3P13A

Complex structure of d-ribose pyranase sa240 with d-ribose
Total Genus 42
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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
42
Knots found
sequence length
130
structure length
130
Chain Sequence
AVLNEHISKAIATIGHFDLLTINDAGMPIPNDHRRIDLAVTKNLPRFIDVLATVLEEMEIQKIYLAEEIKEHNPTQLQQIKQLISSEIEIIFIPHEEMKSNLAHPLNKGNIRTGETTPYSNIALESNVTF
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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

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

Chord Diagram
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publication title Crystal structure of Sa240: A ribose pyranase homolog with partial active site from Staphylococcus aureus
pubmed doi rcsb
source organism Staphylococcus aureus
molecule tags Isomerase
molecule keywords D-ribose pyranase
total genus 42
structure length 130
sequence length 130
chains with identical sequence B, C, D
other databases KnotProt 2.0: S +31
ec nomenclature ec 5.4.99.62: D-ribose pyranase.
pdb deposition date 2010-09-29

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF05025 RbsD_FucU RbsD / FucU transport protein family
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.40.1650.10 Alpha Beta 3-Layer(aba) Sandwich RbsD-like fold RbsD-like domain 3p13A01
2OB5A 1OGDA 3P13A 4A34A 3P12A 3MVKA 1OGCA 1OGFA 2WCUA 1OGEA 2WCVA 3E7NA
chains in the Genus database with same CATH superfamily
2OB5A 1OGDA 3P13A 4A34A 3P12A 3MVKA 1OGCA 1OGFA 2WCUA 1OGEA 2WCVA 3E7NA
chains in the Genus database with same CATH topology
2OB5A 1OGDA 3P13A 4A34A 3P12A 3MVKA 1OGCA 1OGFA 2WCUA 1OGEA 2WCVA 3E7NA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2OB5 A;  1OGD A;  3P13 A;  4A34 A;  3P12 A;  3MVK A;  1OGC A;  1OGF A;  2WCU A;  1OGE A;  2WCV A;  3E7N A; 
#chains in the Genus database with same CATH topology
 2OB5 A;  1OGD A;  3P13 A;  4A34 A;  3P12 A;  3MVK A;  1OGC A;  1OGF A;  2WCU A;  1OGE A;  2WCV A;  3E7N A; 
#chains in the Genus database with same CATH homology
 2OB5 A;  1OGD A;  3P13 A;  4A34 A;  3P12 A;  3MVK A;  1OGC A;  1OGF A;  2WCU A;  1OGE A;  2WCV A;  3E7N 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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