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mobio-simple.obo
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format-version: 1.2
data-version: mobio/releases/2023-04-13/mobio-simple.owl
subsetdef: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension ""
subsetdef: http://purl.obolibrary.org/obo/valid_for_go_gp2term ""
subsetdef: http://purl.obolibrary.org/obo/valid_for_go_ontology ""
subsetdef: http://purl.obolibrary.org/obo/valid_for_gocam ""
ontology: mobio/mobio-simple
property_value: http://purl.org/dc/terms/description "None" xsd:string
property_value: http://purl.org/dc/terms/license https://creativecommons.org/licenses/unspecified
property_value: http://purl.org/dc/terms/title "Mobilome Ontology" xsd:string
property_value: owl:versionInfo "2023-04-13" xsd:string
[Term]
id: MOBIO:0000001
name: mobile genetic element
def: "Mobile genetic elements (MGEs) are a type of genetic material, a segment of DNA or RNA, that is capable of movement around a genome or that can be transferred from one species or replicon to another. These include transposons, plasmids, bacteriophages, and genomic islands. The mechanism of movement may be self-encoded or may rely on other enzymes and structures, such as a pilus. In bacteria, MGEs are often associated with the movement of antibiotic resistance genes and virulence factors from one species to another, for example by plasmid-mediated transfer." []
[Term]
id: MOBIO:0000002
name: plasmid
def: "A plasmid is a small, circular, double-stranded DNA molecule that is distinct from a cell's chromosomal DNA. Plasmids naturally exist in bacterial cells, and they also occur in some eukaryotes. Often, the genes carried in plasmids provide bacteria with genetic advantages, such as antibiotic resistance. Plasmids have a wide range of lengths, from roughly one thousand DNA base pairs to hundreds of thousands of base pairs." []
is_a: MOBIO:0000001 ! mobile genetic element
[Term]
id: MOBIO:0000003
name: transposable element
def: "A transposable element (TE or transposon) is a DNA sequence that can change its position within a genome, sometimes creating or reversing mutations and altering the cell's genome size. Transposition often results in duplication of the same genetic material. Transposons were originally discovered as \"jumping genes\" by Barbara McClintock." []
synonym: "transposon" EXACT []
is_a: MOBIO:0000001 ! mobile genetic element
relationship: part_of MOBIO:0000002 ! plasmid
[Term]
id: MOBIO:0000004
name: bacteriophage
def: "Bacteriophage are viral infectious agents with bacterial host organisms. Bacteriophage infect and replicate inside bacterial host cells, causing cell lysis as viral particles replicate. Bacteriophage are involved in DNA transfer between host organisms at low frequency through transduction: when segments of host DNA is accidentally packaged with the viral DNA, then integrated into a new host genome and later inherited." []
is_a: MOBIO:0000001 ! mobile genetic element
[Term]
id: MOBIO:0000006
name: Col Plasmids
def: "These plasmids contain genes that code for bacteriocins, proteins that can kill other bacteria." []
is_a: MOBIO:0000002 ! plasmid
[Term]
id: MOBIO:0000007
name: Fertility F-Plasmids
def: "Fertility F-plasmids contain tra genes and are capable of conjugation resulting in the expression of sex pilli." []
is_a: MOBIO:0000002 ! plasmid
[Term]
id: MOBIO:0000008
name: Resistance Plasmids
def: "These plasmids contain genes that provide resistance against antibiotics or poisons. Historically known as R-factors, before the nature of plasmids was understood." []
is_a: MOBIO:0000002 ! plasmid
[Term]
id: MOBIO:0000009
name: Degradative Plasmids
def: "These plasmids enable the digestion of unusual substances, e.g. toluene and salicylic acid." []
is_a: MOBIO:0000002 ! plasmid
[Term]
id: MOBIO:0000010
name: Virulence Plasmids
def: "which turn the bacterium into a pathogen" []
is_a: MOBIO:0000002 ! plasmid
[Term]
id: MOBIO:0000011
name: mechanism of plasmid maintenance
def: "The set of specific processes that needed for plasmid partition, stability, replication, and mobility. These are all processes that allow for the plasmid to move between organisms." []
[Term]
id: MOBIO:0000012
name: mechanism of replication
def: "Any process or set of processes through which plasmid replication is initiated." []
is_a: MOBIO:0000011 ! mechanism of plasmid maintenance
[Term]
id: MOBIO:0000013
name: theta type
def: "Replication by the Theta Mechanism - opening of the strands followed by RNA priming" []
is_a: MOBIO:0000012 ! mechanism of replication
[Term]
id: MOBIO:0000014
name: strand displacement
def: "strand displacement replication. Opening of the strands followed by RNA priming" []
is_a: MOBIO:0000012 ! mechanism of replication
[Term]
id: MOBIO:0000015
name: rolling circle replication
def: "A mechanism of plasmid replication in which the two strands are asynchronously copied, with one strand initially forming a single-stranded circle." []
is_a: MOBIO:0000012 ! mechanism of replication
[Term]
id: MOBIO:0000016
name: process or mechanism of genetic mobility
def: "Molecular mechanisms involved in the intracellular and intercellular transfer, integration, stabilization and recombination of mobile genetic elements." []
[Term]
id: MOBIO:0000017
name: conjugative transfer
def: "Conjugation is the process by which one bacterium transfers genetic material to another through direct contact. During conjugation, one bacterium serves as the donor of the genetic material, and the other serves as the recipient." []
synonym: "Conjugation" EXACT []
is_a: MOBIO:0000196 ! mechanism of plasmid mobility
[Term]
id: MOBIO:0000019
name: mechanism of stabilization
def: "Stabilization mechanisms facilitate and promote the survival of plasmids in their host cells. This includes mechanisms that allow for the survival of the host cell itself in harsh conditions." []
is_a: MOBIO:0000011 ! mechanism of plasmid maintenance
[Term]
id: MOBIO:0000020
name: transformation
def: "Transformation refers to process of free DNA uptake by competent cells and subsequent integration and functional expression of genes. Extracellular DNA continually enters the environment upon release from decomposing cells, disrupted cells, viral particles or excretion from living cells." []
is_a: MOBIO:0000016 ! process or mechanism of genetic mobility
[Term]
id: MOBIO:0000021
name: Toxin-antitoxin system
def: "A toxin-antitoxin system is a set of two or more closely linked genes that together encode both a protein 'poison' and a corresponding 'antidote'. When these systems are contained on plasmids – transferable genetic elements – they ensure that only the daughter cells that inherit the plasmid survive after cell division. If the plasmid is absent in a daughter cell, the unstable anti-toxin is degraded and the stable toxic protein kills the new cell; this is known as 'post-segregational killing' (PSK)." []
