Acidovorax temperans strain LMJ plasmid pJG1, complete sequence.
Bacteria; Pseudomonadota; Betaproteobacteria; Burkholderiales; Comamonadaceae; Acidovorax.
De novo assembly of the genome of a novel bacterial strain: Acidovorax temperans strain LMJ
Submitted (02-FEB-2023) Department of Natural Sciences, University of West Georgia, 1601 Maple street, Carrollton, GA 30118, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP117195.1.\nBacteria and source DNA available from Dr. Mautusi Mitra Professor,\nUniversity of West Georgia; Department of Natural Sciences, Biology\nBuilding,1601 Maple Street, Carrollton, GA 30118, USA.\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/\nThis genome has a base modification file available.\n\n##Genome-Assembly-Data-START##\nAssembly Date :: 2022\nAssembly Method :: HGAP v. 4.0; FLYE v. 2.9.1\nAssembly Name :: UWG_Atem_1\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 2535.72x\nSequencing Technology :: PacBio Sequel\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/12/2023 18:13:56\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.4\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 4,461\nCDSs (total) :: 4,396\nGenes (coding) :: 4,236\nCDSs (with protein) :: 4,236\nGenes (RNA) :: 65\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 50\nncRNAs :: 3\nPseudo Genes (total) :: 160\nCDSs (without protein) :: 160\nPseudo Genes (ambiguous residues) :: 0 of 160\nPseudo Genes (frameshifted) :: 45 of 160\nPseudo Genes (incomplete) :: 116 of 160\nPseudo Genes (internal stop) :: 22 of 160\nPseudo Genes (multiple problems) :: 22 of 160\nCRISPR Arrays :: 2\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
Acidovorax temperans strain LMJ was isolated from a contaminated Tris Acetate Phosphate (TAP) medium culture plate of the green micro-alga Chlamydomonas reinhardtii strain, LMJ.SG0182 (a Chlamydomonas Library project (CLiP) strain)
COORDINATES: similar to AA sequence:RefSeq:WP_086558120.1
GO:0004803 - transposase activity [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
Tn3-like element IS1071 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_013124620.1
COORDINATES: similar to AA sequence:RefSeq:WP_011052942.1
COORDINATES: similar to AA sequence:RefSeq:WP_018413498.1
ParC family partition-associated protein
COORDINATES: similar to AA sequence:RefSeq:WP_005918229.1
COORDINATES: similar to AA sequence:RefSeq:WP_005918230.1
COORDINATES: similar to AA sequence:RefSeq:WP_013124615.1
COORDINATES: similar to AA sequence:RefSeq:WP_018413495.1
COORDINATES: similar to AA sequence:RefSeq:WP_013124613.1
GO:0016787 - hydrolase activity [Evidence IEA]
GO:0008152 - metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014616787.1
COORDINATES: similar to AA sequence:RefSeq:WP_017452571.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
type II toxin-antitoxin system RelB/DinJ family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_013124610.1
type II toxin-antitoxin system YafQ family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_013124607.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
GO:0045893 - positive regulation of DNA-templated transcription [Evidence IEA]
Cd(II)/Pb(II)-responsive transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_008434970.1
COORDINATES: similar to AA sequence:RefSeq:WP_013124605.1
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]
COORDINATES: similar to AA sequence:RefSeq:WP_020423964.1
COORDINATES: similar to AA sequence:RefSeq:WP_000904941.1
COORDINATES: similar to AA sequence:RefSeq:WP_011517528.1
COORDINATES: similar to AA sequence:RefSeq:WP_003155746.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_076611258.1
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_013124600.1
GO:0015074 - DNA integration [Evidence IEA]
DDE-type integrase/transposase/recombinase
COORDINATES: similar to AA sequence:RefSeq:YP_005229646.1
COORDINATES: similar to AA sequence:RefSeq:WP_020651365.1
COORDINATES: similar to AA sequence:RefSeq:WP_013723315.1
COORDINATES: similar to AA sequence:RefSeq:WP_011799426.1
COORDINATES: similar to AA sequence:RefSeq:WP_002943884.1
helix-turn-helix transcriptional regulator
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF037437.2
COORDINATES: similar to AA sequence:RefSeq:WP_005796449.1
COORDINATES: similar to AA sequence:RefSeq:WP_015472949.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611904.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011804796.1
GO:0019867 - outer membrane [Evidence IEA]
GO:0015343 - siderophore-iron transmembrane transporter activity [Evidence IEA]
GO:0015891 - siderophore transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_086558246.1
COORDINATES: nucleotide motif:Rfam:14.4:RF01497
AL1L pseudoknot; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: similar to AA sequence:RefSeq:WP_003069804.1
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.