HMM Summary Page: TIGR00678

FunctionDNA polymerase III, delta' subunit
Gene SymbolholB
Trusted Cutoff180.60
Domain Trusted Cutoff180.60
Noise Cutoff161.00
Domain Noise Cutoff161.00
Isology Typeequivalog_domain
EC Number2.7.7.7
HMM Length188
Mainrole CategoryDNA metabolism
Subrole CategoryDNA replication, recombination, and repair
Gene Ontology TermGO:0003887: DNA-directed DNA polymerase activity molecular_function
GO:0006260: DNA replication biological_process
GO:0009360: DNA polymerase III complex cellular_component
AuthorHaft DH, Loftus BJ
Entry DateJan 13 2000 2:40PM
Last ModifiedFeb 14 2011 3:27PM
CommentThis model describes the N-terminal half of the delta' subunit of DNA polymerase III. Delta' is homologous to the gamma and tau subunits, which form an outgroup for phylogenetic comparison. The gamma/tau branch of the tree is much more tighly conserved than the delta' branch, and some members of that branch score more highly against this model than some proteins classisified as delta'. The noise cutoff is set to detect weakly scoring delta' subunits rather than to exclude gamma/tau subunits. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.
ReferencesA2 hmmalign DR EXPERIMETNAL; GB|AAF98347.2; Streptococcus pyogenes DR EXPERIMENTAL; PIR|D70432; Aquifex aeolicus DR EXPERIMENTAL; EGAD|20293|EC1099; Escherichia coli DR OUTGROUP; PIR|A70460; DnaX; Aquifex aeolicus DR OUTGROUP; SP|P06710; DnaX; Escherichia coli
Genome PropertyGenProp0263: DNA polymerase III, bacterial (HMM)