LOCUS       NZ_CP039165             2494 bp    DNA     circular CON 04-JUL-2021
DEFINITION  Staphylococcus aureus strain R46 plasmid pR46-1, complete sequence.
ACCESSION   NZ_CP039165
VERSION     NZ_CP039165.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN11096691
            Assembly: GCF_005705635.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 2494)
  AUTHORS   Ullah,N. and Ali,A.
  TITLE     Whole-genome sequencing of local methicillin-resistant S. aureus
            strain R46
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2494)
  AUTHORS   Ullah,N. and Ali,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (09-APR-2019) Atta-ur-Rahman School of Applied
            Biosciences, National University of Sciences and Technology, H-12,
            Islamabad, Federal 44000, Pakistan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 08-DEC-2018
            Assembly Method                   :: SPAdes v. 3.9
            Assembly Name                     :: R46
            Genome Representation             :: Full
            Expected Final Version            :: No
            Genome Coverage                   :: 30.0x
            Sequencing Technology             :: Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/04/2021 07:21:11
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 5.2
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 2,872
            CDSs (total)                      :: 2,802
            Genes (coding)                    :: 2,698
            CDSs (with protein)               :: 2,698
            Genes (RNA)                       :: 70
            rRNAs                             :: 6, 1, 1 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 1, 1 (5S, 16S, 23S)
            tRNAs                             :: 58
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 104
            CDSs (without protein)            :: 104
            Pseudo Genes (ambiguous residues) :: 0 of 104
            Pseudo Genes (frameshifted)       :: 33 of 104
            Pseudo Genes (incomplete)         :: 74 of 104
            Pseudo Genes (internal stop)      :: 15 of 104
            Pseudo Genes (multiple problems)  :: 17 of 104
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP039165.1.
            Bacteria and source DNA available from Dr. Amjad Ali, ASAB,
            National University of Sciences and Technology, H-12, Islamabad,
            Pakistan.
            The annotation was added by the NCBI Prokaryotic Genome Annotation
            Pipeline (PGAP). Information about PGAP can be found here:
            https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..2494
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="R46"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="pR46-1"
                     /geo_loc_name="Pakistan: Rawalpindi"
                     /lat_lon="33.5651 N 73.0169 E"
                     /collection_date="2017-10-03"
                     /collected_by="ASAB, National University of Sciences and
                     Technology, Islamabad"
     gene            complement(30..506)
                     /locus_tag="E1951_RS14800"
                     /old_locus_tag="E1951_15120"
     CDS             complement(30..506)
                     /locus_tag="E1951_RS14800"
                     /old_locus_tag="E1951_15120"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000664727.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication/maintenance protein RepL"
                     /protein_id="WP_000664727.1"
                     /translation="MKERYGTVYKGSQRLIDEESGEVIEVDKLYRKQTSGNFVKAYIVQ
                     LISMLDMIGGKKLKIVNYILDNVHLSNNTMIATTREIAKATGTSLQTVITTLKILEEGN
                     IIKRKTGVLMLNPELLMRGDDQKQKYLLLEFGNFEQEANEKQENALSDYYSFKD"
                     /name="replication/maintenance protein RepL"
     gene            complement(1081..1815)
                     /gene="erm(C)"
                     /locus_tag="E1951_RS14805"
                     /old_locus_tag="E1951_15125"
     ARG             complement(1085..1815)
                     /name="erm(C)"
                     /gene="erm(C)"
