Vagococcus xieshaowenii strain CF-49 plasmid punnamed2, complete sequence.
Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae; Vagococcus.
Submitted (05-APR-2019) State Key Laboratory of Infection Disease Prevention and Control, Chinese Center for Disease Control and Prevention, 155 Changbai Road, Beijing, Beijing 102206, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP038867.1.\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 :: HGAP v. 3.0\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 1000.0x\nSequencing Technology :: PacBio RSII\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/01/2023 02:54:06\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.5\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 2,027\nCDSs (total) :: 1,943\nGenes (coding) :: 1,912\nCDSs (with protein) :: 1,912\nGenes (RNA) :: 84\nrRNAs :: 8, 7, 7 (5S, 16S, 23S)\ncomplete rRNAs :: 8, 7, 7 (5S, 16S, 23S)\ntRNAs :: 58\nncRNAs :: 4\nPseudo Genes (total) :: 31\nCDSs (without protein) :: 31\nPseudo Genes (ambiguous residues) :: 0 of 31\nPseudo Genes (frameshifted) :: 20 of 31\nPseudo Genes (incomplete) :: 12 of 31\nPseudo Genes (internal stop) :: 3 of 31\nPseudo Genes (multiple problems) :: 4 of 31\nCRISPR Arrays :: 1\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:NF012464.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF014814.2
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF024083.2
COORDINATES: protein motif:HMM:NF037161.2
COORDINATES: similar to AA sequence:RefSeq:WP_003125747.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_016634224.1
COORDINATES: similar to AA sequence:RefSeq:WP_002175317.1
COORDINATES: protein motif:HMM:NF013540.2
helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:NF037639.2
SpaA isopeptide-forming pilin-related protein
COORDINATES: similar to AA sequence:RefSeq:WP_016612484.1
COORDINATES: protein motif:HMM:NF019192.2
COORDINATES: protein motif:HMM:NF019997.2
COORDINATES: similar to AA sequence:RefSeq:WP_016619370.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: protein motif:HMM:NF036438.2
COORDINATES: similar to AA sequence:RefSeq:WP_016610092.1
GO:0017111 - ribonucleoside triphosphate phosphatase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF025081.2
COORDINATES: protein motif:HMM:NF037847.2
COORDINATES: protein motif:HMM:NF024554.2
COORDINATES: protein motif:HMM:TIGR00621.2
COORDINATES: similar to AA sequence:RefSeq:WP_002297185.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017370594.1
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:NF039835.1
leucine-rich repeat domain-containing protein
COORDINATES: protein motif:HMM:NF023225.2
DUF916 and DUF3324 domain-containing protein
COORDINATES: protein motif:HMM:NF025108.2
COORDINATES: protein motif:HMM:TIGR01716.1
COORDINATES: protein motif:HMM:NF028245.2
COORDINATES: similar to AA sequence:RefSeq:WP_016625013.1
type II toxin-antitoxin system HicB family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_002961998.1
GO:0003729 - mRNA binding [Evidence IEA]
type II toxin-antitoxin system HicA family toxin
COORDINATES: protein motif:HMM:NF025085.2
COORDINATES: protein motif:HMM:NF025642.2
COORDINATES: protein motif:HMM:NF025424.2