Staphylococcus saprophyticus strain 1A plasmid unnamed1.
Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae; Staphylococcus.
Elucidating the virulence and antimicrobial resistance mechanisms of Staphylococcus spp. associated with bubaline mastitis, through 'single-molecule, real-time sequencing' and comparative genomics
Submitted (24-JUL-2018) Department of Technology, Sao Paulo State University (Unesp), School of Agricultural and Veterinarian Sciences, Jaboticabal, Via de Acesso Prof.Paulo Donato Castellan, Jaboticabal 14884-900, Brazil
REFSEQ INFORMATION: The reference sequence is identical to\nCP031197.1.\nBacteria and source DNA available from FCAV/UNESP SS1A.\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. 1.4\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 359.0x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/28/2023 03:35:07\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) :: 2,628\nCDSs (total) :: 2,545\nGenes (coding) :: 2,477\nCDSs (with protein) :: 2,477\nGenes (RNA) :: 83\nrRNAs :: 7, 6, 6 (5S, 16S, 23S)\ncomplete rRNAs :: 7, 6, 6 (5S, 16S, 23S)\ntRNAs :: 60\nncRNAs :: 4\nPseudo Genes (total) :: 68\nCDSs (without protein) :: 68\nPseudo Genes (ambiguous residues) :: 0 of 68\nPseudo Genes (frameshifted) :: 34 of 68\nPseudo Genes (incomplete) :: 28 of 68\nPseudo Genes (internal stop) :: 24 of 68\nPseudo Genes (multiple problems) :: 14 of 68\n##Genome-Annotation-Data-END##
COORDINATES: similar to AA sequence:RefSeq:WP_001031451.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_000854068.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_002475586.1
COORDINATES: similar to AA sequence:RefSeq:WP_002475540.1
COORDINATES: similar to AA sequence:RefSeq:WP_002485855.1
COORDINATES: similar to AA sequence:RefSeq:WP_002453554.1
COORDINATES: similar to AA sequence:RefSeq:WP_016050555.1
COORDINATES: similar to AA sequence:RefSeq:WP_000815404.1
COORDINATES: similar to AA sequence:RefSeq:WP_002503448.1
COORDINATES: similar to AA sequence:RefSeq:WP_002451520.1
GO:0003697 - single-stranded DNA binding [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]; GO:0006281 - DNA repair [Evidence IEA]; GO:0006260 - DNA replication [Evidence IEA]; GO:0006351 - DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_001124447.1
COORDINATES: protein motif:HMM:NF024252.2
COORDINATES: similar to AA sequence:RefSeq:WP_002502882.1
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF013043.2
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_002486353.1
conserved phage C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_002442303.1
COORDINATES: similar to AA sequence:RefSeq:WP_002475521.1
COORDINATES: similar to AA sequence:RefSeq:WP_002485854.1
COORDINATES: similar to AA sequence:RefSeq:WP_002470845.1
COORDINATES: similar to AA sequence:RefSeq:WP_002488901.1
COORDINATES: similar to AA sequence:RefSeq:WP_002456379.1
COORDINATES: similar to AA sequence:RefSeq:WP_002502875.1
SA1788 family PVL leukocidin-associated protein
COORDINATES: similar to AA sequence:RefSeq:WP_012104760.1
COORDINATES: similar to AA sequence:RefSeq:WP_002500116.1
COORDINATES: similar to AA sequence:RefSeq:WP_002488933.1
COORDINATES: similar to AA sequence:RefSeq:WP_002469448.1
COORDINATES: similar to AA sequence:RefSeq:WP_001830278.1
COORDINATES: similar to AA sequence:RefSeq:WP_002497097.1
COORDINATES: similar to AA sequence:RefSeq:WP_002504178.1
COORDINATES: similar to AA sequence:RefSeq:WP_015984493.1
COORDINATES: similar to AA sequence:RefSeq:WP_002504358.1
COORDINATES: similar to AA sequence:RefSeq:WP_002504356.1
COORDINATES: similar to AA sequence:RefSeq:WP_000058632.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_001003271.1
COORDINATES: similar to AA sequence:RefSeq:YP_500542.1
PBSX family phage terminase large subunit
COORDINATES: similar to AA sequence:RefSeq:WP_002475515.1
GO:0046798 - viral portal complex [Evidence IEA]
GO:0005198 - structural molecule activity [Evidence IEA]
GO:0051027 - DNA transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014533264.1
GO:0044423 - virion component [Evidence IEA]
GO:0016032 - viral process [Evidence IEA]; GO:0019068 - virion assembly [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017465051.1
COORDINATES: similar to AA sequence:RefSeq:WP_016898286.1
COORDINATES: similar to AA sequence:RefSeq:WP_002502856.1
COORDINATES: similar to AA sequence:RefSeq:WP_002502855.1
GO:0019068 - virion assembly [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_002493377.1
COORDINATES: similar to AA sequence:RefSeq:WP_000209972.1
COORDINATES: similar to AA sequence:RefSeq:WP_002475522.1
COORDINATES: similar to AA sequence:RefSeq:WP_018113765.1
COORDINATES: similar to AA sequence:RefSeq:WP_018113764.1
COORDINATES: similar to AA sequence:RefSeq:WP_002469994.1
phage major tail protein, TP901-1 family
COORDINATES: similar to AA sequence:RefSeq:WP_002469976.1
COORDINATES: similar to AA sequence:RefSeq:WP_002436496.1
COORDINATES: similar to AA sequence:RefSeq:WP_002495870.1
COORDINATES: similar to AA sequence:RefSeq:WP_018113762.1
COORDINATES: similar to AA sequence:RefSeq:WP_002436517.1