3TND | Genus

Total Genus 6

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	6
sequence length	68
structure length	68
Chain Sequence	HETTVFLSNRSQAVRLPKAVALPENVKRVEVIAVGRTRIITPAGETWDEWFDGHSVSTDFMDNREQPG

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 68 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

publication title	Crystal Structure of the VapBC Toxin-Antitoxin Complex from Shigella flexneri Reveals a Hetero-Octameric DNA-Binding Assembly. pubmed doi rcsb
molecule keywords	tRNA(fMet)-specific endonuclease VapC
molecule tags	Translation, toxin
source organism	Shigella flexneri
total genus	6
structure length	68
sequence length	68
chains with identical sequence	D, F, H
ec nomenclature
pdb deposition date	2011-09-01

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
B	PF04014	MazE_antitoxin	Antidote-toxin recognition MazE, bacterial antitoxin

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

cath code	Class	Architecture	Topology	Homology	Domain
2.10.260.10	Mainly Beta	Ribbon	Pemi-like Protein 1; Chain: D	Pemi-like Protein 1; Chain: D	3tndB01

5ITJA 2RO3A 2RO4A 1UB4C 3O27A 2FY9A 3TNDB 2K1NA 5ITMA 1YFBA 2L66A 2GLWA 2W1TA 2W1TB 1Z0RA 2RO5A 1MVFD 1YSFA
chains in the Genus database with same CATH superfamily

1UB4C 2FY9A 4JDOA 5ITJA 3O27A 4JDMA 2K1NA 2W1TB 5ITMA 2RO3A 3TNDB 2L66A 2W1TA 1Z0RA 2QA4I 2RO5A 1YSFA 2RO4A 1YFBA 2GLWA 1MVFD
chains in the Genus database with same CATH topology

1UB4C 2FY9A 4JDOA 5ITJA 3O27A 4JDMA 2K1NA 2W1TB 5ITMA 2RO3A 3TNDB 2L66A 2W1TA 1Z0RA 2QA4I 2RO5A 1YSFA 2RO4A 1YFBA 2GLWA 1MVFD
chains in the Genus database with same CATH homology

#chains in the Genus database with same CATH superfamily
 5ITJ A;  2RO3 A;  2RO4 A;  1UB4 C;  3O27 A;  2FY9 A;  3TND B;  2K1N A;  5ITM A;  1YFB A;  2L66 A;  2GLW A;  2W1T A;  2W1T B;  1Z0R A;  2RO5 A;  1MVF D;  1YSF A; 
#chains in the Genus database with same CATH topology
 1UB4 C;  2FY9 A;  4JDO A;  5ITJ A;  3O27 A;  4JDM A;  2K1N A;  2W1T B;  5ITM A;  2RO3 A;  3TND B;  2L66 A;  2W1T A;  1Z0R A;  2QA4 I;  2RO5 A;  1YSF A;  2RO4 A;  1YFB A;  2GLW A;  1MVF D; 
#chains in the Genus database with same CATH homology
 1UB4 C;  2FY9 A;  4JDO A;  5ITJ A;  3O27 A;  4JDM A;  2K1N A;  2W1T B;  5ITM A;  2RO3 A;  3TND B;  2L66 A;  2W1T A;  1Z0R A;  2QA4 I;  2RO5 A;  1YSF A;  2RO4 A;  1YFB A;  2GLW A;  1MVF D;

...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)
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#similar chains, but unknotted
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#similar chains in the pdb database (?% sequence similarity)
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3TNDB

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations