SUPERFAMILY 1.75 HMM library and genome assignments server

Please note: Superfamily is currently under maintenance and some functionality may be limited. Please bear with us as we fix these problems.


CoA-transferase family III (CaiB/BaiF) superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   CoA-transferase family III (CaiB/BaiF) [ 89795]
Superfamily:   CoA-transferase family III (CaiB/BaiF) [ 89796]
Families:   CoA-transferase family III (CaiB/BaiF) [ 89797] (4)


Superfamily statistics
Genomes (1,360) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 6,987 27,667 12
Proteins 6,230 25,870 12


Functional annotation
General category coiled coil
Detailed category This is a complex coiled arrangement. The details of which will appear on this page shortly (some coiled coil details are being checked before they are included on the site). If you want to see examples of the states please click here here. If you require further details urgently please contact Owen Rackham

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)single-organism metabolic process0.0022710.03822Least InformativeInherited
Biological Process (BP)lipid metabolic process0.0013760.009693Moderately InformativeInherited
Biological Process (BP)organic substance catabolic process0.037960.139Moderately InformativeInherited
Biological Process (BP)cellular catabolic process0.002520.08058Moderately InformativeInherited
Biological Process (BP)lipid catabolic process0.00000042050.000001479InformativeDirect
Molecular Function (MF)transferase activity0.4060.1028Least InformativeInherited
Molecular Function (MF)isomerase activity0.0000000034970.00000002216Moderately InformativeDirect
Molecular Function (MF)racemase and epimerase activity0.000016220.000001936InformativeDirect

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) single-organism metabolic process 0.03822 Least Informative Inherited
Biological Process (BP) lipid metabolic process 0.009693 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 0.139 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.08058 Moderately Informative Inherited
Biological Process (BP) lipid catabolic process 0.000001479 Informative Direct
Molecular Function (MF) transferase activity 0.1028 Least Informative Inherited
Molecular Function (MF) isomerase activity 0.00000002216 Moderately Informative Direct
Molecular Function (MF) racemase and epimerase activity 0.000001936 Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details) Document: EC annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Isomerases0.1957Moderately InformativeInherited
Enzyme Commission (EC)Racemases and epimerases0.0004447InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Post-translational modificationTransferase0Least InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)amine and polyamine metabolism0Moderately InformativeDirect
UniPathway (UP)carnitine metabolism0InformativeDirect
UniPathway (UP)metabolic intermediate degradation0InformativeDirect

Document: UP annotation of SCOP domains

InterPro annotation
Cross references IPR003673 SSF89796 Protein matches
Abstract

CoA-transferases are found in organisms from all kingdoms of life. They catalyse reversible transfer reactions of coenzyme A groups from CoA-thioesters to free acids. There are at least three families of CoA-transferases, which differ in sequence and reaction mechanism:

  • Family I consists of CoA-transferases for 3-oxoacids , short-chain fatty acids and glutaconate . Most use succinyl-CoA or acetyl-CoA as CoA donors.
  • Family II consists of the homodimeric alpha-subunits of citrate lyase and citramalate lyase . These enzymes catalyse the transfer of acyl carrier protein (ACP) with a covalently bound CoA derivative, but can accept free CoA thioesters as well.
  • Family III consists of formyl-CoA:oxalate CoA-transferase [PubMed15213226], succinyl-CoA:(R)-benzylsuccinate CoA-transferase [PubMed11418570], (E)-cinnamoyl-CoA:(R)-phenyllactate CoA-transferase [PubMed10849007], and butyrobetainyl-CoA:(R)-carnitine CoA-transferase [PubMed15823031]. These CoA-transferases occur in prokaryotes and eukaryotes, and catalyse CoA-transfer reactions in a highly substrate- and stereo-specific manner [PubMed11749953].

This entry represents family III CoA-transferases.


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) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

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 CoA-transferase family III (CaiB/BaiF) 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 CoA-transferase family III (CaiB/BaiF) 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) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]