Vagococcus fluvialis strain 36B2 plasmid p36B2_p1, complete sequence.
Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae; Vagococcus.
High-quality genome assembly reveals abundance of mobile genetic elements in sponge-isolated Vagococcus fluvialis strains
Submitted (17-AUG-2021) Ecology of Aquatic Systems, Universite Libre de Bruxelles, Boulevard du Triomphe, Brussels 1050, Belgium
REFSEQ INFORMATION: The reference sequence is identical to\nCP081462.1.\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. MAR-2021\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 278x\nSequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 11/02/2022 04:19:51\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;\n repeat_region\nGenes (total) :: 2,945\nCDSs (total) :: 2,841\nGenes (coding) :: 2,813\nCDSs (with protein) :: 2,813\nGenes (RNA) :: 104\nrRNAs :: 7, 7, 7 (5S, 16S, 23S)\ncomplete rRNAs :: 7, 7, 7 (5S, 16S, 23S)\ntRNAs :: 79\nncRNAs :: 4\nPseudo Genes (total) :: 28\nCDSs (without protein) :: 28\nPseudo Genes (ambiguous residues) :: 0 of 28\nPseudo Genes (frameshifted) :: 10 of 28\nPseudo Genes (incomplete) :: 19 of 28\nPseudo Genes (internal stop) :: 5 of 28\nPseudo Genes (multiple problems) :: 5 of 28\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: similar to AA sequence:RefSeq:WP_010763711.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
LacI family DNA-binding transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_003721855.1
GO:0004750 - D-ribulose-phosphate 3-epimerase activity [Evidence IEA]
GO:0006098 - pentose-phosphate shunt [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011834899.1
GO:0004751 - ribose-5-phosphate isomerase activity [Evidence IEA]
GO:0009052 - pentose-phosphate shunt, non-oxidative branch [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003089424.1
GO:0008982 - protein-N(PI)-phosphohistidine-sugar phosphotransferase activity [Evidence IEA]
GO:0009401 - phosphoenolpyruvate-dependent sugar phosphotransferase system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003536001.1
COORDINATES: protein motif:HMM:NF026041.2
COORDINATES: similar to AA sequence:RefSeq:WP_019382830.1
COORDINATES: similar to AA sequence:RefSeq:WP_031587700.1
IS1380-like element ISEcp1 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_009445117.1
GO:0033743 - peptide-methionine (R)-S-oxide reductase activity [Evidence IEA]
GO:0030091 - protein repair [Evidence IEA]; GO:0006979 - response to oxidative stress [Evidence IEA]
peptide-methionine (R)-S-oxide reductase MsrB
COORDINATES: similar to AA sequence:RefSeq:WP_010001886.1
COORDINATES: protein motif:HMM:NF036624.2
COORDINATES: similar to AA sequence:RefSeq:WP_002337511.1
COORDINATES: similar to AA sequence:RefSeq:WP_002344895.1
COORDINATES: similar to AA sequence:RefSeq:WP_002344896.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_002339788.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_076611172.1
GO:0004803 - transposase activity [Evidence IEA]
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF013213.2
GO:0016788 - hydrolase activity, acting on ester bonds [Evidence IEA]
Qat anti-phage system TatD family nuclease QatD
COORDINATES: similar to AA sequence:RefSeq:WP_002339790.1
Qat anti-phage system QueC-like protein QatC
COORDINATES: similar to AA sequence:RefSeq:WP_002369701.1
COORDINATES: similar to AA sequence:RefSeq:WP_002369702.1
COORDINATES: similar to AA sequence:RefSeq:WP_002401156.1
COORDINATES: similar to AA sequence:RefSeq:WP_002401157.1
COORDINATES: similar to AA sequence:RefSeq:WP_064305258.1
IS6-like element IS1216 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_000997693.1
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_002425106.1
LPXTG cell wall anchor domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010782365.1
COORDINATES: similar to AA sequence:RefSeq:WP_002339802.1
COORDINATES: similar to AA sequence:RefSeq:WP_002301643.1
COORDINATES: similar to AA sequence:RefSeq:WP_010750198.1
COORDINATES: similar to AA sequence:RefSeq:WP_002325630.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_001085135.1
COORDINATES: similar to AA sequence:RefSeq:WP_010782370.1
COORDINATES: similar to AA sequence:RefSeq:WP_015543617.1
COORDINATES: similar to AA sequence:RefSeq:WP_000875579.1
COORDINATES: similar to AA sequence:RefSeq:WP_002425003.1
COORDINATES: similar to AA sequence:RefSeq:WP_002332650.1
COORDINATES: similar to AA sequence:RefSeq:WP_002325626.1
COORDINATES: similar to AA sequence:RefSeq:WP_010782375.1
CagC family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_002365847.1
COORDINATES: similar to AA sequence:RefSeq:WP_002301627.1
COORDINATES: similar to AA sequence:RefSeq:WP_000002668.1
COORDINATES: similar to AA sequence:RefSeq:WP_012655887.1
COORDINATES: similar to AA sequence:RefSeq:WP_002324322.1
COORDINATES: similar to AA sequence:RefSeq:WP_002338419.1
IS1380-like element IS1678 family transposase