LOCUS       NZ_CP047819             2477 bp    DNA     circular CON 18-DEC-2023
DEFINITION  Staphylococcus aureus strain UP_1433 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP047819
VERSION     NZ_CP047819.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN11175634
            Assembly: GCF_009911855.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 2477)
  AUTHORS   Dilthey,A., Meyer,S. and Kaasch,A.
  TITLE     Increasing the efficiency of long-read sequencing for hybrid
            assembly with k-mer-based multiplexing
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2477)
  AUTHORS   Dilthey,A., Meyer,S. and Kaasch,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (14-JAN-2020) Institute for Medical Microbiology and
            Hospital Hygene, University Hospital Duesseldorf, Moorenstrasse 5,
            Duesseldorf 40225, Germany
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: Unicycler Hybrid Assembly v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 43x / 446x
            Sequencing Technology :: Illumina MiSeq / Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 12/17/2023 05:40:35
            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)                     :: 2,749
            CDSs (total)                      :: 2,667
            Genes (coding)                    :: 2,592
            CDSs (with protein)               :: 2,592
            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)              :: 75
            CDSs (without protein)            :: 75
            Pseudo Genes (ambiguous residues) :: 0 of 75
            Pseudo Genes (frameshifted)       :: 44 of 75
            Pseudo Genes (incomplete)         :: 36 of 75
            Pseudo Genes (internal stop)      :: 28 of 75
            Pseudo Genes (multiple problems)  :: 31 of 75
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP047819.1.
            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..2477
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="UP_1433"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="unnamed2"
     gene            complement(join(1904..2477,1..161))
                     /gene="erm(C)"
                     /locus_tag="E3T06_RS13685"
                     /old_locus_tag="E3T06_13695"
     CDS             complement(join(1904..2477,1..161))
                     /gene="erm(C)"
                     /locus_tag="E3T06_RS13685"
                     /old_locus_tag="E3T06_13695"
                     /EC_number="2.1.1.184"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011282421.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="23S rRNA (adenine(2058)-N(6))-methyltransferase
                     Erm(C)"
                     /protein_id="WP_001003263.1"
                     /translation="MNEKNIKHSQNFITSKHNIDKIMTNIRLNEHDNIFEIGSGKGHFT
                     LELVQRCNFVTAIEIDHKLCKTTENKLVDHDNFQVLNKDILQFKFPKNQSYKIFGNIPY
                     NISTDIIRKIVFDSIADEIYLIVEYGFAKRLLNTKRSLALFLMAEVDISILSMVPREYF
                     HPKPKVNSSLIRLNRKKSRISHKDKQKYNYFVMKWVNKEYKKIFTKNQFNNSLKHAGID
                     DLNNISFEQFLSLFNSYKLFNK"
                     /name="erm(C)"
     gene            complement(222..282)
                     /gene="ermCL"
                     /locus_tag="E3T06_RS13720"
                     /pseudo=""
     CDS             complement(222..282)
                     /gene="ermCL"
                     /locus_tag="E3T06_RS13720"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002497446.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="23S rRNA methylase leader peptide ErmCL"
                     /name="ermCL"
     gene            complement(980..1456)
                     /locus_tag="E3T06_RS13690"
                     /old_locus_tag="E3T06_13700"
     CDS             complement(980..1456)
                     /locus_tag="E3T06_RS13690"
                     /old_locus_tag="E3T06_13700"
                     /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"
     ARG             complement(1905..2476)
                     /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="99.47"
                     /coverage="77.87"
     ARG             complement(4..161)
                     /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="21.72"
     Typing          complement(971..1456)
                     /name="rep_cluster_1947"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.591"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aaattacacc tctgtactaa ttcaagggta aaatgccctt ttcctgagcc gatttcaaag
       61 atattatcat gttcatttaa tcttatattt gtcattattt tatctatatt atgttttgaa
      121 gtaataaagt tttgactgtg ttttatattt ttctcgttca ttataaccct ctttaatttg
      181 gttataatga attttgctta ttaacgattc attataacca cttatttttt gtttggttga
      241 taatgaactg tgcctgatta caaaaatact aaaaatgccc atattttttc ctccttataa
      301 aattagtata attatagcac gagctctgat aaatatgaac atgatgagtg atcgttaaat
      361 ttatactgca atctgatgcg attattgaat aaaagatatg agagatttat ctagtttctt
      421 tttttacaag aaaaaagaaa gttcttaaag gttttatact tttggtcgta gagcacacgg
      481 tttaacgact taattacgaa gtaaataagt ctagtgtgtt attagacttt aatgtttttt
      541 taaggcatta gtgcatttaa gcgtcagagc atggctttat gccgagaaaa ctattggttg
      601 gaatggcgtg tgtgttagcc aaagctttgg cgagttggtt gggggtttca tgggattaat
      661 cccatgaaag taccaactca acaacacact aacgcctgtt agttccaacc aataggaaat
      721 tggaataagc aattagtata atgagagtat aatgttggta taacgttagt ataatgatgc
      781 tttttttcat tatatttttt atgtacttta aacctgcacg cttatgtgaa ttagaaaaag
      841 cttaatcgca tttcatagat tgacctccca ataactacgt ggtgttattg ggaggtcaat
      901 ctatttcatt tgcgttaagc ttttgatcta cattaagcgt gcaggttttt tgtctatttg
      961 tagacgattt tatgttatac tagtccttga aagaataata atcagataat gcattttctt
     1021 gtttttcatt tgcctcttgc tcaaagttcc caaattcgag taagaggtat ttttgttttt
     1081 ggtcgtcgcc tctcattagt agttcagggt ttaacattaa tactccagtt tttcttttta
     1141 taatatttcc ttcttctaag attttaagtg ttgttattac tgtttgtaga cttgttcctg
     1201 tagcttttgc tatttctctt gttgtagcta tcattgtatt gttacttaag tggacattat
     1261 ctaggatata gttaacgatt ttaagttttt ttccgccaat catatctaac atacttatta
     1321 attgcactat atatgccttt acgaagttac cagacgtttg tttacggtat aacttgtcta
     1381 cctctatgac ttctccactt tcttcgtcta tgagcctctg agagccttta tagactgttc
     1441 catatctttc tttcatcttt ttctcactcc ttattttaaa ctattctaac tatatcataa
     1501 ctgttctaaa aaaaaaagaa catttgttaa aagaaattag aacaaaatga gtgaaaaatt
     1561 agaacaaaca aattccttat aaaccttatc atctcaacct atattaagat tttacctagt
     1621 tgaatcttct tttctatata aagcgtcgga gcatatcagg gggttatcta acgtaaatgc
     1681 tacccttcgg ctcgctttcg ctcggcattg acgtcagata ctgcaccccc tgaaccccca
     1741 tgctccaaca gcaaaaagga aactttttgc tgcttttccg acgcttattc gcttcgctca
     1801 tatttatata gaaaagaagt gaatgcgcaa aagacataat cgattcacaa aaaataggta
     1861 cacgaaaaac aagttaaggg atgcagttta tgcatccctt aacttactta ttaaataatt
     1921 tatagctatt gaaaagagat aagaattgtt caaagctaat attgtttaaa tcgtcaattc
     1981 ctgcatgttt taaggaattg ttaaattgat tttttgtaaa tattttcttg tattctttgt
     2041 taacccattt cataacgaaa taattatact tctgtttatc tttgtgtgat attcttgatt
     2101 tttttctatt taatctgata agtgagctat tcactttagg tttaggatga aaatattctc
     2161 ttggaaccat acttaatata gaaatatcaa cttctgccat taaaaataat gccaatgagc
     2221 gttttgtatt taataatctt ttagcaaacc cgtattccac gattaaataa atctcatcag
     2281 ctatactatc aaaaacaatt ttgcgtatta tatccgtact tatgttataa ggtatattac
     2341 caaatatttt ataggattgg tttttaggaa atttaaactg caatatatcc ttgtttaaaa
     2401 cttggaaatt atcgtgatca acaagtttat tttctgtagt tttgcataat ttatggtcta
     2461 tttcaatggc agttacg
//
