Functional Categories of Eubacteria

Functional Overview

GENERAL METABOLISM
- BIOENERGETICS AND METABOLISM
  - METABOLISM OF CARBOHYDRATES
  - ATP BIOSYNTHESIS
    - ATP transport
  - METABOLISM OF AMINO ACIDS AND RELATED MOLECULES
    - Protein degradation
    - Catabolism of the amino acids
    - Amino Acid biosynthesis
    - Heme and porphyrins
  - METABOLISM OF NUCLEOTIDES AND NUCLEIC ACIDS
    - Degradation of the nucleic acids
    - Biosynthesis of nucleotides
  - METABOLISM OF LIPIDS
    - Degradation of lipids
    - Lipids biosynthesis
  - METABOLISM OF AROMATIC COMPOUNDS
    - Biosynthesis of aromatic compounds
    - Catabolism of aromatic compounds
  - ELECTRON TRANSPORT
    - Oxidative phosphorylation
  - METABOLISM OF COENZYMES AND PROSTHETIC GROUPS
    - Coenzymes
    - Vitamins
    - Metabolism of sulfur
    - Phosphate metabolism
  - TRANSMEMBRANE TRANSPORT
    - Active transport
    - Group translocation
    - Other pathways of transmembrane transport
  - SIGNAL TRANSDUCTION
- INFORMATION PATHWAYS
  - DNA replication
    - Initiation of replication
    - Elongation of the lagging strand
    - Termination of replication
    - Regulation of replication
    - DNA polymerases
  - DNA Modification and Repair
    - Excision-based repair
    - Error-prone (SOS) DNA-repair
    - DNA modification
  - DNA recombination
    - RecA protein
    - RecB protein
    - Holiday junction nuclease
    - Transposases
    - Recombinases
    - Other recombination factors
  - DNA-packaging
    - Bacterial DNA-packaging
  - Transcription
  - Protein biosynthesis
    - Ribosomal proteins
    - Stage 1. Activation of aminoacids
    - Stage 2. Initiation
    - Stage 3. Elongation
    - Post-translational modifications
- OTHER FUNCTIONS (UNDER CONSTRUCTION)
  - CELL STRUCTURE
    - Cell walls
    - Biomembranes
    - Cytoskeleton
    - Organelle Structure and Function
  - ORGANISM DEVELOPMENT
    - Productional proteins
    - Embryonal proteins
  - UNSORTED
    - Transport
    - Chemotaxis and mobility
    - Sporulation
    - Superoxide dismutases
  - PRODUCTS OF SECONDARY METABOLISM
    - Toxins
  - Hypothetical proteins
  - Protein kinases
  - Classes of enzymes
    - Oxidoreductases
    - Transferases
    - Hydrolases
    - Lyases
    - Isomerases
    - Ligases
    - Synthetases
    - ATP-ases
    - Lysozyme
    - Haemolysin
  - Non-enzymatic classes
    - Assorted regulatory
    - Operon repressors
    - Zinc finger protein motifs

Unclassified Alignments:

Terry Gaasterland, Natalia Maltsev, Ross Overbeek, and Evgeni Selkov / gaasterland@mcs.anl.gov, maltsev@mcs.anl.gov , overbeek@mcs.anl.gov, evgeni@mcs.anl.gov].