[Term]
id: MOBIO:0000022
name: Type I TA System
def: "Type I toxin-antitoxin systems rely on the base-pairing of complementary antitoxin RNA with the toxin's mRNA. Translation of the mRNA is then inhibited either by degradation via RNase III or by occluding the Shine-Dalgarno sequence or ribosome binding site." []
is_a: MOBIO:0000021 ! Toxin-antitoxin system
[Term]
id: MOBIO:0000023
name: Type II TA System
def: "In this system a labile protein antitoxin tightly binds and inhibits the activity of a stable toxin. Type II systems are organised in operons with the antitoxin protein typically being located upstream of the toxin. The antitoxin inhibits the toxin by downregulating its expression." []
is_a: MOBIO:0000021 ! Toxin-antitoxin system
[Term]
id: MOBIO:0000024
name: Type III TA System
def: "Type III toxin-antitoxin systems rely on direct interaction between a toxic protein and an RNA antitoxin. The toxic effects of the protein are neutralised by the RNA gene." []
is_a: MOBIO:0000021 ! Toxin-antitoxin system
[Term]
id: MOBIO:0000025
name: conjugal transfer subunit or complex
def: "The process of conjugation requires several different types of subunits and complexes." []
is_a: MOBIO:0000185 ! complex or subunit involved in plasmid maitenance
[Term]
id: MOBIO:0000026
name: pilX7
def: "Protein involved in the conjugal transfer of DNA. First identified in conjugative plasmid R6K of E. coli." [PMID:18375554, PMID:19717626]
is_a: MOBIO:0000025 ! conjugal transfer subunit or complex
[Term]
id: MOBIO:0000027
name: pilX8
def: "Protein involved in conjugal transfer of DNA. First identified in conjugative plasmid R6K of E. coli." [PMID:18375554, PMID:19717626]
is_a: MOBIO:0000025 ! conjugal transfer subunit or complex
[Term]
id: MOBIO:0000028
name: colicin immunity protein
def: "Colicin immunity proteins are plasmid encoded proteins necessary for protecting the cell against colicins. Colicins are toxins released by bacteria during times of stress" []
is_a: MOBIO:0000188 ! subunit or complex involved in stabilization
relationship: part_of MOBIO:0000006 ! Col Plasmids
[Term]
id: MOBIO:0000029
name: pilX9
def: "Protein involved in conjugal transfer of DNA. First identified in conjugative plasmid R6K of E. coli.\n" [PMID:18375554, PMID:19717626]
is_a: MOBIO:0000025 ! conjugal transfer subunit or complex
[Term]
id: MOBIO:0000030
name: pilX10
def: "Protein involved in conjugal transfer of DNA. First identified in conjugative plasmid R6K of E. coli. It is homologous to type IV secretory pathway VirB10 protein" [PMID:18375554, PMID:19717626]
is_a: MOBIO:0000025 ! conjugal transfer subunit or complex
[Term]
id: MOBIO:0000031
name: pilX11
def: "Protein involved in conjugal transfer of DNA. First identified in conjugative plasmid R6K of E. coli. It is homologous to P-type DNA transfer ATPase VirB11." [PMID:18375554, PMID:19717626]
is_a: MOBIO:0000025 ! conjugal transfer subunit or complex
[Term]
id: MOBIO:0000032
name: taxB
def: "conjugal transfer protein - conjugal transfer protein TraG" [PMID:18375554]
is_a: MOBIO:0000181 ! conjugation coupling protein
[Term]
id: MOBIO:0000033
name: RelE
def: "Toxic component of a type II toxin-antitoxin (TA) module. A sequence-specific, ribosome-dependent mRNA endoribonuclease that inhibits translation during amino acid starvation (the stringent response). In vitro acts by cleaving mRNA with high codon specificity in the ribosomal A site between positions 2 and 3. The stop codon UAG is cleaved at a fast rate while UAA and UGA are cleaved with intermediate and slow rates. In vitro mRNA cleavage can also occur in the ribosomal E site after peptide release from peptidyl-tRNA in the P site as well as on free 30S subunits. In vivo cuts frequently in the first 100 codons, most frequently after the second and third base and rarely near the stop codon. Overexpression of RelE results in the inhibition of bacterial growth and a sharp decrease in colony-forming ability which is neutralized by the labile cognate antitoxin RelB. Overexpression also sharply increases persisters (cells that neither grow nor die in the presence of bactericidal agents and are largely responsible for high levels of biofilm tolerance to antimicrobials). Plays a role in dormancy when expressed in high-density cells in the absence of antitoxin RelB; amino acid starvation and an unidentified extracellular factor promote dormancy, while expression of antitoxin RelB restores cell culturability. Acts with RelB as a corepressor of relBE transcription, considerably increasing the repression of RelB alone. 2 RelB dimers bind to 2 operator sequences; DNA-binding and repression is stronger when complexed with toxin/corepressor RelE by conditional cooperativity." [PMID:12526800, PMID:15576765, PMID:18375554, PMID:21324908, PMID:22210768, PMID:9767574]
is_a: MOBIO:0000051 ! Type II toxin
relationship: part_of MOBIO:0000123 ! RelB/RelE Type II toxin-antitoxin system
[Term]
id: MOBIO:0000034
name: DNA topoisomerase
def: "Topoisomerases are enzymes that participate in the overwinding or underwinding of DNA. They bind to double-stranded DNA and cut the phosphate backbone of either one or both the DNA strands. " []
is_a: MOBIO:0000187 ! subunit or complex involved in plasmid DNA replication
relationship: RO:0000056 MOBIO:0000013 ! participates in theta type
relationship: RO:0000056 MOBIO:0000014 ! participates in strand displacement
relationship: RO:0000056 MOBIO:0000015 ! participates in rolling circle replication
[Term]
id: MOBIO:0000035
name: traE
def: "The traE gene, first identified in plasmid RP4, is a homologue of E. coli DNA topoisomerase III." [PMID:18375554]
is_a: MOBIO:0000034 ! DNA topoisomerase
[Term]
id: MOBIO:0000036
name: Molecular Chaperone
def: "Molecular chaperones are proteins that assist the covalent folding or unfolding and the assembly or disassembly of other macromolecular structures. Chaperones are present when the macromolecules perform their normal biological functions and have correctly completed the processes of folding and/or assembly. The chaperones are concerned primarily with protein folding. One major function of chaperones is to prevent both newly synthesized polypeptide chains and assembled subunits from aggregating into nonfunctional structures. Many chaperones are heat shock proteins because the tendency to aggregate increases as proteins are denatured by stress.\n\nMolecular chaperones have been shown to be involved in both the assembly and disassembly of DNA replication complexes." []
