1OGEA

The structure of bacillus subtilis rbsd complexed with ribose 5-phosphate
Total Genus 35
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
35
Knots found
sequence length
131
structure length
131
Chain Sequence
MKKHGILNSHLAKILADLGHTDKIVIADAGLPVPDGVLKIDLSLKPGLPAFQDTAAVLAEEMAVEKVIAAAEIKASNQENAKFLENLFSEQEIEYLSHEEFKLLTKDAKAVIRTGEFTPYANCILQAGVLF
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 Structures of Rbsd Leading to the Identification of Cytoplasmic Sugar-Binding Proteins with a Novel Folding Architecture
pubmed doi rcsb
molecule tags Transport
molecule keywords HIGH AFFINITY RIBOSE TRANSPORT PROTEIN RBSD
total genus 35
structure length 131
sequence length 131
chains with identical sequence B, C, D, E
other databases KnotProt 2.0: S +31
ec nomenclature ec 5.4.99.62: D-ribose pyranase.
pdb deposition date 2003-04-30

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 1ogeA01
3E7NA 1OGFA 1OGCA 4A34A 2WCVA 2WCUA 3P13A 1OGEA 3P12A 1OGDA 2OB5A 3MVKA
chains in the Genus database with same CATH superfamily
3E7NA 1OGFA 1OGCA 4A34A 2WCVA 2WCUA 3P13A 1OGEA 3P12A 1OGDA 2OB5A 3MVKA
chains in the Genus database with same CATH topology
3E7NA 1OGFA 1OGCA 4A34A 2WCVA 2WCUA 3P13A 1OGEA 3P12A 1OGDA 2OB5A 3MVKA
chains in the Genus database with same CATH homology


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