Category

SW 1 Cellular processes

SW 1.1 Cell envelope and cell division

SW 1.1.1 Cell wall synthesis

SW 1.1.1.1 Biosynthesis of peptidoglycan

SW 1.1.1.2 Autolytic activity required for peptidoglycan synthesis (cell elongation)

SW 1.1.1.3 Biosynthesis of lipoteichoic acid

SW 1.1.1.4 Biosynthesis of teichoic acid

SW 1.1.1.5 Biosynthesis of teichuronic acid

SW 1.1.1.6 Export of anionic polymers and attachment to peptidoglycan

SW 1.1.1.7 Penicillin-binding proteins

SW 1.1.1.8 Biosynthesis of the carrier lipid undecaprenylphosphate

SW 1.1.2 Cell shape

SW 1.1.3 Cell wall degradation/ turnover

SW 1.1.3.1 Autolysis

SW 1.1.3.2 Autolysis/ based on similarity

SW 1.1.3.3 Utilization of cell wall components

SW 1.1.3.4 Endopeptidases

SW 1.1.3.5 N-acetyl-β-D-glucosaminidases

SW 1.1.3.6 Cell wall degradation/ turnover/ Additional genes

SW 1.1.4 Capsule biosynthesis and degradation

SW 1.1.5 Cell wall/ other

SW 1.1.6 Cell wall/ other/ based on similarity

SW 1.1.7 Membrane dynamics

SW 1.1.8 Cell division

SW 1.1.8.1 The Min system

SW 1.1.8.2 Other genes

SW 1.1.9 Cell division/ based on similarity

SW 1.2 Transporters

SW 1.2.1 ABC transporters

SW 1.2.1.1 Importers

SW 1.2.1.1.1 Uptake of carbon sources

SW 1.2.1.1.2 Uptake of amino acids

SW 1.2.1.1.3 Uptake of peptides

SW 1.2.1.1.4 Uptake of compatible solutes for osmoprotection

SW 1.2.1.1.5 Uptake of iron/ siderophores

SW 1.2.1.1.6 Uptake of ions

SW 1.2.1.1.7 Uptake of cofactors

SW 1.2.1.2 Exporters

SW 1.2.1.2.1 Efflux of antibiotics

SW 1.2.1.2.2 Export of antibiotic substances

SW 1.2.1.2.3 Export of peptides

SW 1.2.1.2.4 Export of cell wall components

SW 1.2.1.2.5 Export of ions

SW 1.2.1.2.6 Exporters of unknown function

SW 1.2.1.3 Regulatory ABC transporters

SW 1.2.1.4 Unknown ABC transporters

SW 1.2.2 Phosphotransferase system

SW 1.2.2.1 General PTS proteins

SW 1.2.2.2 Sugar specific PTS proteins

SW 1.2.3 ECF transporter

SW 1.2.3.1 The general components of the ECF transporters

SW 1.2.3.2 The substrate-specific S components of the ECF transporters

SW 1.2.3.3 Class I ECF transporter

SW 1.2.4 Transporters/ other

SW 1.2.4.1 Amino acid transporters

SW 1.2.4.1.1 Solute:sodium symporter family

SW 1.2.4.1.3 Alanine or glycine cation symporter family

SW 1.2.4.1.4 APC superfamily

SW 1.2.4.1.5 BCAA transporters

SW 1.2.4.1.6 Dicarboxylate/amino acid:cation symporter

SW 1.2.4.1.7 Sodium-solute symporter

SW 1.2.4.1.8 Additional amino acid transporters

SW 1.2.4.10 Siderophore exporters

SW 1.2.4.11 Other exporters

SW 1.2.4.12 Other transporters

SW 1.2.4.13 Metal ion exporters

SW 1.2.4.14 Multidrug exporters

SW 1.2.4.15 Multidrug exporters/ based on homology

SW 1.2.4.2 Peptide transporter

SW 1.2.4.3 Carbohydrate transporter

SW 1.2.4.4 Transporter for organic acids

SW 1.2.4.5 Metal ion transporter

SW 1.2.4.6 Nucleotide/ nucleoside transporter

SW 1.2.4.7 Transporter for cofactors

SW 1.2.4.8 Uptake of other small ions

SW 1.2.4.9 Uptake of compatible solutes

SW 1.3 Homeostasis

SW 1.3.1 Metal ion homeostasis (K, Na, Ca, Mg)

SW 1.3.1.1 Magnesium uptake/ efflux

SW 1.3.1.2 Sodium uptake/ export

SW 1.3.1.3 Potassium uptake/ export

SW 1.3.1.4 Metal ion homeostasis/ Other

SW 1.3.2 Trace metal homeostasis (Cu, Zn, Ni, Mn, Mo)

