515_E1.8471.00
408_K429_D1.8381.00
575_V616_V1.8331.00
396_L434_Q1.8251.00
684_K746_G1.8121.00
181_S184_K1.7991.00
578_K611_A1.7991.00
905_V943_V1.7911.00
382_L446_L1.7841.00
434_Q443_S1.7831.00
661_V664_N1.7771.00
672_I752_V1.7761.00
374_V380_I1.7751.00
577_L614_S1.7751.00
846_Y856_P1.7721.00
469_R514_N1.7711.00
578_K609_D1.7641.00
397_K429_D1.7631.00
747_V762_N1.7531.00
579_N583_L1.7321.00
562_V599_K1.7111.00
672_I680_V1.7071.00
464_V470_V1.6981.00
473_E510_H1.6891.00
242_T245_K1.6851.00
488_D492_L1.6791.00
881_S884_T1.6771.00
751_T760_Q1.6771.00
804_G848_V1.6711.00
576_W600_L1.6711.00
783_G786_S1.6621.00
375_S378_H1.6551.00
429_D433_Y1.6441.00
665_K738_E1.6341.00
165_V228_A1.6321.00
469_R512_I1.6281.00
560_Q601_T1.6261.00
737_V744_D1.6221.00
848_V853_M1.6171.00
470_V516_A1.6141.00
523_H536_E1.6081.00
579_N614_S1.6071.00
397_K431_A1.6061.00
487_K522_G1.6011.00
476_V483_V1.6011.00
689_G692_A1.6001.00
787_C791_W1.5881.00
575_V582_E1.5851.00
745_E767_V1.5831.00
486_L525_A1.5801.00
944_R954_P1.5721.00
530_G533_A1.5711.00
191_F239_E1.5681.00
563_F613_Y1.5661.00
471_E510_H1.5641.00
394_K436_V1.5611.00
561_A628_L1.5561.00
565_C670_V1.5511.00
930_V941_F1.5451.00
175_A238_C1.5381.00
660_V666_L1.5351.00
484_K491_E1.5331.00
485_W511_L1.5281.00
787_C843_M1.5261.00
520_D524_Y1.5191.00
525_A534_L1.5191.00
567_V574_G1.5121.00
817_W844_R1.5111.00
560_Q604_D1.5101.00
944_R952_G1.5031.00
567_V617_P1.5021.00
379_K424_Q1.4981.00
84_S87_V1.4951.00
947_N950_G1.4941.00
394_K401_E1.4941.00
684_K748_Y1.4931.00
832_A835_M1.4901.00
832_A843_M1.4811.00
874_H890_R1.4801.00
462_Q470_V1.4771.00
683_Q749_T1.4681.00
488_D525_A1.4681.00
546_V550_I1.4651.00
682_W735_F1.4541.00
513_I516_A1.4521.00
563_F576_W1.4371.00
484_K527_C1.4371.00
20_V70_V1.4321.00
684_K744_D1.4311.00
383_T419_T1.4221.00
438_G442_C1.4211.00
602_I609_D1.4201.00
53_K74_D1.4191.00
33_E37_V1.4151.00
391_A437_V1.4141.00
892_P900_L1.4131.00
30_A80_V1.4081.00
376_K427_L1.4040.99
777_P789_V1.3960.99
628_L633_V1.3810.99
746_G750_V1.3790.99
379_K421_T1.3710.99
386_L437_V1.3690.99
841_Y845_V1.3640.99
561_A605_V1.3630.99
523_H534_L1.3580.99
563_F628_L1.3560.99
909_P934_P1.3550.99
763_L767_V1.3540.99
228_A233_T1.3510.99
885_V941_F1.3500.99
747_V764_T1.3450.99
472_F524_Y1.3420.99
172_T224_H1.3410.99
432_A445_E1.3410.99
521_A524_Y1.3340.99
846_Y853_M1.3340.99
609_D613_Y1.3270.99
474_C565_C1.3260.99
381_R419_T1.3250.99
626_A629_H1.3240.99
744_D748_Y1.3230.99
432_A443_S1.3190.99
668_L682_W1.3110.99
751_T758_E1.3100.99
386_L393_V1.3080.99
561_A602_I1.3060.99
380_I425_C1.3010.99
546_V549_S1.2950.99
944_R951_P1.2930.99
946_H951_P1.2890.99
667_R734_I1.2850.99
776_A792_E1.2850.99
28_F91_L1.2770.99
398_N402_I1.2770.99
668_L765_V1.2760.99
488_D491_E1.2740.99
887_L941_F1.2730.99
513_I520_D1.2700.99
807_L845_V1.2660.99
630_F633_V1.2620.99
237_R250_N1.2590.99
886_S929_L1.2530.99
430_D433_Y1.2530.99
379_K423_S1.2500.99
481_A528_T1.2490.99
906_E944_R1.2470.99
740_A746_G1.2440.98
675_D678_P1.2400.98
393_V437_V1.2310.98
602_I605_V1.2300.98
476_V481_A1.2200.98
438_G441_K1.2200.98
666_L737_V1.2190.98
179_G242_T1.2150.98
789_V843_M1.2130.98
794_P805_Y1.2110.98
644_P757_G1.2100.98
399_G434_Q1.2080.98
455_I459_L1.2080.98
470_V513_I1.2080.98
535_A539_V1.2070.98
553_L561_A1.2010.98
160_P249_S1.1990.98