is_a: MOBIO:0000187 ! subunit or complex involved in plasmid DNA replication
relationship: RO:0000056 MOBIO:0000015 ! participates in rolling circle replication
[Term]
id: MOBIO:0000037
name: DnaJ
def: "Chaperone DnaJ, also known as Hsp40 (heat shock protein 40 kD), is a molecular chaperone protein. The J domain of DnaJ interacts with Hsp70 heat shock proteins. DnaJ heat-shock proteins play a role in regulating the ATPase activity of Hsp70 heat-shock proteins." [PMID:18375554]
synonym: "Hsp40" EXACT []
is_a: MOBIO:0000036 ! Molecular Chaperone
[Term]
id: MOBIO:0000038
name: transposase
def: "Class 2 transposons encode transposase, which is an enzyme that binds to the end of a transposon and catalyzes the movement of the transposon to another part of the genome by a cut and paste mechanism or a replicative transposition mechanism.\n" []
is_a: MOBIO:0000190 ! subunit or complex involved in genetic mobility
relationship: part_of MOBIO:0000003 ! transposable element
[Term]
id: MOBIO:0000039
name: replication initiation protein RepC
def: "This protein is a specific topoisomerase involved in initiating replication. This protein is specifically required and may be rate-limiting for replication of the plasmid in vivo.\n" []
synonym: "repC" EXACT []
is_a: MOBIO:0000046 ! replication initiation protein
[Term]
id: MOBIO:0000040
name: Chromate transport protein
def: "These proteins reduce chromate accumulation and are essential for chromate resistance. They are composed of one or two copies of this region. The short-chain CHR proteins form heterodimer transporters which efflux chromate ions from the cytoplasm, while the long chain CHR proteins appear to have arisen from a gene fusion event of two short chain transporters" []
is_a: MOBIO:0000188 ! subunit or complex involved in stabilization
[Term]
id: MOBIO:0000041
name: Dihydrofolate reductase
def: "Dihydrofolate reductase converts dihydrofolate into tetrahydrofolate, a methyl group shuttle required for the de novo synthesis of purines, thymidylic acid, and certain amino acids." []
synonym: "DfrA" EXACT []
is_a: MOBIO:0000187 ! subunit or complex involved in plasmid DNA replication
relationship: RO:0000056 MOBIO:0000013 ! participates in theta type
relationship: RO:0000056 MOBIO:0000014 ! participates in strand displacement
relationship: RO:0000056 MOBIO:0000015 ! participates in rolling circle replication
[Term]
id: MOBIO:0000042
name: Class 1 Integrase
def: "Class 1 Integrase is a site-specific recombination enzyme that is part of the class 1 integron system. It recognizes the recombination site, attI1, which is where it will catalyze the insertion of gene casettes." [PMID:18193080, PMID:8574395]
synonym: "Intl1" EXACT []
is_a: MOBIO:0000104 ! recombinase
relationship: part_of MOBIO:0000043 ! integron
[Term]
id: MOBIO:0000043
name: integron
def: "Integrons are genetic mechanisms that allow bacteria to adapt and evolve rapidly through the acquisition, stockpiling and differential expression of new genes. Additionally, an integron will usually contain one or more gene cassettes that have been incorporated into it." []
is_a: MOBIO:0000001 ! mobile genetic element
relationship: part_of MOBIO:0000003 ! transposable element
[Term]
id: MOBIO:0000044
name: PadR family transcriptional regulator
def: "DNA-binding transcriptional regulator. Protein that is involved in negative regulation of phenolic acid metabolism." []
is_a: MOBIO:0000045 ! transcriptional regulator of operons found in MGEs
[Term]
id: MOBIO:0000045
name: transcriptional regulator of operons found in MGEs
def: "transcriptional regulation is the means by which a cell regulates the conversion of DNA to RNA (transcription), thereby orchestrating gene activity." []
is_a: MOBIO:0000190 ! subunit or complex involved in genetic mobility
[Term]
id: MOBIO:0000046
name: replication initiation protein
def: "protein required for initiation of replication" []
is_a: MOBIO:0000187 ! subunit or complex involved in plasmid DNA replication
relationship: RO:0000056 MOBIO:0000013 ! participates in theta type
relationship: RO:0000056 MOBIO:0000014 ! participates in strand displacement
relationship: RO:0000056 MOBIO:0000015 ! participates in rolling circle replication
[Term]
id: MOBIO:0000047
name: replication initiation protein RepA
def: "This protein is essential for plasmid replication; it is involved in copy control functions" []
synonym: "RepA" EXACT []
is_a: MOBIO:0000046 ! replication initiation protein
[Term]
id: MOBIO:0000048
name: Major pili subunit operon regulatory protein papB
def: "papB may act as both positive and negative regulator of the pyelonephritis-associated pili (pap) pilin gene transcription. It is found in the pap operon." []
is_a: MOBIO:0000025 ! conjugal transfer subunit or complex
relationship: RO:0000056 MOBIO:0000017 ! participates in conjugative transfer
[Term]
id: MOBIO:0000049
name: Type II post-segregation antitoxin
def: "Type II systems are organised in operons with the antitoxin protein typically being located upstream of the toxin. The antitoxin inhibits the toxin by downregulating its expression. " []
synonym: "antitoxin" EXACT []
is_a: MOBIO:0000191 ! component of a TA system
relationship: part_of MOBIO:0000023 ! Type II TA System
[Term]
id: MOBIO:0000050
name: C protein
def: "transcriptional regulator" []
is_a: MOBIO:0000045 ! transcriptional regulator of operons found in MGEs
[Term]
id: MOBIO:0000051
name: Type II toxin
def: "Type II systems are organised in operons with the antitoxin protein typically being located upstream of the toxin. The antitoxin inhibits the toxin by downregulating its expression. " []
is_a: MOBIO:0000191 ! component of a TA system
relationship: part_of MOBIO:0000023 ! Type II TA System
[Term]
id: MOBIO:0000052
name: CcdA
def: "Antitoxin component of a toxin-antitoxin (TA) module which inhibits the post-segregational killing (PSK) of plasmid-free cells, also referred to as a plasmid addiction system. Labile antitoxin with a half-life of about 1 hour in the presence of CcdB. Binds to and blocks the activity of CcdB; will also remove bound CcdB protein from the CcdB-GyrA complex by forming a CcdA-CcdB complex, a process termed rejuvenation. The N-terminal 36 residues are not required for rejuventation. Functions as a transcriptional corepressor for the ccdAB operon, repression also requires CcdB." [PMID:27357537]
is_a: MOBIO:0000049 ! Type II post-segregation antitoxin
relationship: part_of MOBIO:0000079 ! CcdA/CcdB Type II Toxin-antitoxin system
[Term]
id: MOBIO:0000053
name: CcdB
