Class key- adapted from Riley M. Functions of the gene products of Escherichia coli. Microbiological reviews 1993, 57(4):862-952.: 0.0.0 Unknown function, no known homologs 0.0.1 Conserved in Staphylococcus 0.0.2 Conserved in other organisms 1.0.0 Cell processes 1.1.1 Chemotaxis and mobility 1.2.1 Chromosome replication 1.3.1 Chaperones 1.4.0 Protection responses 1.4.1 Cell killing 1.4.2 Detoxification 1.4.3 Drug/analog sensitivity 1.4.4 Radiation sensitivity 1.5.0 Transport/binding proteins 1.5.1 Amino acids and amines 1.5.2 Cations 1.5.3 Carbohydrates, organic acids and alcohols 1.5.4 Anions 1.5.5 Other Transport/binding proteins 1.6.0 Adaptation 1.6.1 Adaptations, atypical conditions 1.6.2 Osmotic adaptation 1.6.3 Fe storage 1.7.1 Cell division 1.8.1 Sporulation, differentiation and germination 2.0.0 Macromolecule metabolism 2.1.0 Macromolecule degradation 2.1.1 Degradation of DNA 2.1.2 Degradation of RNA 2.1.3 Degradation of polysaccharides 2.1.4 Degradation of proteins, peptides, glyco 2.2.0 Macromolecule synthesis, modification 2.2.1 Amino acyl tRNA synthesis; tRNA modification 2.2.2 Basic proteins - synthesis, modification 2.2.3 DNA - replication, repair, restriction/modification 2.2.4 Glycoprotein 2.2.5 Lipopolysaccharide 2.2.6 Lipoprotein 2.2.7 Phospholipids 2.2.8 Polysaccharides - (cytoplasmic) 2.2.9 Protein modification 2.2.10 Proteins - translation and modification 2.2.11 RNA synthesis, modification, DNA transcript'n 2.2.12 tRNA 3.0.0 Metabolism of small molecules 3.1.0 Amino acid biosynthesis 3.1.1 Alanine 3.1.2 Arginine 3.1.3 Asparagine 3.1.4 Aspartate 3.1.5 Chorismate 3.1.6 Cysteine 3.1.7 Glutamate 3.1.8 Glutamine 3.1.9 Glycine 3.1.10 Histidine 3.1.11 Isoleucine 3.1.12 Leucine 3.1.13 Lysine 3.1.14 Methionine 3.1.15 Phenylalanine 3.1.16 Proline 3.1.17 Serine 3.1.18 Threonine 3.1.19 Tryptophan 3.1.20 Tyrosine 3.1.21 Valine 3.2.0 Biosynthesis of cofactors, carriers 3.2.1 Acyl carrier protein (ACP) 3.2.2 Biotin 3.2.3 Cobalamin 3.2.4 Enterochelin 3.2.5 Folic acid 3.2.6 Heme, porphyrin 3.2.7 Lipoate 3.2.8 Menaquinone, ubiquinone 3.2.9 Molybdopterin 3.2.10 Pantothenate 3.2.11 Pyridine nucleotide 3.2.12 Pyridoxine 3.2.13 Riboflavin 3.2.14 Thiamin 3.2.15 Thioredoxin, glutaredoxin, glutathione 3.2.16 biotin carboxyl carrier protein (BCCP) 3.2.17 Ferredoxin 3.2.18 Isoprenoid 3.3.0 Central intermediary metabolism 3.3.1 2'-Deoxyribonucleotide metabolism 3.3.2 Amino sugars 3.3.3 Entner-Douderoff 3.3.4 Gluconeogenesis 3.3.5 Glyoxylate bypass 3.3.6 Incorporation metal ions 3.3.7 Misc. glucose metabolism 3.3.8 Misc. glycerol metabolism 3.3.9 Non-oxidative branch, pentose pwy 3.3.10 Nucleotide hydrolysis 3.3.11 Nucleotide interconversions 3.3.12 Oligosaccharides 3.3.13 Phosphorus compounds 3.3.14 Polyamine biosynthesis 3.3.15 Pool, multipurpose