Xylose isomerase-like superfamily
SCOP classification
InterPro annotation
| Cross references | IPR013022 SSF51658 Protein matches |
| Abstract | This entry represents a structural motif with a beta/alpha TIM barrel found in several proteins families:
- Endonuclease IV , an AP (apurinic/apyrimidinic) endonuclease that primes DNA repair synthesis by cleaving the DNA backbone 5' of AP sites [
 10458614].
- L-rhamnose isomerase , a tetramer of four TIM barrels that catalyses the isomerisation between aldoses and ketoses, such as between L-rhamnose and L-rhamnulose [17141803].
- Xylose isomerase , which catalyses the first reaction in the catabolism of D-xylose by converting D-xylose to D-xylulose [16673077].
- Mannonate dehydratase UxuA, which along with mannonate oxidoreductase converts D-fructuronate to 2-keto-3-deoxy-D-gluconate [7007313].
These proteins share similar, but not identical, metal-binding sites. In addition, xylose isomerase and L-rhamnose isomerase each have additional alpha-helical domains involved in tetramer formation. This entry differs from IPR012307 in having a wider coverage of TIM-barrel protein families. |
InterPro database
Functional annotation
| General category | Metabolism |
| Detailed category | Carbohydrate metabolism and transport |
Function annotation of SCOP domain superfamilies
Jump to [ Top of page · SCOP classification · InterPro annotation · Functional annotation ]
Internal database links
The SUPERFAMILY hidden Markov model library has been used to carry
out SCOP domain assignments to all genomes at the superfamily level. Click on the 'Genome Assignments'
icon above to view the genome assignments for this superfamily.
Alignments of sequences to Alignments of sequences to 18 models
in this superfamily are available by clicking on the superfamily level 'Alignments' icon above. PDB sequences less than 40% identical
are shown by default, but any other sequences may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own.
It is possible to browse and view the proteins in the genomes which have
different combinations of domains including a Xylose isomerase-like domain. Click on the 'Domain Combinations' icon.
To view the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom click on the 'TaxViz' icon above. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.
Undirected domain occurrence networks are available for all superfamilies. Nodes in these networks represent genomes. Connections between nodes represent the presence of domain architectures, which contain the superfamily of interest, in both genomes.
There are 18 hidden Markov models representing the Xylose isomerase-like superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be viewed by clicking on the icon above.
Jump to [ Top of page · SCOP classification · InterPro annotation · Functional annotation · Internal database links ]
|
0
