LOCUS       NZ_CP031669             2241 bp    DNA     circular CON 15-MAY-2024
DEFINITION  Staphylococcus aureus strain 199 plasmid pPS00120.1A.2, complete
            sequence.
ACCESSION   NZ_CP031669
VERSION     NZ_CP031669.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN08997833
            Assembly: GCF_003425545.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 2241)
  AUTHORS   Chako,K., Divya,B., Pak,T., Sause,W., Kumar,K., Sebra,R., Deikus,G.,
            Attie,O., Rose,H., Lewis,M., Li,Y., Bashir,A., Kasarskis,A.,
            Schadt,E., Richardson,A.R., Torres,V. and Shopsin,B.
  TITLE     Colonizing and infecting subclones diverge during Staphylococcus
            aureus infection
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2241)
  AUTHORS   Chako,K.I., Sullivan,M.J. and van Bakel,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (15-AUG-2018) Genetics and Genomic Sciences, Icahn School
            of Medicine, One Gustave L. Levy Place Box 1498, New York, NY 10029,
            USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2017
            Assembly Method                   :: HGAP v. 2.2.0
            Expected Final Version            :: yes
            Genome Coverage                   :: 28.7981151681x
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_003425545.1-RS_2024_05_15
            Annotation Date                   :: 05/15/2024 01:44:29
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 2,917
            CDSs (total)                      :: 2,835
            Genes (coding)                    :: 2,762
            CDSs (with protein)               :: 2,762
            Genes (RNA)                       :: 82
            rRNAs                             :: 7, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 7, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 59
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 73
            CDSs (without protein)            :: 73
            Pseudo Genes (ambiguous residues) :: 0 of 73
            Pseudo Genes (frameshifted)       :: 40 of 73
            Pseudo Genes (incomplete)         :: 35 of 73
            Pseudo Genes (internal stop)      :: 11 of 73
            Pseudo Genes (multiple problems)  :: 13 of 73
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP031669.1.
            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..2241
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="199"
                     /isolation_source="nares"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="pPS00120.1A.2"
                     /geo_loc_name="Germany"
                     /lat_lon="51.9636 N 7.6132 E"
                     /collection_date="1994"
                     /collected_by="University of Munster"
     gene            complement(562..1560)
                     /locus_tag="DD546_RS15210"
                     /old_locus_tag="DD546_02746"
     CDS             complement(562..1560)
                     /locus_tag="DD546_RS15210"
                     /old_locus_tag="DD546_02746"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001160226.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_002505443.1"
                     /translation="MQYNTTKYIDENQDNETLKDMTKSGTQRPWREKKIDNVSYADILE
                     ILKIKKAFNVKQCGNVLEFKPTDEGYLKLYKTWFCKSKLCPVCNWRRSMKNSYQAQKVI
                     EAVVKEKPKARWLFLTLSTKNAIDGEHLEQSLKYMSKAFNKLKMYAKVKKNLIGFMRST
                     EVTVNKNDGSYNQHMHVLLCVENAYFRKKENYITQEEWINLWQKALQVDYKPVANIKAI
                     KPNKKGDKDIQAAIKETSKYSVKSSDYLTGNHEKDAEIVQDLEQGLYRKRMLSYGGLLK
                     QKHKLLNLDDAEEGNLIQTSDEEKTTEEEQKAHSITAIWNFEKQNYFLKNL"
                     /name="protein rep"
     gene            1888..2211
                     /gene="qacC"
                     /locus_tag="DD546_RS15215"