SW 1.3.2.1 Copper

SW 1.3.2.2 Manganese

SW 1.3.2.3 Zinc

SW 1.3.2.4 Trace metals/ Other

SW 1.3.3 Acquisition of iron

SW 1.3.3.1 ABC transporters for the uptake of iron/ siderophores

SW 1.3.3.2 Elemental iron transport system

SW 1.3.3.3 Acquisition of iron / Other

SW 1.3.4 Acquisition of iron/ based on similarity

SW 1.3.5 PH homeostasis

SW 2 Metabolism

SW 2.1 Electron transport and ATP synthesis

SW 2.1.1 Regulators of electron transport

SW 2.1.2 Respiration

SW 2.1.2.1 Terminal oxidases

SW 2.1.2.2 Anaerobic respiration

SW 2.1.2.3 Anaerobic respiration/based on similarity

SW 2.1.2.4 Respiration/ other

SW 2.1.3 Electron transport/ other

SW 2.1.4 Electron transport/ other/ based on similarity

SW 2.1.5 ATP synthesis

SW 2.1.5.1 ATPase

SW 2.1.5.2 Substrate-level phosphorylation

SW 2.2 Carbon metabolism

SW 2.2.1 Carbon core metabolism

SW 2.2.1.1 Glycolysis

SW 2.2.1.2 Gluconeogenesis

SW 2.2.1.3 Pentose phosphate pathway

SW 2.2.1.4 TCA cycle

SW 2.2.1.5 Overflow metabolism

SW 2.2.2 Utilization of specific carbon sources

SW 2.2.2.1 Utilization of organic acids

SW 2.2.2.10 Utilization of mannitol

SW 2.2.2.11 Utilization of glucitol

SW 2.2.2.12 Utilization of rhamnose

SW 2.2.2.13 Utilization of gluconate

SW 2.2.2.14 Utilization of glucarate/galactarate

SW 2.2.2.15 Utilization of hexuronate

SW 2.2.2.16 Utilization of inositol

SW 2.2.2.17 Utilization of amino sugars

SW 2.2.2.18 Utilization of beta-glucosides

SW 2.2.2.19 Utilization of sucrose

SW 2.2.2.2 Utilization of acetoin

SW 2.2.2.20 Utilization of trehalose

SW 2.2.2.21 Utilization of melibiose

SW 2.2.2.22 Utilization of maltose

SW 2.2.2.23 Utilization of starch/ maltodextrin

SW 2.2.2.24 Utilization of galactan

SW 2.2.2.25 Utilization of glucomannan

SW 2.2.2.26 Utilization of pectin

SW 2.2.2.27 Utilization of other polymeric carbohydrates

SW 2.2.2.28 Utilization of other pentoses and hexoses

SW 2.2.2.3 Utilization of glycerol/ glycerol-3-phosphate

SW 2.2.2.4 Utilization of ribose

SW 2.2.2.5 Utilization of xylan/ xylose

SW 2.2.2.6 Utilization of arabinan/ arabinose/ arabitol

SW 2.2.2.7 Utilization of fructose

SW 2.2.2.8 Utilization of galactose

SW 2.2.2.9 Utilization of mannose

SW 2.3 Amino acid/ nitrogen metabolism

SW 2.3.1 Biosynthesis/ acquisition of amino acids

SW 2.3.1.1 Biosynthesis/ acquisition of glutamate/ glutamine/ ammonium assimilation

SW 2.3.1.10 Biosynthesis/ acquisition of methionine/ S-adenosylmethionine

SW 2.3.1.11 Biosynthesis/ acquisition of methionine/ S-adenosylmethionine/ based on similarity