def: "Toxic component of a toxin-antitoxin (TA) module, functioning in plasmid maintainence. Responsible for the post-segregational killing (PSK) of plasmid-free cells, also referred to as a plasmid addiction system. Half-life of over 2 hours. Cell killing by CcdB is accompanied by filamentation, defects in chromosome and plasmid segregation, defects in cell division, formation of anucleate cells, decreased DNA synthesis and plasmid loss. Interferes with the activity of DNA gyrase, inducing it to form a covalent GyrA-DNA complex that cannot be resolved, thus promoting breakage of plasmid and chromosomal DNA. DNA breakage requires hydrolyzable ATP. Toxicity is inhibited by labile antitoxin CcdA, which blocks the activity of CcdB; CcdA also removes bound CcdB protein from the CcdB-GyrA complex by forming a CcdA-CcdB complex, a process termed rejuvenation. Also acts to inhibit partitioning of the chromosomal DNA. Functions as a transcriptional corepressor for the ccdAB operon, repression also requires CcdA." []
is_a: MOBIO:0000051 ! Type II toxin
relationship: part_of MOBIO:0000079 ! CcdA/CcdB Type II Toxin-antitoxin system
[Term]
id: MOBIO:0000054
name: replication initiation protein RepE
def: "Replication initiator in the monomeric form, and autogenous repressor in the dimeric form." []
synonym: "RepE" EXACT []
is_a: MOBIO:0000046 ! replication initiation protein
[Term]
id: MOBIO:0000055
name: plasmid partition system
def: "A plasmid partition system is the mechanism that assures the stable transmission of plasmids during bacterial cell division. Each plasmid has its independent replication system which control the number of copy of a plasmid in a cell." []
is_a: MOBIO:0000011 ! mechanism of plasmid maintenance
[Term]
id: MOBIO:0000056
name: Type I Partition System
def: "This system is also used by most bacteria for chromosome segregation. Type I partition system are composed of an ATPase which contains Walker motifs and a CBP which is structurally distinct in type Ia and Ib. ATPases and CBP from type Ia are longer than the one from type Ib, but both CBPs contain an arginine finger in their N-terminal part. ParA proteins from different plasmids and bacterial species show 25 to 30% of sequence identity to the protein ParA of the plasmid P1. The partition of type I system uses a \"diffusion-ratchet\" mechanism. " []
synonym: "Type 1 Partition System" EXACT []
is_a: MOBIO:0000055 ! plasmid partition system
[Term]
id: MOBIO:0000057
name: Type Ia Partition System
def: "def" []
is_a: MOBIO:0000056 ! Type I Partition System
[Term]
id: MOBIO:0000058
name: Type Ib partition system
def: "partition system" []
[Term]
id: MOBIO:0000059
name: Type II Partition System
def: "This system is composed of an actin-like ATPase, ParM, and a CBP called ParR. The centromere-like site, parC contains two sets of five 11 base pair direct repeats separated by the parMR promoter. The amino-acid sequence identity can go down to 15% between ParM and other actin-like ATPase." []
is_a: MOBIO:0000055 ! plasmid partition system
[Term]
id: MOBIO:0000060
name: Type III Partition System
def: "This mechanism is composed of tubulin-like GTPase termed TubZ, and the CBP is termed TubR. Amino-acid sequence identity can go down to 21% for TubZ proteins" []
is_a: MOBIO:0000055 ! plasmid partition system
[Term]
id: MOBIO:0000061
name: R388 Partition System
def: "The partition system of the plasmid R388 has been found within the stb operon. This operon is composed of three genes, stbA, stbB and stbC" []
is_a: MOBIO:0000055 ! plasmid partition system
[Term]
id: MOBIO:0000062
name: pSK1 partition system
def: "pSK1 is plasmid from Staphylococcus aureus. This plasmid has a partition system determined by a single gene, par, previously known as orf245. This gene has effect neither on the plasmid copy number nor on the growth rate (excluding its implication in a post-segregational killing system). A centromere-like binding sequence is present upstream the par gene, and is composed of seven direct repeats and one inverted repeat." []
is_a: MOBIO:0000055 ! plasmid partition system
[Term]
id: MOBIO:0000063
name: ParA
def: "Partitioning protein - ATPase" []
is_a: MOBIO:0000186 ! partitioning protein
relationship: part_of MOBIO:0000058 ! Type Ib partition system
[Term]
id: MOBIO:0000064
name: pifA
def: "PifA is encoded on plasmid F and is responsible for the exclusion of phage T7. E. coli cells that carry plasmid F inhibit the growth of bacteriophage T7. " [PMID:7883717]
is_a: MOBIO:0000193 ! protein conferring phage resistance
[Term]
id: MOBIO:0000065
name: replication initiation protein RepB
def: "Is essential for plasmid replication. Nicks the positive strand at the plus origin of replication." [PMID:18375554]
synonym: "Pi protein" EXACT []
synonym: "pir" EXACT []
synonym: "RepB" EXACT []
is_a: MOBIO:0000046 ! replication initiation protein
[Term]
id: MOBIO:0000066
name: replication regulatory protein
def: "regulates replication" []
is_a: MOBIO:0000187 ! subunit or complex involved in plasmid DNA replication
[Term]
id: MOBIO:0000067
name: repA2
def: "This protein is involved in the determination of copy number in gene replication. It binds to the repA promoter thus inhibiting the synthesis of the mRNA for the initiator protein RepA." []
is_a: MOBIO:0000066 ! replication regulatory protein
[Term]
id: MOBIO:0000068
name: SopA
def: "This protein is essential for plasmid partition. It ensures the proper distribution of newly replicated plasmids to daughter cells during cell division. SopA is trans-acting and binds to a sequence in the sopAB operon, thus regulating the expression of the operon. " [PMID:25753630, PMID:2670941]
is_a: MOBIO:0000186 ! partitioning protein
relationship: part_of MOBIO:0000058 ! Type Ib partition system
[Term]
id: MOBIO:0000069
name: SopB
def: "SopB is involved in the control of plasmid partitioning. It is trans-acting and binds specifically with the DNA segment containing the sopC region. The presence of SopB in the SopAB complex enhances SopA binding to the target DNA sequence." [PMID:25753630, PMID:2670941]
is_a: MOBIO:0000186 ! partitioning protein
relationship: part_of MOBIO:0000058 ! Type Ib partition system
[Term]
id: MOBIO:0000070
name: antirestriction protein KlcA
def: "Bacterial cells often contain type I DNA and restriction modification (RM) systems that degrade foreign DNA during bacterial conjugation. KlcA could be involved in inhibiting the RM systems and enhancing the success of conjugation." [PMID:20007596]
is_a: MOBIO:0000025 ! conjugal transfer subunit or complex
[Term]
id: MOBIO:0000071
name: group II intron reverse transcriptase/maturase
def: "Members of this protein family are multifunctional proteins encoded in most examples of bacterial group II introns. Member proteins have an N-terminal reverse transcriptase (RNA-directed DNA polymerase) domain followed by an RNA-binding maturase domain. These proteins play a role in site-specific DNA insertion." []
is_a: MOBIO:0000190 ! subunit or complex involved in genetic mobility
[Term]
id: MOBIO:0000072
name: hydrolase
def: "An enzyme that catalyzes the hydrolysis of a particular substrate. Many hydrolases participate in the inactivation of antibiotics." [PMID:25753630]
is_a: MOBIO:0000188 ! subunit or complex involved in stabilization
[Term]
id: MOBIO:0000073
name: single stranded DNA binding protein
def: "Single-strand DNA-binding protein (SSB) binds to single-stranded regions of deoxyribonucleic acid (DNA). Single-stranded DNA is produced during all aspects of DNA metabolism: replication, recombination, and repair." [PMID:25753630]
is_a: MOBIO:0000187 ! subunit or complex involved in plasmid DNA replication
[Term]
id: MOBIO:0000074
name: PsiB
def: "The PsiB protein inhibits the functional activity of RecA by binding to it. By doing so, this prevents RecA by catalyzing the autocleavage of LexA, which triggers the SOS response. " [PMID:19818715, PMID:25753630]
is_a: MOBIO:0000195 ! SOS response inhibitor
[Term]
id: MOBIO:0000075
name: PsiA
def: "PsiA is a protein encoded in the Psi region, which also encodes the PsiB protein. PsiA and PsiB are most likely transcribed in a polycistronic manner. The role of PsiA has not been identified, however it does not seem to influence SOS inhibition mediated by PsiB." [PMID:2201950, PMID:25753630]
is_a: MOBIO:0000195 ! SOS response inhibitor
[Term]
id: MOBIO:0000076
name: Plasmid SOS inhibition
def: "The process of bacterial conjugation involves the transfer of a conjugative plasmid as a single strand. The potentially deleterious SOS response, which is normally triggered by the appearance of single-stranded DNA, is suppressed in the recipient cell by a complex involving the PsiB protein. This complex inhibits the activity of RecA, preventing RecA from catalyzing the auto-cleavage of LexA, which activates the SOS response. SOS inhibition allows for the successful transfer of plasmid genetic information between bacterial cells through conjugation." []
is_a: MOBIO:0000019 ! mechanism of stabilization
relationship: part_of MOBIO:0000017 ! conjugative transfer
[Term]
id: MOBIO:0000077
name: Type I Toxin
def: "toxin" []
is_a: MOBIO:0000191 ! component of a TA system
relationship: part_of MOBIO:0000022 ! Type I TA System
[Term]
id: MOBIO:0000078
name: Type I Antitoxin
def: "Type I antitoxins are RNA molecules that are complementary to the toxin mRNA, thus binding to the toxin and inhibiting its translation." []
is_a: MOBIO:0000191 ! component of a TA system
relationship: part_of MOBIO:0000022 ! Type I TA System
[Term]
id: MOBIO:0000079
name: CcdA/CcdB Type II Toxin-antitoxin system
def: "The CcdA/CCdB Type II Toxin-antitoxin system is one example of the bacterial toxin-antitoxin (TA) systems that encode two proteins, one a potent inhibitor of cell proliferation (toxin) and the other its specific antidote (antitoxin). These systems preferentially guarantee growth of plasmid-carrying daughter cells in a bacterial population by killing newborn bacteria that have not inherited a plasmid copy at cell division (post-segregational killing)." []
is_a: MOBIO:0000023 ! Type II TA System
[Term]
id: MOBIO:0000080
name: Hok/sok system
def: "The hok/sok system is a postsegregational killing mechanism employed by the R1 plasmid in Escherichia coli to maintain a low copy number." []
is_a: MOBIO:0000022 ! Type I TA System
[Term]
id: MOBIO:0000081
name: Hok
def: "host killing - a long lived (half-life 20 minutes) toxin" [PMID:25753630]
is_a: MOBIO:0000077 ! Type I Toxin
relationship: part_of MOBIO:0000080 ! Hok/sok system
[Term]
id: MOBIO:0000082
name: Mok
def: "The mok reading frame in the hok/sok locus overlaps with the hok reading frame and is needed for the transcription of the hok gene." [PMID:25753630]
is_a: MOBIO:0000191 ! component of a TA system
relationship: part_of MOBIO:0000080 ! Hok/sok system
[Term]
id: MOBIO:0000083
name: TraM
def: "Conjugative DNA transfer (CDT) is the unidirectional transfer of ssDNA plasmid from a donor to a recipient cell. It is the central mechanism by which antibiotic resistance and virulence factors are propagated in bacterial populations. Part of the relaxosome, which facilitates a site- and strand-specific cut in the origin of transfer by TraI, at the nic site. Cooperatively binds 3 regions in the F plasmid oriT locus; 2 are required for autoregulation while the other is required for plasmid transfer. Bends oriT DNA less than 50 degrees. Plasmid specificity is conferred by the TraD-TraM pair." [PMID:25753630]
is_a: MOBIO:0000182 ! subunit of relaxosome
[Term]
id: MOBIO:0000084
name: TraJ
def: "TraJ is a conjugal transfer transcriptional regulator.It recruits the relaxasome complex to the oriT site" [PMID:25753630]
is_a: MOBIO:0000182 ! subunit of relaxosome
[Term]
id: MOBIO:0000085
name: TraY
def: "TraY is a subunit of the relaxosome. It facilitates the binding of the relaxase to the oriT, and enhances cleaving activity." [PMID:25753630]
is_a: MOBIO:0000182 ! subunit of relaxosome
[Term]
id: MOBIO:0000086
name: TraA
def: "The traA gene codes for relaxase, which is an enzyme that initiates plasmid DNA transfer during bacterial conjugation. Relaxase forms a relaxosome complex with auxiliary proteins to initiate conjugation. Relaxosome binds to the origin of transfer (oriT) sequence and cleaves the DNA strand that will be transferred (the T strand)." [PMID:25753630]
is_a: MOBIO:0000120 ! mobility relaxase
[Term]
id: MOBIO:0000087
name: TraL
def: "Membrane protein involved in F pilin formation" [PMID:25753630]
is_a: MOBIO:0000183 ! subunit of mating pair formation complex
[Term]
id: MOBIO:0000088
name: traK
def: "conjugal transfer protein" [PMID:25753630]
is_a: MOBIO:0000025 ! conjugal transfer subunit or complex
[Term]
id: MOBIO:0000089
name: TraB
def: "conjugal transfer protein" [PMID:25753630]
is_a: MOBIO:0000025 ! conjugal transfer subunit or complex
[Term]
id: MOBIO:0000090
name: resolvase
def: "A family of nucleases involved in resolution during DNA recombination. Resolvase enzymes resolve DNA intermediates known as junctions. Some resolvases have also been identified as repressors of transposase enzymes." []
synonym: "recombinase" EXACT []
is_a: MOBIO:0000190 ! subunit or complex involved in genetic mobility
relationship: part_of MOBIO:0000003 ! transposable element
[Term]
id: MOBIO:0000091
name: ResD
def: "resolvase" [PMID:25753630]
is_a: MOBIO:0000090 ! resolvase
[Term]
id: MOBIO:0000092
name: helicase
def: "A helicase is an enzyme that participates in separating the strands of a nucleic acid duplex, which is required for processes such as DNA replication, transcription, recombination, and repair." []
