LOCUS       NZ_CP047322             2473 bp    DNA     circular CON 18-DEC-2023
DEFINITION  Staphylococcus aureus strain RJ1267 plasmid unnamed, complete
            sequence.
ACCESSION   NZ_CP047322
VERSION     NZ_CP047322.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN13698767
            Assembly: GCF_009857055.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 2473)
  AUTHORS   Liu,D.H. and Li,W.
  TITLE     Complete Genome Sequence of Community-Acquired Methicillin-Resistant
            Staphylococcus aureus Strain ST630, Isolated in Shanghai, China
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2473)
  AUTHORS   Liu,D.H. and Li,W.
  TITLE     Direct Submission
  JOURNAL   Submitted (30-DEC-2019) Microbial Research, USTC, Huangshan Road,
            Hefei, Anhui 230001, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 25-DEC-2019
            Assembly Method                   :: Unicycler v. 4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 1.0x
            Sequencing Technology             :: PacBio RSII
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 12/17/2023 03:19:17
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 2,965
            CDSs (total)                      :: 2,883
            Genes (coding)                    :: 2,771
            CDSs (with protein)               :: 2,771
            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)              :: 112
            CDSs (without protein)            :: 112
            Pseudo Genes (ambiguous residues) :: 0 of 112
            Pseudo Genes (frameshifted)       :: 55 of 112
            Pseudo Genes (incomplete)         :: 54 of 112
            Pseudo Genes (internal stop)      :: 24 of 112
            Pseudo Genes (multiple problems)  :: 18 of 112
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP047322.1.
            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..2473
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="RJ1267"
                     /isolation_source="sputum"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="unnamed"
                     /geo_loc_name="China: Shanghai"
                     /lat_lon="31.213408 N 121.529513 E"
                     /collection_date="2018-06-06"
                     /collected_by="Renji hospital affiliated to Shanghai
                     Jiaotong University, China"
                     /genotype="ST630"
     gene            join(2411..2473,1..672)
                     /gene="erm(C)"
                     /locus_tag="GSF72_RS14790"
                     /old_locus_tag="GSF72_14790"
     ARG             2..669
                     /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="91.39"
     gene            1120..1596
                     /locus_tag="GSF72_RS14795"
                     /old_locus_tag="GSF72_14795"
     CDS             1120..1596
                     /locus_tag="GSF72_RS14795"
                     /old_locus_tag="GSF72_14795"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000664727.1"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA];
                     GO:0006276 - plasmid maintenance [Evidence IEA]"
                     /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            2291..2350
                     /gene="ermCL"
                     /locus_tag="GSF72_RS14800"
                     /old_locus_tag="GSF72_14800"
     CDS             2291..2350
                     /gene="ermCL"
                     /locus_tag="GSF72_RS14800"
                     /old_locus_tag="GSF72_14800"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002497446.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="23S rRNA methylase leader peptide ErmCL"
                     /protein_id="WP_002497446.1"
