1YOE | Genus

Total Genus 99

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	99
sequence length	312
structure length	302
Chain Sequence	GSALPILLDCDPGHDDAIAIVLALASPELDVKAITSSAGNQTPEKTLRNVLRMLTLLNRTDIPVAGGAVKPLMRELIIAESGLDGPALPEPTFAPQNCTAVELMAKTLRESAEPVTIVSTGPQTNVALLLNSHPELHSKIARIVIMGGAMGLGNWTPAAEFNIYVDPEAAEIVFQSGIPVVMAGLDVTHKAQIHVEDTERFRAIGNPVSTIVAELLDFFLEKWGFVGAPLHDPCTIAWLLKPELFTSVERWVGVETQGKYTQGMTVVDYYYLTGNKPNATVMVDVDRQGFVDLLADRLKFYA

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 302 atoms

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302 atoms created

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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 E. coli pyrimidine nucleoside hydrolase YbeK with bound ribose rcsb
molecule keywords	Hypothetical protein ybeK
molecule tags	Hydrolase
source organism	Escherichia coli
total genus	99
structure length	302
sequence length	312
ec nomenclature	ec 3.2.2.8: Ribosylpyrimidine nucleosidase.
pdb deposition date	2005-01-27

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF01156	IU_nuc_hydro	Inosine-uridine preferring nucleoside hydrolase

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

cath code	Class	Architecture	Topology	Homology	Domain
3.90.245.10	Alpha Beta	Alpha-Beta Complex	Inosine-uridine Nucleoside N-ribohydrolase; Chain A	Ribonucleoside hydrolase-like	1yoeA00

2FF2A 2FF1A 4I73A 3EPWA 4I71A 2YHGA 3T8JA 1Q8FA 2C40A 1R4FA 3T8IA 3FZ0A 4I74A 3MKNA 4WR2A 1KIEA 1YOEA 4I70A 2MASA 1HP0A 4KL0A 3G5IA 1HOZA 4I75A 1KICA 3EPXA 4KPNA 4KPOA 1EZRA 3B9XA 5TSQA 4P5FA 4I72A 3B9GA 1MASA 3MKMA
chains in the Genus database with same CATH superfamily

#chains in the Genus database with same CATH superfamily
 2FF2 A;  2FF1 A;  4I73 A;  3EPW A;  4I71 A;  2YHG A;  3T8J A;  1Q8F A;  2C40 A;  1R4F A;  3T8I A;  3FZ0 A;  4I74 A;  3MKN A;  4WR2 A;  1KIE A;  1YOE A;  4I70 A;  2MAS A;  1HP0 A;  4KL0 A;  3G5I A;  1HOZ A;  4I75 A;  1KIC A;  3EPX A;  4KPN A;  4KPO A;  1EZR A;  3B9X A;  5TSQ A;  4P5F A;  4I72 A;  3B9G A;  1MAS A;  3MKM A; 
#chains in the Genus database with same CATH topology
 2FF2 A;  2FF1 A;  4I73 A;  3EPW A;  4I71 A;  2YHG A;  3T8J A;  1Q8F A;  2C40 A;  1R4F A;  3T8I A;  3FZ0 A;  4I74 A;  3MKN A;  4WR2 A;  1KIE A;  1YOE A;  4I70 A;  2MAS A;  1HP0 A;  4KL0 A;  3G5I A;  1HOZ A;  4I75 A;  1KIC A;  3EPX A;  4KPN A;  4KPO A;  1EZR A;  3B9X A;  5TSQ A;  4P5F A;  4I72 A;  3B9G A;  1MAS A;  3MKM A; 
#chains in the Genus database with same CATH homology
 2FF2 A;  2FF1 A;  4I73 A;  3EPW A;  4I71 A;  2YHG A;  3T8J A;  1Q8F A;  2C40 A;  1R4F A;  3T8I A;  3FZ0 A;  4I74 A;  3MKN A;  4WR2 A;  1KIE A;  1YOE A;  4I70 A;  2MAS A;  1HP0 A;  4KL0 A;  3G5I A;  1HOZ A;  4I75 A;  1KIC A;  3EPX A;  4KPN A;  4KPO A;  1EZR A;  3B9X A;  5TSQ A;  4P5F A;  4I72 A;  3B9G A;  1MAS A;  3MKM A;

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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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1YOEA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations