4RGD | Genus

Total Genus 26

The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.

Total Genus	26
sequence length	70
structure length	70
Chain Sequence	MAKEFGIPAAVAKTVLNVVEAGGWVTTIVSILTAVGSGGKSLLAAAGRESIKAYLKKEIKKKGKRAVIAW

The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.

Structure visualization

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The Resolver thinks Pdb

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reading 70 atoms

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After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Genus data interpretation

Chord Diagram

molecule tags	Antibiotic
source organism	Enterococcus faecalis
publication title	The bacteriocin AS-48 requires dimer dissociation followed by hydrophobic interactions with the membrane for antibacterial activity. pubmed doi rcsb
molecule keywords	Bacteriocin AS-48
total genus	26
structure length	70
sequence length	70
chains with identical sequence	B
ec nomenclature
pdb deposition date	2014-09-29

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF09221	Bacteriocin_IId	Bacteriocin class IId cyclical uberolysin-like

Image from the rcsb pdb (www.rcsb.org)

cath code	Class	Architecture	Topology	Homology	Domain
1.20.225.10	Mainly Alpha	Up-down Bundle	Bacteriocin As-48; Chain A	Bacteriocin AS-48	4rgdA00

1O83A 2MP8A 2KJFA 4RGDA 1O82A 1O84A 1E68A
chains in the Genus database with same CATH superfamily

1O83A 2MP8A 3W9ZA 2KJFA 4BFAA 4YCPA 4RGDA 4BF9A 1O82A 4YCOA 1O84A 1E68A 2KSNA
chains in the Genus database with same CATH topology

1O83A 2MP8A 2KJFA 4RGDA 1O82A 1O84A 1E68A
chains in the Genus database with same CATH homology

#chains in the Genus database with same CATH superfamily
 1O83 A;  2MP8 A;  2KJF A;  4RGD A;  1O82 A;  1O84 A;  1E68 A; 
#chains in the Genus database with same CATH topology
 1O83 A;  2MP8 A;  3W9Z A;  2KJF A;  4BFA A;  4YCP A;  4RGD A;  4BF9 A;  1O82 A;  4YCO A;  1O84 A;  1E68 A;  2KSN A; 
#chains in the Genus database with same CATH homology
 1O83 A;  2MP8 A;  2KJF A;  4RGD A;  1O82 A;  1O84 A;  1E68 A;

...loading similar chains, please wait...
similar chains in the Genus database (?% sequence similarity)

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similar chains in the pdb database (?% sequence similarity)

#similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
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#similar chains in the pdb database (?% sequence similarity)
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4RGDA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations