Virgibacillus halodenitrificans strain PDB-F2 plasmid unnamed1, complete sequence.
Bacteria; Bacillota; Bacilli; Bacillales; Bacillaceae; Virgibacillus.
Complete genome sequencing of Virgibacillus halodenitrificans PDB-F2
Submitted (01-NOV-2016) School of Resources and Environmental Engineering, East China University of Science and Technology, Meilong Road 130#, Shanghai 200237, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP017963.1.\nBacteria available from School of Resources and Environmental\nEngineering, East China University of Science and Technology.\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 :: Newbler v. 2.8\nGenome Coverage :: 230x\nSequencing Technology :: Illumina; PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/22/2022 01:40:41\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) :: 3,889\nCDSs (total) :: 3,798\nGenes (coding) :: 3,777\nCDSs (with protein) :: 3,777\nGenes (RNA) :: 91\nrRNAs :: 8, 8, 8 (5S, 16S, 23S)\ncomplete rRNAs :: 8, 8, 8 (5S, 16S, 23S)\ntRNAs :: 62\nncRNAs :: 5\nPseudo Genes (total) :: 21\nCDSs (without protein) :: 21\nPseudo Genes (ambiguous residues) :: 0 of 21\nPseudo Genes (frameshifted) :: 8 of 21\nPseudo Genes (incomplete) :: 15 of 21\nPseudo Genes (internal stop) :: 3 of 21\nPseudo Genes (multiple problems) :: 4 of 21\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:NF036390.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_002203814.1
COORDINATES: protein motif:HMM:NF036961.2
COORDINATES: protein motif:HMM:NF019997.2
COORDINATES: protein motif:HMM:NF016214.2
COORDINATES: similar to AA sequence:RefSeq:WP_000431478.1
COORDINATES: protein motif:HMM:NF013311.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0003916 - DNA topoisomerase activity [Evidence IEA]
GO:0006265 - DNA topological change [Evidence IEA]
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]
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013102149.1
COORDINATES: similar to AA sequence:RefSeq:WP_010015794.1
COORDINATES: similar to AA sequence:RefSeq:WP_011669088.1
COORDINATES: protein motif:HMM:NF019384.2
COORDINATES: similar to AA sequence:RefSeq:WP_003349842.1
COORDINATES: similar to AA sequence:RefSeq:WP_009336500.1
COORDINATES: similar to AA sequence:RefSeq:WP_000873650.1
isopeptide-forming domain-containing fimbrial protein
COORDINATES: similar to AA sequence:RefSeq:WP_002311846.1
COORDINATES: similar to AA sequence:RefSeq:WP_000661248.1
COORDINATES: similar to AA sequence:RefSeq:WP_009879924.1
COORDINATES: similar to AA sequence:RefSeq:WP_000868857.1
COORDINATES: similar to AA sequence:RefSeq:WP_001266996.1
COORDINATES: similar to AA sequence:RefSeq:WP_000883996.1
COORDINATES: protein motif:HMM:NF036645.2
COORDINATES: similar to AA sequence:RefSeq:WP_002107501.1
COORDINATES: similar to AA sequence:RefSeq:WP_000511118.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_002313319.1
COORDINATES: similar to AA sequence:RefSeq:WP_000239781.1