Rothia terrae strain KJZ-14 plasmid p2, complete sequence.
Bacteria; Actinomycetota; Actinomycetes; Micrococcales; Micrococcaceae; Rothia.
Submitted (29-SEP-2020) School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, 800 Dongchuan RD., Shanghai 200240, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP062961.1.\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 Method :: Unicycler v. 0.4.8\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 381.7x\nSequencing Technology :: Illumina; Oxford Nanopore\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 11/16/2022 03:45:03\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) :: 2,440\nCDSs (total) :: 2,375\nGenes (coding) :: 2,330\nCDSs (with protein) :: 2,330\nGenes (RNA) :: 65\nrRNAs :: 4, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 3, 3 (5S, 16S, 23S)\ntRNAs :: 52\nncRNAs :: 3\nPseudo Genes (total) :: 45\nCDSs (without protein) :: 45\nPseudo Genes (ambiguous residues) :: 0 of 45\nPseudo Genes (frameshifted) :: 18 of 45\nPseudo Genes (incomplete) :: 26 of 45\nPseudo Genes (internal stop) :: 7 of 45\nPseudo Genes (multiple problems) :: 6 of 45\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+.
type II toxin-antitoxin system HipA family toxin
COORDINATES: protein motif:HMM:NF024949.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
helix-turn-helix 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_004005751.1
COORDINATES: protein motif:HMM:NF024752.2
COORDINATES: protein motif:HMM:NF013015.2
COORDINATES: similar to AA sequence:RefSeq:WP_010298367.1
translesion error-prone DNA polymerase V autoproteolytic subunit
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: protein motif:HMM:NF015807.2
COORDINATES: protein motif:HMM:NF040127.1
COORDINATES: similar to AA sequence:RefSeq:WP_017888088.1
COORDINATES: protein motif:HMM:NF012298.2
COORDINATES: similar to AA sequence:RefSeq:WP_004809532.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0000166 - nucleotide binding [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR01643.1
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.
COORDINATES: protein motif:HMM:TIGR03696.1
RHS repeat-associated core domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006770492.1
frameshifted; 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_011013652.1
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_014319625.1
COORDINATES: similar to AA sequence:RefSeq:WP_006284600.1
COORDINATES: similar to AA sequence:RefSeq:WP_012732540.1
COORDINATES: similar to AA sequence:RefSeq:WP_006840783.1
HAMP domain-containing sensor histidine kinase
COORDINATES: similar to AA sequence:RefSeq:WP_010933983.1
heavy-metal-associated domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012732543.1
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_015650353.1
COORDINATES: similar to AA sequence:RefSeq:WP_017834429.1
COORDINATES: similar to AA sequence:RefSeq:WP_011896729.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF012464.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004985528.1
COORDINATES: similar to AA sequence:RefSeq:WP_003859025.1
COORDINATES: similar to AA sequence:RefSeq:WP_006839590.1
metalloregulator ArsR/SmtB family transcription factor
COORDINATES: protein motif:HMM:TIGR02391.1