Deinococcus aquaticus strain PB-314 plasmid pDATS02, complete sequence.
Bacteria; Deinococcota; Deinococci; Deinococcales; Deinococcaceae; Deinococcus.
Genome Sequence of Deinococcus aquaticus Type Strain PB314
Submitted (15-DEC-2022) Biology, Glendale Community College, 6000 W Olive Ave, Glendale, AZ 85302, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP115167.1.\nBacteria and source DNA available from DSM 18376.\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 :: 15-OCT-2022\nAssembly Method :: Flye v. 2.9-b1768; PGAP v.\n 2022-10-03.build6384\nAssembly Name :: GCCAZ_DaquPB314_Hybrid\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 158.0x\nSequencing Technology :: Oxford Nanopore MinION; Illumina MiSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/17/2023 10:34:30\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) :: 3,658\nCDSs (total) :: 3,597\nGenes (coding) :: 3,572\nCDSs (with protein) :: 3,572\nGenes (RNA) :: 61\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 50\nncRNAs :: 2\nPseudo Genes (total) :: 25\nCDSs (without protein) :: 25\nPseudo Genes (ambiguous residues) :: 0 of 25\nPseudo Genes (frameshifted) :: 3 of 25\nPseudo Genes (incomplete) :: 20 of 25\nPseudo Genes (internal stop) :: 3 of 25\nPseudo Genes (multiple problems) :: 1 of 25\nCRISPR Arrays :: 2\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
Freshwater stream system, activated sludge
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_019012216.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF020354.2
COORDINATES: protein motif:HMM:NF033832.1
COORDINATES: protein motif:HMM:NF013704.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0008170 - N-methyltransferase activity [Evidence IEA]
GO:0006306 - DNA methylation [Evidence IEA]
COORDINATES: protein motif:HMM:NF012372.2
COORDINATES: similar to AA sequence:RefSeq:WP_014686781.1
COORDINATES: protein motif:HMM:NF021648.2
COORDINATES: protein motif:HMM:NF021175.2
COORDINATES: protein motif:HMM:NF024929.2
COORDINATES: protein motif:HMM:TIGR00180.1
ParB/RepB/Spo0J family partition protein
COORDINATES: protein motif:HMM:NF013793.2
type II toxin-antitoxin system prevent-host-death family antitoxin
COORDINATES: protein motif:HMM:NF017832.2
class I SAM-dependent DNA methyltransferase
COORDINATES: similar to AA sequence:RefSeq:WP_015373371.1
COORDINATES: protein motif:HMM:NF012311.2
COORDINATES: similar to AA sequence:RefSeq:WP_017869773.1
COORDINATES: similar to AA sequence:RefSeq:WP_019010857.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017089779.1
COORDINATES: similar to AA sequence:RefSeq:WP_019008509.1
COORDINATES: similar to AA sequence:RefSeq:WP_016862839.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019011804.1
COORDINATES: similar to AA sequence:RefSeq:WP_018506063.1
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_019012017.1
COORDINATES: similar to AA sequence:RefSeq:WP_019011817.1
COORDINATES: similar to AA sequence:RefSeq:WP_019012028.1
GO:0050380 - undecaprenyl-diphosphatase activity [Evidence IEA]
GO:0016311 - dephosphorylation [Evidence IEA]
GO:0008236 - serine-type peptidase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013614029.1
COORDINATES: similar to AA sequence:RefSeq:WP_012252475.1
COORDINATES: similar to AA sequence:RefSeq:WP_011525822.1
GO:0007165 - signal transduction [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019012024.1
COORDINATES: protein motif:HMM:NF013718.2
COORDINATES: similar to AA sequence:RefSeq:WP_010961851.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:TIGR01764.1
COORDINATES: similar to AA sequence:RefSeq:WP_019011751.1
COORDINATES: protein motif:HMM:NF013752.2
COORDINATES: protein motif:HMM:NF024573.2
COORDINATES: protein motif:HMM:NF024642.2
COORDINATES: similar to AA sequence:RefSeq:WP_006165215.1
COORDINATES: similar to AA sequence:RefSeq:WP_015721157.1
COORDINATES: similar to AA sequence:RefSeq:WP_014686701.1
COORDINATES: protein motif:HMM:NF021873.2
COORDINATES: similar to AA sequence:RefSeq:WP_010244708.1
COORDINATES: similar to AA sequence:RefSeq:WP_012695316.1
COORDINATES: similar to AA sequence:RefSeq:WP_011525974.1
COORDINATES: similar to AA sequence:RefSeq:WP_019009393.1
COORDINATES: similar to AA sequence:RefSeq:WP_019009394.1
heavy metal-associated domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_019009395.1
metal-sensitive transcriptional regulator
COORDINATES: protein motif:HMM:NF013970.2
COORDINATES: protein motif:HMM:NF015947.2
AbrB/MazE/SpoVT family DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012694648.1
COORDINATES: similar to AA sequence:RefSeq:WP_019009413.1
COORDINATES: similar to AA sequence:RefSeq:WP_013616039.1
HAMP domain-containing sensor histidine kinase
COORDINATES: similar to AA sequence:RefSeq:WP_013616025.1
COORDINATES: similar to AA sequence:RefSeq:WP_017872030.1
COORDINATES: similar to AA sequence:RefSeq:WP_013555926.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR00254.1
COORDINATES: similar to AA sequence:RefSeq:WP_014682925.1
metalloregulator ArsR/SmtB family transcription factor
COORDINATES: similar to AA sequence:RefSeq:WP_011525804.1
COORDINATES: similar to AA sequence:RefSeq:WP_012695081.1
GO:0015267 - channel activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011525802.1
COORDINATES: similar to AA sequence:RefSeq:WP_017869751.1
COORDINATES: protein motif:HMM:NF040413.1
COORDINATES: similar to AA sequence:RefSeq:WP_011530830.1
COORDINATES: similar to AA sequence:RefSeq:WP_019008508.1
LysR substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_019008507.1
COORDINATES: similar to AA sequence:RefSeq:WP_019008506.1
COORDINATES: similar to AA sequence:RefSeq:WP_014682946.1
COORDINATES: similar to AA sequence:RefSeq:WP_017311140.1
COORDINATES: protein motif:HMM:NF024864.2
COORDINATES: similar to AA sequence:RefSeq:WP_012693638.1
COORDINATES: similar to AA sequence:RefSeq:WP_019008500.1
GO:0016020 - membrane [Evidence IEA]; GO:0005886 - plasma membrane [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014684135.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]; GO:0016987 - sigma factor activity [Evidence IEA]
GO:0006352 - DNA-templated transcription initiation [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
sigma-70 family RNA polymerase sigma factor
COORDINATES: similar to AA sequence:RefSeq:WP_019008497.1
COORDINATES: protein motif:HMM:NF020839.2
COORDINATES: protein motif:HMM:NF012594.2
COORDINATES: protein motif:HMM:NF024734.2
type IV toxin-antitoxin system AbiEi family antitoxin domain-containing protein
COORDINATES: protein motif:HMM:NF020419.2
nucleotidyl transferase AbiEii/AbiGii toxin family protein
COORDINATES: protein motif:HMM:NF033516.0
COORDINATES: protein motif:HMM:NF013677.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
COORDINATES: protein motif:HMM:NF037206.2
S-4TM family putative pore-forming effector
COORDINATES: similar to AA sequence:RefSeq:WP_015231501.1
HNH endonuclease signature motif containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018461241.1
COORDINATES: similar to AA sequence:RefSeq:WP_017869618.1
COORDINATES: similar to AA sequence:RefSeq:WP_014686993.1