                     /old_locus_tag="DD546_02747"
     ARG             1889..2208
                     /name="qacC"
                     /gene="qacC"
                     /gene_name="quaternary ammonium compound efflux SMR
                     transporter QacC"
                     /tool="amrfinderplus"
                     /drug_class="QUATERNARY AMMONIUM"
                     /identity="100.0"
                     /coverage="100.0"
     ARG             1889..2211
                     /name="qacJ"
                     /gene="qacJ"
                     /gene_name="small multidrug resistance (SMR) antibiotic
                     efflux pump"
                     /tool="rgi"
                     /drug_class="disinfecting agents and antiseptics"
                     /identity="71.96"
                     /coverage="100.0"
     Typing          complement(563..1560)
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.9"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gagcctcgga acccttaaca atcccaaaac ttgtcgaatg gtcggcttaa tagctcacgc
       61 tatgccgaca ttcgtctcca agtttagtta agggttcttc tcaacatcaa taaattttct
      121 cggcataaat gctgtgttat aattaaaatt cctttcttga tctatttttc actgataaca
      181 cctaaatatt aaaacagtgc atataagagc taccaaaatt tttaagggta gctctttatt
      241 ttttgttcaa acatttattc aaaatcagaa tacctttatt tttaatttta aggggtcatt
      301 ttaaagaatt aagggttatt tatatagttt tatacctaaa aacctaaatc ggctcttaaa
      361 acgcaaatga gagccaaata aaaataattg cttttcacaa acaaaaattt gagcaaaacc
      421 agtgtcgaat tttttagaca ctgcccattt acatgcaaat ttaaaaatta gcataaaaaa
      481 tgggcaacca tgccggttga acgctatagt tcctgcaggg gcaaaaaagc ataaaaaaac
      541 gctagctttg ataagctaac gttacaaatt ttttaagaaa taattttgtt tttcaaaatt
      601 ccaaatggcc gtaattgaat gggctttttg ttcttcttca gtcgtttttt cttcatcgct
      661 cgtttgaatt aaattacctt cttcggcatc gtctaaattt aaaagtttat gtttttgttt
      721 aagtaaacca ccgtaactta acatacgttt tctgtataaa ccttgttcta aatcttgaac
      781 aatttctgcg tctttttcat ggtttcctgt taaataatcg gacgacttaa ccgagtattt
      841 tgatgtctct ttaattgcag cttgtatatc tttatcgcct tttttattcg gcttaattgc
      901 tttgatattt gcgactggtt tgtaatcaac ttgaagagct ttttgccata aattgatcca
      961 ctcttcttgc gttatataat tctctttttt tctgaaataa gcattttcaa cacacaataa
     1021 aacgtgcata tgttgattat aacttccgtc atttttgtta actgtaactt cagttgaacg
     1081 cataaaaccg attaaattct ttttaacttt tgcatacatt tttaacttgt taaaagcttt
     1141 cgacatatat tttaaactct gttctaaatg ctcaccatct atcgcatttt ttgttgaaag
     1201 tgttaagaat aaccaacgtg cttttggctt ttctttaacc actgcttcaa tgactttttg
     1261 agcttgataa ctatttttca ttgaacgcct ccaattacaa accggacata atttagactt
     1321 acaaaaccat gttttataaa gttttaaata cccttcatca gtcggcttaa attctaagac
     1381 gttaccacat tgcttcacgt taaaagcctt tttaattttt aaaatttcta gtatatctgc
     1441 ataacttaca ttgtcgattt tcttttctct ccatgggcgt tgtgtcccac ttttagtcat
     1501 atctttcaat gtttcattat cttgattttc gtctatatat tttgtagtat tatattgcat
     1561 ataaaaagac ctccagtttt gatttagatt cgacacctta atcatataac tggggttttt
     1621 ttatgtcaat tttttctttc acgctaaaaa aacaacacaa atgttgtcat accaacgttt
     1681 ttaaaacatt ttaattcttt gagttatttc tatatagtat caagacaaga agaaactcgt
     1741 tttcaactcg tttcaaaaac ctttcaaaaa ccatcaatcc acaaaaatac cacgcgaatg
     1801 acactcaaaa tacaagacta caattaaaaa atactttaca attaaaaaat acttagaata
     1861 aaatacgaaa attaaaagga gctaaaaatg ccttatattt atttaataat agccataagt
     1921 actgaagtta ttggaagtgc atttcttaaa tcttcagaag gcttttcaaa atttatacca
     1981 tccttaggaa caataatttc atttggaatt tgtttctatt ttttaagtaa aacaatgcaa
     2041 cacctaccac taaatataac ttatgcaact tgggcgggac taggtttagt cttaacaacc
     2101 gtagtctcaa taattatttt caaagaacaa ataaatctaa taactatagt atctatagtt
     2161 ttaatcatag tcggcgtagt ttcgttaaac attttcggaa catcgcatta attgctttat
     2221 tccaattgct ttattgacgt t
//