is_a: MOBIO:0000187 ! subunit or complex involved in plasmid DNA replication
[Term]
id: MOBIO:0000093
name: UvrD
def: "UvrD is a helicase that participates in nucleotide excision repair and other DNA repair and replication processes." [PMID:17190599]
is_a: MOBIO:0000092 ! helicase
[Term]
id: MOBIO:0000094
name: IS1 InsA
def: "tranposase - Family IS1" [PMID:25753630]
is_a: MOBIO:0000038 ! transposase
[Term]
id: MOBIO:0000095
name: IS1 InsB
def: "tranposase - family IS1\n" []
is_a: MOBIO:0000038 ! transposase
[Term]
id: MOBIO:0000096
name: DNA resolvase
def: "DNA resolvase" [PMID:25753630]
is_a: MOBIO:0000090 ! resolvase
[Term]
id: MOBIO:0000097
name: PemI
def: "Antitoxin component of a type II toxin-antitoxin (TA) module. Labile antitoxin that binds to its cognate PemK endoribonuclease toxin and neutralizes its activity. Responsible for the stable maintenance of the plasmid during cell division. Both PemI and PemK proteins bind to the promoter region of the pem operon to autoregulate their synthesis." [PMID:17416361, PMID:25753630]
is_a: MOBIO:0000049 ! Type II post-segregation antitoxin
relationship: part_of MOBIO:0000124 ! PemI/PemK type II Toxin-antitoxin system
[Term]
id: MOBIO:0000098
name: PemK
def: "Toxic component of a type II toxin-antitoxin (TA) module. Probably functions as an endoribonuclease. Responsible for the stable maintenance of the plasmid during cell division by postsegregational killing of plasmid-less daughter cells. Neutralized by coexpression with cognate antitoxin PemI. Both PemI and PemK proteins bind to the promoter region of the pem operon to autoregulate their synthesis." [PMID:17416361, PMID:25753630]
is_a: MOBIO:0000051 ! Type II toxin
relationship: part_of MOBIO:0000124 ! PemI/PemK type II Toxin-antitoxin system
[Term]
id: MOBIO:0000099
name: RepA4
def: "Associated with replication initiation." []
is_a: MOBIO:0000046 ! replication initiation protein
[Term]
id: MOBIO:0000100
name: ArgR family transcriptional regulator
def: "Arginine repressor" [PMID:25753630]
synonym: "ArgR" EXACT []
is_a: MOBIO:0000045 ! transcriptional regulator of operons found in MGEs
[Term]
id: MOBIO:0000101
name: TraI
def: "TraI codes for a relaxase of F plasmids, which cleaves the DNA in the initiationof plasmid conjugation. It has also been identified as DNA helicase I. DNA helicase I is a potent, highly processive DNA-dependent ATPase, able to unwind about 1.1 kb dsDNA per second in a 5' to 3' manner. TraI forms a covalent 5'-phosphotyrosine intermediate linkage to the ssDNA. The transesterified T-strand moves from the donor cell to the recipient cell in a 5'to 3' direction, with the DNA helicase activity of TraI unwinding the DNA" [PMID:26899414]
is_a: MOBIO:0000120 ! mobility relaxase
[Term]
id: MOBIO:0000102
name: TraX
def: "conjugal transfer protein - pilus acetylase" [PMID:25753630]
is_a: MOBIO:0000025 ! conjugal transfer subunit or complex
[Term]
id: MOBIO:0000103
name: MarR famiy transcriptional regulator
def: "Members of the Multiple Antibiotic Resistance Regulator (MarR) family. MarR regulates an operon that encodes a drug efflux pump, and mutations in proteins that partcipate in this system lead to a multiple antibiotic resistance phenotype. MarR proteins are members of the winged helix-turn-helix family of transcription factors. Some MarR homologs activate transcription, while most repress gene activity." []
is_a: MOBIO:0000045 ! transcriptional regulator of operons found in MGEs
[Term]
id: MOBIO:0000104
name: recombinase
def: "Recombinases are genetic recombination enzymes. DNA recombinases are widely used in multicellular organisms to manipulate the structure of genomes, and to control gene expression." []
is_a: MOBIO:0000190 ! subunit or complex involved in genetic mobility
[Term]
id: MOBIO:0000105
name: Sin
def: "Serine recombinases can rearrange DNA sequences with topological selectivity." [PMID:11994145]
is_a: MOBIO:0000104 ! recombinase
[Term]
id: MOBIO:0000106
name: bin
def: "resolvase/integrase \na nuclease which is involved in DNA recombination." []
is_a: MOBIO:0000090 ! resolvase
[Term]
id: MOBIO:0000108
name: AbiK
def: "A reverse transcriptase (RT) is an enzyme used to generate complementary DNA (cDNA) from an RNA template, a process termed reverse transcription." []
is_a: MOBIO:0000193 ! protein conferring phage resistance
[Term]
id: MOBIO:0000109
name: ArsR family transcriptional regulator
def: "functions as a transcriptional repressor of an arsenic resistance operon" []
is_a: MOBIO:0000045 ! transcriptional regulator of operons found in MGEs
[Term]
id: MOBIO:0000110
name: transposon DNA invertase
def: "Enzyme that repress transposases" []
is_a: MOBIO:0000090 ! resolvase
[Term]
id: MOBIO:0000111
name: IS6 family transposase
def: "The transposase produces nicks at the donor and the recipient sites. The 3' end of the transposon is ligated to the 5' end of the target sequence. The transposon is duplicated after DNA replication." []
is_a: MOBIO:0000038 ! transposase
[Term]
id: MOBIO:0000112
name: transposon Tn552 resolvase
def: "Resolvase catalyzes the resolution (a site-specific recombination) of the cointegrated replicon to yield the final transposition products" []
is_a: MOBIO:0000090 ! resolvase
[Term]
id: MOBIO:0000113
name: Topoisomerase III
def: "Topoisomerase III can introduce single-strand breaks that are required for DNA to be exchanged by adjacent chromosomes." []
is_a: MOBIO:0000034 ! DNA topoisomerase
[Term]
id: MOBIO:0000114
name: transposase IS66 family protein
def: "Catalysis of the transposition of transposable elements or transposons. Transposases are involved in recombination required for transposition and are site-specific for the transposon/transposable element." []
is_a: MOBIO:0000038 ! transposase
[Term]
id: MOBIO:0000115
name: Tn3 family transposase
def: "Catalysis of the transposition of transposable elements or transposons. Transposases are involved in recombination required for transposition and are site-specific for the transposon/transposable element." [PMID:26899414]
is_a: MOBIO:0000038 ! transposase
[Term]
id: MOBIO:0000116
name: IncFII family plasmid replication intiator RepA
def: "Initiates plasmid replication." [PMID:26899414]
is_a: MOBIO:0000046 ! replication initiation protein
[Term]
id: MOBIO:0000117
name: Fertility inhibition protein
def: "One of the components on the FinOP fertility inhibition complex, which inhibits the expression of traJ gene, which in turn regulates the expression of some 20 transfer genes. The transfer genes are responsible for the process, called conjugal transfer, in which DNA is transmitted from one bacterial host to another. RNA-binding that interacts with the traJ mRNA and its antisense RNA, finP, stabilizing finP against endonucleolytic degradation and facilitating sense-antisense RNA recognition." [PMID:25753630, PMID:26899414, PMID:9819055]
