Gordonia pseudamarae strain BEN371 plasmid p1, complete sequence.
Bacteria; Actinomycetota; Actinomycetes; Mycobacteriales; Gordoniaceae; Gordonia.
Cocultivation of an ultrasmall environmental parasitic bacterium with lytic ability against bacteria associated with wastewater foams
Submitted (01-NOV-2019) Department of Physiology, Anatomy & Microbiology, La Trobe University, Kingsbury Drive, Bundoora, Victoria 3086, Australia
REFSEQ INFORMATION: The reference sequence is identical to\nCP045807.1.\nThe annotation was added by the NCBI Prokaryotic Genome Annotation\nPipeline (PGAP). Information about PGAP can be found here:\nhttps://www.ncbi.nlm.nih.gov/genome/annotation_prok/\n\n##Genome-Assembly-Data-START##\nAssembly Date :: NOV-2019\nAssembly Method :: Unicycler v. 0.4.8\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 105x\nSequencing Technology :: Illumina MiSeq, Oxford Nanopore MinION\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 11/21/2022 04:38:09\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.3\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 4,657\nCDSs (total) :: 4,588\nGenes (coding) :: 4,477\nCDSs (with protein) :: 4,477\nGenes (RNA) :: 69\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 54\nncRNAs :: 3\nPseudo Genes (total) :: 111\nCDSs (without protein) :: 111\nPseudo Genes (ambiguous residues) :: 0 of 111\nPseudo Genes (frameshifted) :: 34 of 111\nPseudo Genes (incomplete) :: 87 of 111\nPseudo Genes (internal stop) :: 16 of 111\nPseudo Genes (multiple problems) :: 24 of 111\nCRISPR Arrays :: 5\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF013793.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF022388.2
COORDINATES: protein motif:HMM:NF014814.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF014273.2
ParB N-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF020535.2
COORDINATES: similar to AA sequence:RefSeq:WP_003415982.1
GO:0097573 - glutathione oxidoreductase activity [Evidence IEA]
incomplete; partial in the middle of a contig; missing N-terminus and C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF012651.2
GO:0003697 - single-stranded DNA binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF017524.2
plasmid mobilization relaxosome protein MobC
relaxase/mobilization nuclease domain-containing protein
COORDINATES: protein motif:HMM:NF012798.2
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010078638.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF012610.2
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003942661.1
TnsA-like heteromeric transposase endonuclease subunit
COORDINATES: similar to AA sequence:RefSeq:WP_003942665.1
COORDINATES: similar to AA sequence:RefSeq:WP_003942663.1
COORDINATES: protein motif:HMM:NF018259.2
COORDINATES: similar to AA sequence:RefSeq:WP_017975738.1
metalloregulator ArsR/SmtB family transcription factor
COORDINATES: similar to AA sequence:RefSeq:WP_006947237.1
COORDINATES: similar to AA sequence:RefSeq:WP_006943046.1
GO:0005886 - plasma membrane [Evidence IEA]
GO:0004190 - aspartic-type endopeptidase activity [Evidence IEA]
GO:0009306 - protein secretion [Evidence IEA]; GO:0006508 - proteolysis [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF023903.2
COORDINATES: similar to AA sequence:RefSeq:WP_006438312.1
COORDINATES: similar to AA sequence:RefSeq:WP_006336735.1
COORDINATES: similar to AA sequence:RefSeq:WP_006944402.1
COORDINATES: similar to AA sequence:RefSeq:WP_016932017.1
COORDINATES: similar to AA sequence:RefSeq:WP_006554876.1
COORDINATES: similar to AA sequence:RefSeq:WP_006902510.1
COORDINATES: similar to AA sequence:RefSeq:WP_011782974.1
COORDINATES: similar to AA sequence:RefSeq:WP_006902508.1
GO:0005375 - copper ion transmembrane transporter activity [Evidence IEA]; GO:0043682 - P-type divalent copper transporter activity [Evidence IEA]
GO:0006825 - copper ion transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006357616.1
COORDINATES: similar to AA sequence:RefSeq:WP_006554281.1
heavy metal-associated domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014375470.1
COORDINATES: similar to AA sequence:RefSeq:WP_012686863.1
metal-sensitive transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_006241816.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_017579412.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_007296085.1
COORDINATES: similar to AA sequence:RefSeq:WP_007296084.1
COORDINATES: similar to AA sequence:RefSeq:WP_006554195.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]; GO:0015446 - ATPase-coupled arsenite transmembrane transporter activity [Evidence IEA]
GO:0071722 - detoxification of arsenic-containing substance [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005264409.1
arsenite efflux transporter metallochaperone ArsD
COORDINATES: similar to AA sequence:RefSeq:WP_006945080.1
low molecular weight phosphatase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006554198.1
COORDINATES: similar to AA sequence:RefSeq:WP_006360796.1
GO:0008490 - arsenite secondary active transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012687286.1
COORDINATES: similar to AA sequence:RefSeq:WP_005195323.1
COORDINATES: protein motif:HMM:NF033516.0
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF039733.1
COORDINATES: similar to AA sequence:RefSeq:WP_016667704.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004519 - endonuclease activity [Evidence IEA]
GO:0006304 - DNA modification [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009481354.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
class I SAM-dependent DNA methyltransferase
COORDINATES: similar to AA sequence:RefSeq:WP_011780466.1
COORDINATES: similar to AA sequence:RefSeq:WP_005149445.1
COORDINATES: similar to AA sequence:RefSeq:WP_014928836.1
COORDINATES: similar to AA sequence:RefSeq:WP_006897740.1
TraM recognition domain-containing protein
COORDINATES: protein motif:HMM:NF024798.2
lytic transglycosylase domain-containing protein
COORDINATES: protein motif:HMM:NF018447.2
COORDINATES: protein motif:HMM:NF013700.2
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_006897749.1
COORDINATES: similar to AA sequence:RefSeq:WP_006901437.1
COORDINATES: similar to AA sequence:RefSeq:WP_005199750.1
COORDINATES: similar to AA sequence:RefSeq:WP_006897753.1
COORDINATES: similar to AA sequence:RefSeq:WP_014928849.1
COORDINATES: similar to AA sequence:RefSeq:WP_006901429.1
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF024949.2
COORDINATES: similar to AA sequence:RefSeq:WP_014984187.1
COORDINATES: similar to AA sequence:RefSeq:WP_013798036.1