SW 2.3.1.12 Biosynthesis/ acquisition of branched-chain amino acids

SW 2.3.1.13 Biosynthesis/ acquisition of aromatic amino acids

SW 2.3.1.14 Biosynthesis/ acquisition of histidine

SW 2.3.1.15 Biosynthesis/acquisition of L- and D-alanine

SW 2.3.1.2 Biosynthesis/ acquisition of proline

SW 2.3.1.4 Biosynthesis/ acquisition of arginine

SW 2.3.1.5 Biosynthesis/ acquisition of aspartate/ asparagine

SW 2.3.1.6 Biosynthesis/ acquisition of lysine/ threonine

SW 2.3.1.7 Biosynthesis/ acquisition of lysine/ threonine/ based on similarity

SW 2.3.1.8 Biosynthesis/ acquisition of serine/ glycine/ alanine

SW 2.3.1.9 Biosynthesis/ acquisition of cysteine

SW 2.3.2 Utilization of amino acids

SW 2.3.2.1 Utilization of glutamine/ glutamate

SW 2.3.2.10 Utilization of gamma-amino butyric acid

SW 2.3.2.2 Utilization of proline

SW 2.3.2.4 Utilization of arginine/ ornithine

SW 2.3.2.5 Utilization of histidine

SW 2.3.2.6 Utilization of asparagine/ aspartate

SW 2.3.2.7 Utilization of alanine/ serine

SW 2.3.2.8 Utilization of threonine/ glycine

SW 2.3.2.9 Utilization of branched-chain amino acids

SW 2.3.3 Utilization of nitrogen sources other than amino acids

SW 2.3.3.1 Utilization of nitrate/ nitrite

SW 2.3.3.2 Utilization of urea

SW 2.3.3.3 Utilization of amino sugars

SW 2.3.3.4 Utilization of peptides

SW 2.3.3.5 Utilization of proteins

SW 2.3.4 Putative amino acid transporter

SW 2.4 Lipid metabolism

SW 2.4.1 Utilization of lipids

SW 2.4.1.1 Utilization of phospholipids

SW 2.4.1.2 Utilization of phospholipids/ based on similarity

SW 2.4.1.3 Utilization of fatty acids

SW 2.4.1.4 Utilization of lipids/ other

SW 2.4.2 Biosynthesis of lipids

SW 2.4.2.1 Biosynthesis of fatty acids

SW 2.4.2.2 Biosynthesis of phospholipids

SW 2.4.2.3 Biosynthesis of isoprenoids

SW 2.4.3 Lipid metabolism/ other

SW 2.5 Nucleotide metabolism

SW 2.5.1 Utilization of nucleotides

SW 2.5.2 Biosynthesis/ acquisition of nucleotides

SW 2.5.2.1 Biosynthesis/ acquisition of purine nucleotides

SW 2.5.2.2 Biosynthesis/ acquisition of purine nucleotides/ based on similarity

SW 2.5.2.3 Purine salvage and interconversion

SW 2.5.2.4 Biosynthesis/ acquisition of pyrimidine nucleotides

SW 2.5.2.5 Biosynthesis/ acquisition of nucleotides/ other

SW 2.5.2.6 Biosynthesis/ acquisition of nucleotides/ other/ based on similarity

SW 2.5.3 Metabolism of signalling nucleotides

SW 2.5.4 Nucleotide metabolism/ other

SW 2.6 Additional metabolic pathways

SW 2.6.1 Biosynthesis of cell wall components

SW 2.6.1.1 Biosynthesis of peptidoglycan

SW 2.6.1.2 Biosynthesis of lipoteichoic acid

SW 2.6.1.3 Biosynthesis of teichoic acid

SW 2.6.1.4 Biosynthesis of teichuronic acid

SW 2.6.1.5 Biosynthesis of the carrier lipid undecaprenylphosphate

SW 2.6.2 Biosynthesis of cofactors

SW 2.6.2.1 Biosynthesis/ acquisition of biotin

SW 2.6.2.10 Biosynthesis of molybdopterin

SW 2.6.2.11 Biosynthesis of NAD(P)

SW 2.6.2.12 Biosynthesis of pyridoxal phosphate

SW 2.6.2.13 Biosynthesis/ acquisition of cobalamine (B12))

SW 2.6.2.2 Biosynthesis/ acquisition of riboflavin/ FAD

SW 2.6.2.3 Biosynthesis/ acquisition of thiamine

SW 2.6.2.4 Biosynthesis of coenzyme A

SW 2.6.2.5 Biosynthesis of folate

SW 2.6.2.6 Biosynthesis of heme/ siroheme

SW 2.6.2.7 Biosynthesis and scavenging of lipoic acid

SW 2.6.2.8 Biosynthesis of menaquinone

SW 2.6.2.9 Biosynthesis of menaquinone/ based on similarity

SW 2.6.3 Phosphate metabolism

SW 2.6.4 Sulfur metabolism

SW 2.6.4.1 Conversion of S-methyl cysteine to cysteine

SW 2.6.4.2 sulfur metabolism/ general

SW 2.6.4.3 Conversion of S-(2-succino)cysteine to cysteine

SW 2.6.5 Iron metabolism

SW 2.6.5.1 Acquisition of iron / Other

SW 2.6.5.2 Acquisition of iron/ based on similarity

SW 2.6.5.3 Biosynthesis of iron-sulfur clusters

SW 2.6.5.4 ABC transporters for the uptake of iron/ siderophores

SW 2.6.5.5 Elemental iron transport system

SW 2.6.5.6 Iron export

SW 2.6.6 Miscellaneous metabolic pathways

SW 2.6.6.1 Biosynthesis of antibacterial compounds

SW 2.6.6.2 Biosynthesis of bacillithiol

SW 2.6.6.3 Biosynthesis of dipicolinate

SW 2.6.6.4 Biosynthesis of glycine betaine

SW 2.6.6.5 Biosynthesis of glycogen

SW 2.6.6.6 Metabolism of polyamines

SW 2.6.6.7 Biosynthesis of rhamnose (for the exosporium)