                     /translation="MGIFSIFVISTVHYQPNKK"
                     /name="ermCL"
     ARG             2412..2473
                     /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="100.0"
                     /coverage="8.61"
     ARG             2..672
                     /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="99.55"
                     /coverage="91.39"
     Typing          1121..1606
                     /name="rep_cluster_1947"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.591"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ataatgacaa atataagatt aaatgaacat gataatatct ttgaaatcgg ctcaggaaaa
       61 gggcatttta cccttgaatt agtacagagg tgtaatttcg taactgccat tgaaatagac
      121 cataaattat gcaaaactac agaaaataaa cttgttgatc acgataattt ccaagtttta
      181 aacaaggata tattgcagtt taaatttcct aaaaaccaat cctataaaat atttggtaat
      241 ataccttata acataagtac ggatataata cgcaaaattg tttttgatag tatagctgat
      301 gagatttatt taatcgtgga atacgggttt gctaaaagat tattaaatac aaaacgctca
      361 ttggcattat ttttaatggc agaagttgat atttctatat taagtatggt tccaagagaa
      421 tattttcatc ctaaacctaa agtgaatagc tcacttatca gattaaatag aaaaaaatca
      481 agaatatcac acaaagataa acagaagtat aattatttcg ttatgaaatg ggttaacaaa
      541 gaatacaaga aaatatttac aaaaaatcaa tttaacaatt ccttaaaaca tgcaggaatt
      601 gacgatttaa acaatattag ctttgaacaa ttcttatctc ttttcaatag ctataaatta
      661 tttaataagt aagttaaggg atgcagttta tgcatccctt aacttgtttt tcgtgtacct
      721 attttttgtg aatcgattat gtcttttgcg cattcacttc ttttctatat aaatatgagc
      781 gaagcgaata agcgtcggaa aagcagcaaa aagtttcctt tttgctgttg gagcatgggg
      841 gttcaggggg tgcagtatct gacgtcaatg ccgagcgaaa gcgagccgaa gggtagcatt
      901 tacgttagat aaccccctga tatgctccga cgctttatat agaaaagaag attcaactag
      961 gtaaaatctt aatataggtt gagatgataa ggtttataag gaatttgttt gttctaattt
     1021 ttcactcatt ttgttctaat ttcttttaac aaatgttctt ttttttttag aacagttatg
     1081 atatagttag aatagtttaa aataaggagt gagaaaaaga tgaaagaaag atatggaaca
     1141 gtctataaag gctctcagag gctcatagac gaagaaagtg gagaagtcat agaggtagac
     1201 aagttatacc gtaaacaaac gtctggtaac ttcgtaaagg catatatagt gcaattaata
     1261 agtatgttag atatgattgg cggaaaaaaa cttaaaatcg ttaactatat cctagataat
     1321 gtccacttaa gtaacaatac aatgatagct acaacaagag aaatagcaaa agctacagga
     1381 acaagtctac aaacagtaat aacaacactt aaaatcttag aagaaggaaa tattataaaa
     1441 agaaaaactg gagtattaat gttaaaccct gaactactaa tgagaggcga cgaccaaaaa
     1501 caaaaatacc tcttactcga atttgggaac tttgagcaag aggcaaatga aaaacaagaa
     1561 aatgcattat ctgattatta ttctttcaag gactagtata acataaaatc gtctacaaat
     1621 agacaaaaaa cctgcacgct taatgtagat caaaagctta acgcaaatga aatagattga
     1681 cctcccaata acaccacgta gttattggga ggtcaatcta tgaaatgcga ttaagctttt
     1741 tctaattcac ataagcgtgc aggtttaaag tacataaaaa atataatgaa aaaaagcatc
     1801 attatactaa cgttatacca acattatact ctcattatac taattgctta ttccaatttc
     1861 ctattggttg gaaccaacag gcgttagtgt gttgttgagt tggtactttc atgggattaa
     1921 tcccatgaaa cccccaacca actcgccaaa gctttggcta acacacacgc cattccaacc
     1981 aatagttttc tcggcataaa gccatgctct gacgcttaaa tgcactaatg ccttaaaaaa
     2041 acattaaagt ctaacacact agacttattt acttcgtaat taagtcgtta aaccgtgtgc
     2101 tctacgacca aaagtataaa acctttaaga actttctttt ttcttgtaaa aaaagaaact
     2161 agataaatct ctcatatctt ttattcaata atcgcatcag attgcagtat aaatttaacg
     2221 atcactcatc atgttcatat ttatcagagc tcgtgctata attatactaa ttttataagg
     2281 aggaaaaaat atgggcattt ttagtatttt tgtaatcagc acagttcatt atcaaccaaa
     2341 caaaaaataa gtggttataa tgaatcgtta ataagcaaaa ttcattataa ccaaattaaa
     2401 gagggttata atgaacgaga aaaatataaa acacagtcaa aactttatta cttcaaaaca
     2461 taatatagat aaa
//