synonym: "FinO" EXACT []
is_a: MOBIO:0000025 ! conjugal transfer subunit or complex
relationship: part_of MOBIO:0000007 ! Fertility F-Plasmids
[Term]
id: MOBIO:0000118
name: relaxase
def: "Enzymes that catalyze the cleavage of phosphodiester bonds in DNA in a site- and strand- specific manner, creating nicks that initiate either the processes of plasmid conjugation or rolling circle replication." []
is_a: MOBIO:0000025 ! conjugal transfer subunit or complex
is_a: MOBIO:0000187 ! subunit or complex involved in plasmid DNA replication
relationship: part_of MOBIO:0000127 ! relaxosome
relationship: RO:0000056 MOBIO:0000015 ! participates in rolling circle replication
[Term]
id: MOBIO:0000119
name: replicative relaxase
def: "The nicks produced by Rep relaxases initiate plasmid or virus RCR" []
is_a: MOBIO:0000118 ! relaxase
[Term]
id: MOBIO:0000120
name: mobility relaxase
def: "Mob relaxases nick at origin of transfer (oriT) to initiate the process of DNA mobilization and transfer known as bacterial conjugation. Mob relaxases are part of the relaxosome." []
is_a: MOBIO:0000118 ! relaxase
[Term]
id: MOBIO:0000121
name: Coupling protein TraD
def: "Conjugative DNA transfer (CDT) is the unidirectional transfer of ssDNA plasmid from a donor to a recipient cell. It is the central mechanism by which antibiotic resistance and virulence factors are propagated in bacterial populations. Couples the transferosome to a type IV secretion system. Probably forms a pore through which single-stranded plasmid DNA is transferred to the secretion system. The last 37 residues are important for determining plasmid specificity and transfer efficiency, with additional specificity conferred by the TraD-TraM pair." [PMID:26899414]
is_a: MOBIO:0000181 ! conjugation coupling protein
[Term]
id: MOBIO:0000122
name: RelB
def: "Antitoxin component of a type II toxin-antitoxin (TA) module. Counteracts the effect of cognate toxin RelE via direct protein-protein interaction, preventing RelE from entering the ribosome A site and thus inhibiting its endoribonuclease activity. An autorepressor of relBE operon transcription. 2 RelB dimers bind to 2 operator sequences; DNA-binding and repression is stronger when complexed with toxin/corepressor RelE by conditional cooperativity. Increased transcription rate of relBE and activation of relE is consistent with a lower level of RelB in starved cells due to degradation of RelB by protease Lon." []
synonym: "DinJ" EXACT []
is_a: MOBIO:0000049 ! Type II post-segregation antitoxin
relationship: part_of MOBIO:0000123 ! RelB/RelE Type II toxin-antitoxin system
[Term]
id: MOBIO:0000123
name: RelB/RelE Type II toxin-antitoxin system
def: "RelB is the antitoxin component of a type II toxin-antitoxin (TA) module. Counteracts the effect of cognate toxin RelE via direct protein-protein interaction, preventing RelE from entering the ribosome A site and thus inhibiting its endoribonuclease activity. An autorepressor of relBE operon transcription. 2 RelB dimers bind to 2 operator sequences; DNA-binding and repression is stronger when complexed with toxin/corepressor RelE by conditional cooperativity. Increased transcription rate of relBE and activation of relE is consistent with a lower level of RelB in starved cells due to degradation of RelB by protease Lon.RelE is the toxic component of a type II toxin-antitoxin (TA) module. A sequence-specific, ribosome-dependent mRNA endoribonuclease that inhibits translation during amino acid starvation (the stringent response). In vitro acts by cleaving mRNA with high codon specificity in the ribosomal A site between positions 2 and 3. The stop codon UAG is cleaved at a fast rate while UAA and UGA are cleaved with intermediate and slow rates. In vitro mRNA cleavage can also occur in the ribosomal E site after peptide release from peptidyl-tRNA in the P site as well as on free 30S subunits. In vivo cuts frequently in the first 100 codons, most frequently after the second and third base and rarely near the stop codon. Overexpression of RelE results in the inhibition of bacterial growth and a sharp decrease in colony-forming ability which is neutralized by the labile cognate antitoxin RelB. Overexpression also sharply increases persisters (cells that neither grow nor die in the presence of bactericidal agents and are largely responsible for high levels of biofilm tolerance to antimicrobials). Plays a role in dormancy when expressed in high-density cells in the absence of antitoxin RelB; amino acid starvation and an unidentified extracellular factor promote dormancy, while expression of antitoxin RelB restores cell culturability. Acts with RelB as a corepressor of relBE transcription, considerably increasing the repression of RelB alone. 2 RelB dimers bind to 2 operator sequences; DNA-binding and repression is stronger when complexed with toxin/corepressor RelE by conditional cooperativity." []
is_a: MOBIO:0000023 ! Type II TA System
[Term]
id: MOBIO:0000124
name: PemI/PemK type II Toxin-antitoxin system
def: "Toxin Antitoxin system Type II" []
is_a: MOBIO:0000023 ! Type II TA System
[Term]
id: MOBIO:0000125
name: HicA
def: "HicA is a toxin part of the HicA/HicB toxin-antitoxin system overexpression of the HicA toxin, which exhibits mRNA interferase activity, causes cleavage of mRNAs and an arrest of cell growth" [PMID:25917909]
is_a: MOBIO:0000051 ! Type II toxin
[Term]
id: MOBIO:0000126
name: mobC
def: "The relaxosome protein MobC promotes conjugal plasmid mobilization by extending DNA strand separation to the nick site at the origin of transfer" [PMID:24905728]
is_a: MOBIO:0000182 ! subunit of relaxosome
[Term]
id: MOBIO:0000127
name: relaxosome
def: "Relaxosome is the complex of proteins that initiates bacterial conjugation. The subunits that make up the relaxosome are encoded by the tra gene in the origin of transfer, oriT, region on the plasmid, and in the host cell genome." []
is_a: MOBIO:0000025 ! conjugal transfer subunit or complex
relationship: part_of MOBIO:0000007 ! Fertility F-Plasmids
relationship: RO:0000056 MOBIO:0000017 ! participates in conjugative transfer
[Term]
id: MOBIO:0000128
name: mobA
def: "DNA strand transferase,conjugal transfer relaxase TraA,Ti-type conjugative transfer relaxase TraA,MobA/MobL family" []
is_a: MOBIO:0000120 ! mobility relaxase
[Term]
id: MOBIO:0000129
name: MobB
def: "MobB promotes the specific transfer of the plasmid in the presence of conjugative plasmids." []