SW 2.6.6.8 Biosynthesis of legionaminic acid (for spore crust))

SW 2.7 Detoxification reactions

SW 3 Information processing

SW 3.1 Genetics

SW 3.1.1 DNA replication

SW 3.1.2 DNA replication/ based on similarity

SW 3.1.3 DNA condensation/ segregation

SW 3.1.4 DNA restriction/ modification

SW 3.1.5 DNA repair/ recombination

SW 3.1.5.1 Excision of prophages

SW 3.1.5.2 A/P endonucleases

SW 3.1.5.3 Spore-encoded non-homologous end joining system

SW 3.1.5.4 Double strand breaks repair

SW 3.1.5.5 Oxidized guanine (GO) DNA repair system

SW 3.1.5.6 Other proteins

SW 3.1.5.7 Mismatch repair (MMR)

SW 3.1.6 DNA repair/ recombination/ based on similarity

SW 3.1.7 Genetic competence

SW 3.1.8 Genetics/ other/ based on similarity

SW 3.1.9 Newly identified competence genes

SW 3.2 RNA synthesis and degradation

SW 3.2.1 Transcription

SW 3.2.1.1 RNA polymerase

SW 3.2.1.2 Sigma factors

SW 3.2.1.3 Transcription elongation/ termination

SW 3.2.1.4 Prophage/ phage transcription

SW 3.2.2 RNA chaperones

SW 3.2.3 DEAD-box RNA helicases

SW 3.2.4 RNases

SW 3.2.4.1 Exoribonucleases

SW 3.2.4.2 Endoribonucleases

SW 3.2.4.3 RNA pyrophosphohydrolase

SW 3.2.4.4 RNases/ Other

SW 3.2.4.5 Effectors of RNA degradation

SW 3.2.5 RNase/ based on similarity

SW 3.3 Protein synthesis, modification and degradation

SW 3.3.1 Translation

SW 3.3.1.1 Ribosomal RNA

SW 3.3.1.10 Aminoacyl-tRNA synthetases

SW 3.3.1.11 Translation factors

SW 3.3.1.12 Translation/ other

SW 3.3.1.13 Translation/ other/ based on similarity

SW 3.3.1.14 Translation factor modification and maturation

SW 3.3.1.2 rRNA modification and maturation

SW 3.3.1.3 rRNA modification and maturation/ based on similarity

SW 3.3.1.4 Ribosomal proteins

SW 3.3.1.5 Ribosomal protein/ based on similarity

SW 3.3.1.6 Ribosome assembly

SW 3.3.1.7 tRNA

SW 3.3.1.8 tRNA modification and maturation

SW 3.3.1.9 tRNA modification and maturation/ based on similarity

SW 3.3.2 Chaperones/ protein folding

SW 3.3.3 Chaperone/ protein folding/ based on similarity

SW 3.3.4 Protein modification

SW 3.3.4.1 Protein maturation

SW 3.3.4.2 Protein kinases

SW 3.3.4.4 Protein phosphatases

SW 3.3.4.5 Protein acetylases/ deacetylases

SW 3.3.4.6 Protein acetylase/ deacetylase/ based on similarity

SW 3.3.4.7 Protein deaminase

SW 3.3.4.8 Protein modification/ other

SW 3.3.5 Protein secretion

SW 3.3.6 Protein secretion/ based on similarity

SW 3.3.7 Proteolysis

SW 3.3.7.1 Protein quality control

SW 3.3.7.2 Extracellular feeding proteases

SW 3.3.7.3 Proteolysis during sporulation/ germination

SW 3.3.7.4 Additional proteins involved in proteolysis

SW 3.4 Regulation of gene expression

SW 3.4.1 Sigma factors and their control

SW 3.4.1.1 Sigma factors

SW 3.4.1.2 Control of sigma factors

SW 3.4.2 Transcription factors and their control

SW 3.4.2.1 Two-component system response regulators

SW 3.4.2.2 Control of two-component response regulators

SW 3.4.2.2.1 Two-component sensor kinase

SW 3.4.2.2.2 Response regulator aspartate phosphatase

SW 3.4.2.2.3 Control of response regulators/ other

SW 3.4.2.3 PRD-type regulators

SW 3.4.2.4 Control of PRD-type regulators

SW 3.4.2.5 Transcription factors/ other

SW 3.4.2.6 Transcription factor/ other/ based on similarity