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Ribose/Galactose isomerase RpiB/AlsB superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   Ribose/Galactose isomerase RpiB/AlsB [ 89622]
Superfamily:   Ribose/Galactose isomerase RpiB/AlsB [ 89623]
Families:   Ribose/Galactose isomerase RpiB/AlsB [ 89624] (2)


Superfamily statistics
Genomes (1,800) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 2,625 15,647 5
Proteins 2,625 15,620 5


Functional annotation
General category Metabolism
Detailed category Other enzymes

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Biological Process (BP)cellular nitrogen compound metabolic process0.000035460.000121Least InformativeDirect
Biological Process (BP)organic cyclic compound metabolic process0.041580.04923Least InformativeInherited
Biological Process (BP)primary metabolic process0.089930.231Least InformativeInherited
Biological Process (BP)single-organism cellular process0.32220.4163Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process0.44430.4844Least InformativeInherited
Biological Process (BP)single-organism metabolic process0.012850.001068Least InformativeInherited
Biological Process (BP)heterocycle metabolic process0.0018570.002797Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process0.0018140.003036Least InformativeInherited
Biological Process (BP)nucleoside phosphate metabolic process0.000000018250.000000006648Moderately InformativeDirect
Biological Process (BP)cofactor metabolic process0.0000013490.00000005236Moderately InformativeDirect
Biological Process (BP)carbohydrate derivative metabolic process0.00020250.00004306Moderately InformativeDirect
Biological Process (BP)cellular aldehyde metabolic process0.00000000054870.000000000001418InformativeDirect
Biological Process (BP)oxidoreduction coenzyme metabolic process0.000000000013930.000000000006361InformativeDirect
Biological Process (BP)pyridine-containing compound metabolic process0.0000000010610.00000000007376InformativeDirect
Biological Process (BP)NADP metabolic process00Highly InformativeDirect
Biological Process (BP)glyceraldehyde-3-phosphate metabolic process00Highly InformativeDirect
Biological Process (BP)glucose 6-phosphate metabolic process00Highly InformativeDirect
Molecular Function (MF)isomerase activity00Moderately InformativeDirect
Molecular Function (MF)intramolecular oxidoreductase activity00InformativeDirect
Molecular Function (MF)intramolecular oxidoreductase activity, interconverting aldoses and ketoses00Highly InformativeDirect

Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) cellular nitrogen compound metabolic process 0.000121 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.04923 Least Informative Inherited
Biological Process (BP) primary metabolic process 0.231 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.4163 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 0.4844 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.001068 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.002797 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.003036 Least Informative Inherited
Biological Process (BP) nucleoside phosphate metabolic process 0.000000006648 Moderately Informative Direct
Biological Process (BP) cofactor metabolic process 0.00000005236 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 0.00004306 Moderately Informative Direct
Biological Process (BP) cellular aldehyde metabolic process 0.000000000001418 Informative Direct
Biological Process (BP) oxidoreduction coenzyme metabolic process 0.000000000006361 Informative Direct
Biological Process (BP) pyridine-containing compound metabolic process 0.00000000007376 Informative Direct
Biological Process (BP) NADP metabolic process 0 Highly Informative Direct
Biological Process (BP) glyceraldehyde-3-phosphate metabolic process 0 Highly Informative Direct
Biological Process (BP) glucose 6-phosphate metabolic process 0 Highly Informative Direct
Molecular Function (MF) isomerase activity 0 Moderately Informative Direct
Molecular Function (MF) intramolecular oxidoreductase activity 0 Informative Direct
Molecular Function (MF) intramolecular oxidoreductase activity, interconverting aldoses and ketoses 0 Highly Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Isomerases0Least InformativeDirect
Enzyme Commission (EC)Intramolecular oxidoreductases0Moderately InformativeDirect
Enzyme Commission (EC)Interconverting aldoses and ketoses, and related c0InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processCarbohydrate metabolism0.000001479Moderately InformativeDirect
Post-translational modificationIsomerase0Moderately InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR003500 SSF89623 Protein matches
Abstract

This entry represents the sugar isomerase enzymes ribose 5-phosphate isomerase B (rpiB), galactose isomerase subunit A (LacA) and galactose isomerase subunit B (LacB).

Galactose-6-phosphate isomerase is a heteromultimeric protein consisting of subunits LacA and LacB, and catalyses the conversion of D-galactose 6-phosphate to D-tagatose and 6-phosphate in the tagatose 6-phosphate pathway of lactose catabolism [PubMed1400164]. Galactose-6-phosphate isomerase is induced by galactose or lactose. This entry represents the LacB subunit.

Ribose 5-phosphate isomerase forms a homodimer and catalyses the interconversion of D-ribose 5-phosphate and D-ribulose 5-phosphate in the non-oxidative branch of the pentose phosphate pathway. This reaction permits the synthesis of ribose from other sugars, as well as the recycling of sugars from nucleotide breakdown. Two unrelated enzymes can catalyse this reaction: RpiA (found in most organisms) and RpiB (found in some bacteria and eukaryotes). RpiB is also involved in metabolism of the rare sugar, allose, in addition to ribose sugars. The structures of RpiA and RpiB are distinct, RpiB having a Rossmann-type alpha/beta/alpha sandwich topology [PubMed14499611].


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 3 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.


Browse and view proteins in genomes which have different domain combinations including a Ribose/Galactose isomerase RpiB/AlsB domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 3 hidden Markov models representing the Ribose/Galactose isomerase RpiB/AlsB superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]