is_a: MOBIO:0000025 ! conjugal transfer subunit or complex
[Term]
id: MOBIO:0000130
name: ParDE type II toxin-antitoxin system
def: "The parDE type II toxin-antitoxin system is one example of the bacterial toxin-antitoxin (TA) systems that encode two proteins, one a potent inhibitor of cell proliferation (toxin) and the other its specific antidote (antitoxin)." []
is_a: MOBIO:0000023 ! Type II TA System
[Term]
id: MOBIO:0000131
name: ParE
def: "Toxin component of a toxin-antitoxin (TA) module involved in plasmid partition. Acts by inhibiting DNA gyrase, converting supercoiled plasmid DNA into a singly cleaved linear form in an ATP-dependent fashion. To do so it probably interacts with one of the gyrase subunits. Gyrase inhibition is prevented by antitoxin ParD, and is reversed in vitro by incubation with ParD. In cells that have lost the plasmid filamentation and growth inhibition occur; this is suppressed when ParD is supplied in trans. The parDE operon alone is capable of stabilizing an RK2-derived minireplicon under defined growth conditions in several different Gram-negative bacteria. It does so by the post-segregational killing (PSK) of plasmid-free cells, also referred to as a plasmid addiction system." [PMID:25232178, PMID:26823590]
is_a: MOBIO:0000051 ! Type II toxin
relationship: part_of MOBIO:0000130 ! ParDE type II toxin-antitoxin system
[Term]
id: MOBIO:0000132
name: VagC
def: "Antitoxin of the VagCD toxin-antitoxin system" [PMID:23733457]
is_a: MOBIO:0000049 ! Type II post-segregation antitoxin
relationship: part_of MOBIO:0000134 ! VagCD Type II Toxin-antitoxin system
[Term]
id: MOBIO:0000133
name: VagD
def: "Toxin of the VagCD toxin antitoxin system" [PMID:23733457]
is_a: MOBIO:0000051 ! Type II toxin
relationship: part_of MOBIO:0000134 ! VagCD Type II Toxin-antitoxin system
[Term]
id: MOBIO:0000134
name: VagCD Type II Toxin-antitoxin system
def: "A toxin-antitoxin system is a set of two or more closely linked genes that together encode both a protein 'poison' and a corresponding 'antidote'. When these systems are contained on plasmids – transferable genetic elements – they ensure that only the daughter cells that inherit the plasmid survive after cell division." []
is_a: MOBIO:0000023 ! Type II TA System
[Term]
id: MOBIO:0000135
name: Acinetobacter baumannii ACICU plasmid pACICU1 addiction module antitoxin
def: "an antibody that counteracts a toxin" [PMID:18411315]
is_a: MOBIO:0000049 ! Type II post-segregation antitoxin
[Term]
id: MOBIO:0000136
name: phd
def: "The product of the prevent host death (phd) gene is a type II antitoxin that is part of the doc/phd TA system." [PMID:10358024]
is_a: MOBIO:0000049 ! Type II post-segregation antitoxin
relationship: part_of MOBIO:0000192 ! Doc/Phd Type II TA System
[Term]
id: MOBIO:0000137
name: doc
def: "The product of the death on curing (doc) gene is a type II toxin." []
is_a: MOBIO:0000051 ! Type II toxin
relationship: part_of MOBIO:0000192 ! Doc/Phd Type II TA System
[Term]
id: MOBIO:0000138
name: ParB
def: "Involved in plasmid partition. Localize to both poles of the predivisional cell following completion of DNA replication. Binds to the DNA origin of replication." []
is_a: MOBIO:0000186 ! partitioning protein
relationship: part_of MOBIO:0000058 ! Type Ib partition system
[Term]
id: MOBIO:0000139
name: ResA
def: "a nuclease which is involved in DNA recombination." [PMID:23733457]
is_a: MOBIO:0000090 ! resolvase
[Term]
id: MOBIO:0000140
name: StbB
def: "Mediator of plasmid stability" [PMID:25232178]
is_a: MOBIO:0000051 ! Type II toxin
[Term]
id: MOBIO:0000141
name: StbA
def: "plasmid stability protein" [PMID:25232178]
is_a: MOBIO:0000051 ! Type II toxin
[Term]
id: MOBIO:0000142
name: Zeta
def: "Type II toxin" [PMID:25845845]
is_a: MOBIO:0000051 ! Type II toxin
[Term]
id: MOBIO:0000143
name: StbD
def: "Part of the PhdYeFM antitoxin toxin system" []
is_a: MOBIO:0000049 ! Type II post-segregation antitoxin
[Term]
id: MOBIO:0000144
name: Sok
def: "Suppression of killing - a short lived (half-life 30 seconds) RNA antitoxin" []
is_a: MOBIO:0000078 ! Type I Antitoxin
relationship: part_of MOBIO:0000080 ! Hok/sok system
[Term]
id: MOBIO:0000145
name: FlmA
def: "Toxin of the Flm toxin/antitoxin system - F-plasmid homologues of hok/mok TA system" [PMID:7612932]
is_a: MOBIO:0000077 ! Type I Toxin
[Term]
id: MOBIO:0000146
name: ParD
def: "ParD is a plasmid anti-toxin that forms a ribbon-helix-helix DNA binding structure. It stabilises plasmids by inhibiting ParE toxicity in cells that express ParD and ParE. ParD forms a dimer and also regulates its own promoter (parDE)." [PMID:17320955]
is_a: MOBIO:0000049 ! Type II post-segregation antitoxin
relationship: part_of MOBIO:0000130 ! ParDE type II toxin-antitoxin system
[Term]
id: MOBIO:0000147
name: Epsilon
def: "Epsilon antitoxin, produced by various prokaryotes, forms part of a post-segregational killing system, which is involved in the initiation of programmed cell death of plasmid-free cells." [PMID:20660665]
is_a: MOBIO:0000049 ! Type II post-segregation antitoxin
[Term]
id: MOBIO:0000148
name: PndA
def: "PndA encodes toxin proteins containing single transmembrane domains. It is part of the PndA-PndB (promotion of nucleic acid acid degradation) TA." [PMID:19052321]
is_a: MOBIO:0000077 ! Type I Toxin
[Term]
id: MOBIO:0000149
name: YafO
def: "toxin type II" []
is_a: MOBIO:0000051 ! Type II toxin
[Term]
id: MOBIO:0000150
name: HipA
def: "type II toxin" [PMID:22720069]
is_a: MOBIO:0000051 ! Type II toxin
[Term]
id: MOBIO:0000151
name: HicB
def: "antitoxin type II" [PMID:25917909]
is_a: MOBIO:0000049 ! Type II post-segregation antitoxin
[Term]
id: MOBIO:0000152
name: MazE
def: "Type II antitoxin" [PMID:41136]
is_a: MOBIO:0000049 ! Type II post-segregation antitoxin
relationship: part_of MOBIO:0000172 ! MazEF Type II toxin-antitoxin system
[Term]
id: MOBIO:0000153
name: MazF
def: "Type II toxin" [PMID:24275114]
is_a: MOBIO:0000051 ! Type II toxin
relationship: part_of MOBIO:0000172 ! MazEF Type II toxin-antitoxin system
[Term]
id: MOBIO:0000154
name: Omega
def: "Type II TA mediator" [PMID:18511120]
is_a: MOBIO:0000155 ! Type II TA mediator
[Term]
id: MOBIO:0000155
name: Type II TA mediator
def: "Mediator of TA systems" []
is_a: MOBIO:0000191 ! component of a TA system
relationship: part_of MOBIO:0000023 ! Type II TA System
[Term]
id: MOBIO:0000156
name: YafN
def: "antitoxin of YafO-YafN TA system" [PMID:16397293, PMID:16738553, PMID:19617347, PMID:9278503]
is_a: MOBIO:0000049 ! Type II post-segregation antitoxin
[Term]
id: MOBIO:0000157
name: TraG
def: "conjugal transfer mating pair stabilization protein" [PMID:11150665]
is_a: MOBIO:0000181 ! conjugation coupling protein
[Term]
id: MOBIO:0000158