3P12A

Crystal structure of d-ribose pyranase sa240
Total Genus 40
Loading diagram...

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
Loading diagram...

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
{{ tooltip.sname }} connected with {{ tooltip.tname }} : {{qFormat(tooltip.svalue) }}
publication title Crystal structure of Sa240: A ribose pyranase homolog with partial active site from Staphylococcus aureus
pubmed doi rcsb
molecule tags Isomerase
source organism Staphylococcus aureus
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
4A34A 1OGEA 1OGFA 2WCUA 2OB5A 1OGDA 2WCVA 3P13A 3MVKA 3E7NA 1OGCA 3P12A
chains in the Genus database with same CATH superfamily
4A34A 1OGEA 1OGFA 2WCUA 2OB5A 1OGDA 2WCVA 3P13A 3MVKA 3E7NA 1OGCA 3P12A
chains in the Genus database with same CATH topology
4A34A 1OGEA 1OGFA 2WCUA 2OB5A 1OGDA 2WCVA 3P13A 3MVKA 3E7NA 1OGCA 3P12A
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 4A34 A;  1OGE A;  1OGF A;  2WCU A;  2OB5 A;  1OGD A;  2WCV A;  3P13 A;  3MVK A;  3E7N A;  1OGC A;  3P12 A; 
#chains in the Genus database with same CATH topology
 4A34 A;  1OGE A;  1OGF A;  2WCU A;  2OB5 A;  1OGD A;  2WCV A;  3P13 A;  3MVK A;  3E7N A;  1OGC A;  3P12 A; 
#chains in the Genus database with same CATH homology
 4A34 A;  1OGE A;  1OGF A;  2WCU A;  2OB5 A;  1OGD A;  2WCV A;  3P13 A;  3MVK A;  3E7N A;  1OGC A;  3P12 A; 
...loading similar chains, please wait...
similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
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
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...