806_I848_V1.1980.98
674_G677_A1.1940.98
680_V752_V1.1900.98
589_I602_I1.1890.98
472_F485_W1.1880.98
384_V474_C1.1880.98
915_W942_R1.1870.98
177_V188_V1.1870.98
740_A745_E1.1860.98
626_A630_F1.1850.98
422_I425_C1.1840.98
26_A91_L1.1790.98
241_S246_F1.1780.98
165_V171_I1.1770.98
846_Y854_S1.1740.98
516_A539_V1.1730.98
380_I422_I1.1730.98
425_C429_D1.1660.97
192_K236_Y1.1650.97
666_L740_A1.1640.97
646_I759_D1.1640.97
388_D391_A1.1630.97
393_V418_R1.1580.97
907_Y930_V1.1570.97
398_N434_Q1.1570.97
905_V928_I1.1560.97
408_K411_F1.1530.97
189_K239_E1.1480.97
847_A854_S1.1470.97
605_V610_E1.1460.97
454_L458_P1.1380.97
386_L391_A1.1370.97
574_G598_H1.1330.97
232_F236_Y1.1310.97
579_N582_E1.1310.97
235_S250_N1.1300.97
393_V435_C1.1290.97
681_I751_T1.1250.97
177_V240_V1.1250.97
382_L444_T1.1240.97
489_G525_A1.1220.97
612_D627_K1.1200.96
605_V613_Y1.1190.96
892_P903_Y1.1190.96
808_E846_Y1.1180.96
674_G754_N1.1180.96
472_F535_A1.1170.96
435_C526_L1.1170.96
742_K745_E1.1150.96
590_K603_D1.1140.96
891_P903_Y1.1130.96
225_I232_F1.1120.96
186_P242_T1.1100.96
483_V526_L1.1090.96
425_C431_A1.1080.96
847_A852_G1.1070.96
904_S946_H1.1060.96
883_T935_T1.1050.96
681_I753_K1.1040.96
628_L631_M1.1020.96
955_V958_T1.0990.96
427_L430_D1.0940.96
422_I429_D1.0920.96
772_D854_S1.0890.96
487_K490_V1.0890.96
870_S952_G1.0880.96
186_P240_V1.0870.96
930_V933_L1.0820.96
607_P610_E1.0820.96
618_E623_N1.0810.95
857_S860_S1.0810.95
876_A888_K1.0810.95
669_D734_I1.0800.95
737_V740_A1.0800.95
179_G184_K1.0790.95
454_L476_V1.0770.95
791_W807_L1.0760.95
783_G787_C1.0750.95
518_L541_E1.0740.95
875_L887_L1.0730.95
541_E569_D1.0680.95
83_G87_V1.0660.95
173_F251_F1.0650.95
435_C615_F1.0610.95
174_S222_E1.0590.95
469_R516_A1.0570.95
456_T475_E1.0560.95
575_V618_E1.0550.95
191_F237_R1.0550.95
779_I787_C1.0530.95
567_V572_V1.0520.95
43_R74_D1.0490.94
839_V843_M1.0490.94
779_I785_D1.0470.94
27_V66_T1.0470.94
617_P622_C1.0450.94
382_L395_W1.0440.94
506_G509_H1.0420.94
239_E248_C1.0410.94
578_K581_K1.0410.94
163_G171_I1.0400.94
665_K736_T1.0390.94
379_K425_C1.0390.94
808_E856_P1.0380.94
476_V528_T1.0350.94
778_K792_E1.0340.94
516_A522_G1.0330.94
425_C448_V1.0330.94
904_S951_P1.0330.94
835_M843_M1.0300.94
516_A537_L1.0300.94
483_V509_H1.0270.94
171_I225_I1.0270.94
398_N431_A1.0260.94
420_L429_D1.0260.94
735_F744_D1.0250.93
909_P937_A1.0240.93
474_C670_V1.0240.93
463_L540_Q1.0230.93
680_V733_S1.0220.93
615_F750_V1.0210.93
660_V664_N1.0210.93
194_K203_G1.0170.93
899_G947_N1.0150.93
910_E940_L1.0140.93
191_F205_H1.0120.93
615_F622_C1.0120.93
37_V82_A1.0110.93
842_E859_A1.0070.93
854_S857_S1.0060.93
807_L830_H1.0060.93
595_G598_H1.0050.93
490_V493_T1.0050.93
901_D948_M1.0030.93
521_A539_V1.0030.93
610_E613_Y1.0020.92
845_V854_S1.0020.92
752_V759_D1.0010.92
906_E954_P1.0000.92
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  
3b43A10.57421000.456Contact Map
3dmkA30.65051000.536Contact Map
1e07A10.61551000.541Contact Map
3v2aR10.18561000.568Contact Map
4pbxA10.55261000.578Contact Map
4yh7A101000.584Contact Map
4liqE10.45671000.629Contact Map
2rcjC100.47421000.632Contact Map
2ocwA10.50311000.634Contact Map
3qs9E40.40211000.638Contact 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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