                     /gene_name="23S rRNA (adenine(2058)-N(6))-methyltransferase
                     Erm(C)"
                     /tool="amrfinderplus"
                     /drug_class="LINCOSAMIDE/MACROLIDE/STREPTOGRAMIN"
                     /identity="100.0"
                     /coverage="100.0"
     ARG             complement(1082..1815)
                     /name="ErmC"
                     /gene="ErmC"
                     /gene_name="Erm 23S ribosomal RNA methyltransferase"
                     /tool="rgi"
                     /drug_class="macrolide antibiotic; lincosamide antibiotic;
                     streptogramin antibiotic; streptogramin A antibiotic;
                     streptogramin B antibiotic"
                     /identity="99.59"
                     /coverage="100.0"
     Typing          complement(21..506)
                     /name="rep_cluster_1947"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.591"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tgtctatttg tagacgattt tatgttatac tagtccttga aagaataata atcagataat
       61 gcattttctt gtttttcatt tgcctcttgc tcaaagttcc caaattcgag taagaggtat
      121 ttttgttttt ggtcgtcgcc tctcattagt agttcagggt ttaacattaa tactccagtt
      181 tttcttttta taatatttcc ttcttctaag attttaagtg ttgttattac tgtttgtaga
      241 cttgttcctg tagcttttgc tatttctctt gttgtagcta tcattgtatt gttacttaag
      301 tggacattat ctaggatata gttaacgatt ttaagttttt ttccgccaat catatctaac
      361 atacttatta attgcactat atatgccttt acgaagttac cagacgtttg tttacggtat
      421 aacttgtcta cctctatgac ttctccactt tcttcgtcta tgagcctctg agagccttta
      481 tagactgttc catatctttc tttcatcttt ttctcactcc ttattttaaa ctattctaac
      541 tatatcataa ctgttctaaa aaaaaaagaa catttgttaa aagaaattag aacaaaatga
      601 gtgaaaaatt agaacaaaca aattccttat aaaccttatc atctcaacct atattaagat
      661 tttacctagt tgaatcttct tttctaaaaa aaaagaacat ttgttaaaag aaattagaac
      721 aaaatgagtg aaaaattaga acaaacaaat tccttataaa ccttatcatc tcaacctata
      781 ttaagatttt acctagttga atcttctttt ctatataaag cgtcggagca tatcaggggg
      841 ttatctaacg taaatgctac ccttcggctc gctttcgctc ggcattgacg tcagatactg
      901 caccccctga acccccatgc tccaacagca aaaaggaaac tttttgctgc ttttccgacg
      961 cttattcgct tcgctcatat ttatatagaa aagaagtgaa tgcgcaaaag acataatcga
     1021 ttcacaaaaa ataggtacac gaaaaacaag ttaagggatg cagtttatgc atcccttaac
     1081 ttacttatta aataatttat agctattgaa aagagataag aattgttcaa agctaatatt
     1141 gtttaaatcg tcaattcctg catgttttaa ggaattgtta aattgatttt ttgtaaatat
     1201 tttcttgtat tctttgttaa cccatttcat aacgaaataa ttatacttct gtttatcttt
     1261 gtgtgatatt cttgattttt ttctatttaa tctgataagt gagctattca ctttaggttt
     1321 aggatgaaaa tattctcttg gaaccatact taatatagaa atatcaactt ctgccattaa
     1381 aaataatgcc aatgagcgtt ttgtatttaa taatctttta gcaaacccgt attccacgat
     1441 taaataaatc tcatcagcta tactatcaaa aacaattttg cgtattatat ccgtacttat
     1501 gttataaggt atattaccaa atattttata ggattggttt ttaggaaatt taaactgcaa
     1561 tatatccttg tttaaaactt ggaaattatc gtgatcaaca agtttatttt ctgtagtttt
     1621 gcataattta tggtctattt caatggcagt tacgaaatta cacctctgta ctaattcaag
     1681 ggtaaaatgc ccttttcctg agccgatttc aaagatatta tcatgttcat ttaatcttat
     1741 atttgtcatt attttatcta tattatgttt tgaagtaata aagttttgac tgtgttttat
     1801 atttttctcg ttcattataa ccctctttat tttttcctcc ttataaaatt agtataatta
     1861 tagcacgagc tctgataaat atgaacatga tgagtgatcg ttaaatttat actgcaatct
     1921 gatgcgatta ttgaataaaa gatatgagag atttatctag tttctttttt tacaagaaaa
     1981 aagaaagttc ttaaaggttt tatacttttg gtcgtagagc acacggttta acgacttaat
     2041 tacgaagtaa ataagtctag tgtgttagac tttaatgttt tttttaaggc attagtgcat
     2101 ttaagcgtca gagcatggct ttatgccgag aaaactattg gttggaatgg cgtgtgtgtt
     2161 agccaaagct ttggcgagtt ggttgggggt ttcatgggat taatcccatg aaagtaccaa
     2221 ctcaacaaca cactaacgcc tgttggttcc aaccaatagg aaattggaat aagcaattag
     2281 tataatgaga gtataatgtt ggtataacgt tagtataatg atgctttttt tcattatatt
     2341 ttttatgtac tttaaacctg cacgcttatg tgaattagaa aaagcttaat cgcatttcat
     2401 agattgacct cccaataact acgtggtgtt attgggaggt caatctattt catttgcgtt
     2461 aagcttttga tctacattaa gcgtgcaggt tttt
//
