3P12A

Crystal structure of d-ribose pyranase sa240
Total Genus 40
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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
40
Knots found
sequence length
129
structure length
129
Chain Sequence
VLNEHISKAIATIGHFDLLTINDAGMPIPNDHRRIDLAVTKNLPRFIDVLATVLEEMEIQKIYLAEEIKEHNPTQLQQIKQLISSEIEIIFIPHEEMKSNLAHPLNKGNIRTGETTPYSNIALESNVTF
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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 40
structure length 129
sequence length 129
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 3p12A01
1OGDA 3P13A 1OGFA 4A34A 1OGCA 3P12A 1OGEA 3MVKA 3E7NA 2WCVA 2OB5A 2WCUA
chains in the Genus database with same CATH superfamily
1OGDA 3P13A 1OGFA 4A34A 1OGCA 3P12A 1OGEA 3MVKA 3E7NA 2WCVA 2OB5A 2WCUA
chains in the Genus database with same CATH topology
1OGDA 3P13A 1OGFA 4A34A 1OGCA 3P12A 1OGEA 3MVKA 3E7NA 2WCVA 2OB5A 2WCUA
chains in the Genus database with same CATH homology


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