SUPERFAMILY 1.75 HMM library and genome assignments server

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B12-dependent dehydatase associated subunit superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   Anticodon-binding domain-like [ 52953] (6)
Superfamily:   B12-dependent dehydatase associated subunit [ 52968] (2)
Families:   Diol dehydratase, beta subunit [ 52969]
  Dehydratase-reactivating factor beta subunit [ 82433] (2)

Superfamily statistics
Genomes (154) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 320 2,003 5
Proteins 320 2,000 5

Functional annotation
General category Metabolism
Detailed category Other enzymes

Function annotation of SCOP domain superfamilies

InterPro annotation
Cross references IPR010254 SSF52968 Protein matches

This family includes the beta (or middle) subunit of the oligomeric (alpha2beta2gamma2) diol dehydratases (DDH) and glycerol dehydratases (GDH), which are enzymes produced by some enterobacteria, as well as the beta subunit of the tetrameric (alpha2beta2) glycerol dehydratase reactivase, which removes damaged coenzyme B12 from GDH that has suffered mechanism-based inactivation [PubMed12788698, PubMed12517345]. The beta subunit of GDH reactivase resembles that of GDH and DDH, displaying a three-layer alpha/beta/alpha fold, except that the reactivase subunit lacks some B12-binding elements.

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 ]

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 4 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 B12-dependent dehydatase associated subunit 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 4 hidden Markov models representing the B12-dependent dehydatase associated subunit 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 · Internal database links ]