conversions of intermed. met'm 3.3.16 S-adenosyl methionine 3.3.17 Salvage of nucleosides and nucleotides 3.3.18 Sugar-nucleotide biosynthesis, conversions 3.3.19 Sulfur metabolism 3.3.20 amino acids 3.3.21 other 3.3.22 Nitrogen metabolism (urease) 3.4.0 Degradation of small molecules 3.4.1 Amines 3.4.2 Amino acids 3.4.3 Carbon compounds 3.4.4 Fatty acids 3.4.5 Other Degradation of small molecules 3.5.0 Energy metabolism, carbon 3.5.1 Aerobic respiration 3.5.2 Anaerobic respiration 3.5.3 Electron transport 3.5.4 Fermentation 3.5.5 Glycolysis 3.5.6 Oxidative branch, pentose pwy 3.5.7 Pyruvate dehydrogenase 3.5.8 TCA cycle 3.5.9 ATP-proton motive force 3.6.0 Fatty acid biosynthesis 3.6.1 Fatty acid and phosphatidic acid biosynth 3.7.0 Nucleotide biosynthesis 3.7.1 Purine ribonucleotide biosynthesis 3.7.2 Pyrimidine ribonucleotide biosynthesis 4.0.0 Cell envelope 4.1.4 Surface polysaccharides & antigens 4.1.5 Surface structures 4.1.6 Gram +ve membrane 4.1.7 Gram +ve exported/lipoprotein 4.1.8 Gram +ve surface anchored 4.1.9 Gram +ve peptidoglycan, teichoic acid 4.2.0 Ribosome constituents 4.2.1 Ribosomal and stable RNAs 4.2.2 Ribosomal proteins - synthesis, modification 4.2.3 Ribosomes - maturation and modification 5.0.0 Extrachromosomal 5.1.0 Laterally acquired elements 5.1.1 Colicin-related functions 5.1.2 Phage-related functions and prophages 5.1.3 Plasmid-related functions 5.1.4 Transposon-related functions 5.1.5 Pathogenicity Islands/determinants 6.0.0 Regulatory functions 6.1.1 Two-component regulators 6.1.2 Response regulator 6.1.2 Sensor kinase 6.1.3 two-component fusion 6.2.0 RNA polymerase core enzyme binding 6.2.1 sigma factor 6.2.2 anti sigma factor 6.2.3 anti sigma factor antagonist 6.3.1 AsnC-family 6.3.2 AraC-family 6.3.3 GntR-family 6.3.4 IclR-family 6.3.5 LacI-family 6.3.6 LysR-family 6.3.7 MarR-family 6.3.8 TetR-family 6.3.9 ROK-family 6.3.10 DeoR-family 6.3.11 LuxR (GerR)-family 6.3.12 MerR-family 6.3.13 ArsR-family 6.3.14 PadR-family 6.4.0 Protein kinases 6.4.1 Serine/threonine 6.4.2 Tyrosine 6.5.0 Others 7.0.0 Not classified (included putative assignments) Colour key for Artemis: 0 white Pathogenicity/Adaption/Chaperones 1 dark grey Energy metabolism (glycolysis, electron transport etc.) 2 red Information transfer (transcription/translation & DNA/RNA modification) 3 dark green Surface (IM, OM, secreted, surface structures 4 dark blue Stable RNA 5 sky blue Degradation of large molecules 6 dark pink Degradation of small molecules 7 yellow Central/intermediary/miscellaneous metabolism 8 light green Unknown 9 light blue Regulators 10 orange Conserved hypothetical 11 brown Pseudogenes and partial genes (remnants) 12 light pink Phage/IS elements 13 light grey Some miscellaneous information e.g. Prosite, but no function