LOCUS       NZ_CP033984             3011 bp    DNA     circular CON 11-FEB-2024
DEFINITION  Staphylococcus aureus strain P2D1C1 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP033984
VERSION     NZ_CP033984.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN10374694
            Assembly: GCF_009739695.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 3011)
  AUTHORS   Liu,J., Gefen,O., Ronin,I., Bar-Meir,M. and Balaban,N.Q.
  TITLE     Rapid evolution of tolerance in patients infected with S. aureus
            promotes antibiotic resistance
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3011)
  AUTHORS   Liu,J., Gefen,O., Ronin,I., Bar-Meir,M. and Balaban,N.Q.
  TITLE     Direct Submission
  JOURNAL   Submitted (15-NOV-2018) Racah Institute of Physics, Hebrew
            University, Givat ram, Jerusalem 91904, Israel
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Celera Assembler v. 1.7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 594x
            Sequencing Technology             :: PacBio + Illumina HiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/11/2024 03:04:23
            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)                     :: 2,889
            CDSs (total)                      :: 2,807
            Genes (coding)                    :: 2,716
            CDSs (with protein)               :: 2,716
            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)              :: 91
            CDSs (without protein)            :: 91
            Pseudo Genes (ambiguous residues) :: 0 of 91
            Pseudo Genes (frameshifted)       :: 50 of 91
            Pseudo Genes (incomplete)         :: 42 of 91
            Pseudo Genes (internal stop)      :: 35 of 91
            Pseudo Genes (multiple problems)  :: 32 of 91
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP033984.1.
            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..3011
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="P2D1C1"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="unnamed2"
                     /geo_loc_name="Israel: Jerusalem"
                     /lat_lon="31.7732 N 35.1853 E"
                     /collection_date="2017-10-03"
                     /collected_by="Shaare Zedek"
     gene            138..719
                     /locus_tag="EFD76_RS00015"
                     /old_locus_tag="EFD76_00015"
     CDS             138..719
                     /locus_tag="EFD76_RS00015"
                     /old_locus_tag="EFD76_00015"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000991701.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000991701.1"
                     /translation="MNAIQKSVSLRKVLVISLSFLTILSMVLNFNFKEAQAQNKNNIAD
                     KNIETLNEKEIEKELDYIYGKIIVLDKDGTAKDVNLENAKSRYGYVPEGFQKLKNDIEN
                     KKKNSSISPRAVGGNYKNSNDCFYSEVLNSYGELLTGNIIAAVFDDVKAKNIKSAAKKL
                     ARIGIKGNLAGIAATMVSKDVQCTLKYGWF"
                     /name="hypothetical protein"
     gene            complement(1702..2697)
                     /locus_tag="EFD76_RS00020"
                     /old_locus_tag="EFD76_00025"
     CDS             complement(1702..2697)
                     /locus_tag="EFD76_RS00020"
                     /old_locus_tag="EFD76_00025"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001199895.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_001199895.1"
                     /translation="MQYNTTRSITENQDNKTLKDMTKSGKQRPWREKKIDNVSYADILE
                     ILKIKKAYNVKQCGNVLEFKPTDEGYLKLHKTWFCKSKLCPVCNWRRAMKNSYQAQKVI
                     EEVIKEKPKARWLFLTLSTKNAIDGDTLEQSLKHLTKAFDRLSRYKKVKQNLVGFMRST
                     EVTVNKNDGSYNQHMHVLLCVENAYFRKKENYITQEEWVNLWQKALQVDYRPVANIKAI
                     KPNQKGDKDIESAIKETSKYSVKSSDFLTDNDEKNQEIVSDLEKGLYRKRMLSYGGLLK
                     QKHKILNLDDAEDGNLINTSDEDKITDEEAKAHSITAIWNFEKQNYYLRH"
                     /name="protein rep"
     Typing          complement(1468..1632)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.398"
                     /coverage="100.0"
                     /evalue="1.13e-79"
     Typing          complement(1703..2697)
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.687"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aacaaaatta aatattaaaa atacggacaa taaaacaatt aaaaaataaa taaacttatt
       61 catattaaac tcctttgttt ttatatgtta atattatatt ggattcattt aaataacaaa
      121 acaagggggc atttataatg aatgcaattc aaaaaagtgt atcactaaga aaagttttag
      181 taatatcttt aagtttttta actatacttt caatggtctt gaattttaat tttaaagaag
      241 ctcaagccca aaacaaaaac aacatcgcag ataaaaacat tgaaacttta aacgaaaaag
      301 aaatcgaaaa agaactagac tacatatatg gcaaaattat tgttttagat aaagacggaa
      361 ccgctaaaga tgttaatcta gaaaatgcca aatctagata tggatatgtt cctgaaggtt
      421 tccaaaaact aaagaacgac atagagaata aaaagaaaaa tagctcaata tcacctagag
      481 cagttggtgg aaactacaaa aatagtaatg actgtttcta ttctgaagtt ttaaactcat
      541 atggagaact tttaaccggt aatataatcg cagcagtttt tgatgatgta aaagccaaaa
      601 acataaagag tgcagcaaaa aaattagcca gaattggcat aaaaggaaat ttagctggaa
      661 ttgcagctac tatggtttca aaggatgtac aatgtactct gaaatacgga tggttctaaa
      721 tatataattt attccaattg ctttattgac gttgagcctc ggaaccctta acaatcccta
      781 aacttgtcga atcgtcggct taatagctca cgctatgccg acattcgtct tcaagtttag
      841 ttaagggttc ttctcaacat caataaattt tctcggcata aatgcatgtt tgattatgcg
      901 tgtaactatc ccttaaataa aacattaatt gtgcactgat ttactaatta ttatcccttg
      961 ctttcattca cactataatc aacaccttaa ttctaaacat ctgaagtaat cataattttt
     1021 aaacctaata aaattcgtga ctatcttagt taaactctgt ttaattaaga ttttttattt
     1081 ttcgttatcc aagaggcgca tttacatact taaaaatgcg tcgagctaaa accaaaattt
     1141 acgtgtaata atcgaatata cttattttgc attttaaggg ggtatttaga acgaacttta
     1201 aaaatatata gttttatacc tgtattatct tatttgtttc ttaaaacgca aatatgagcc
     1261 aaataaatat attctgattt tataatcaaa aattttttat aatcaaaaat tcgatcaaac
     1321 ccagtgtcga tttttcggac actgcccatt tacatgcaaa ttaaaaatta gcataaaatc
     1381 ctttaaaact tcccccatgt ttttctaaat tcctgcaggg cgctttttat caaaaatcga
     1441 gaatttttaa tttttctcta agaactccgt aagagcataa ggagaatttg ctatcattca
     1501 aaaatgatag gtctggcaaa gccagacatt ccaagggttt taagtaattt taaagtgata
     1561 tcataaaaag ctgtagtgtc acacttttgt gacacaatat attgcgtttg tcacagtttt
     1621 gtgacactac atacagcatt tgtcacaaaa ataagacagt acttttttac aaaaaatcaa
     1681 taaaaaagac atcagtcatc actaatgtct taaataataa ttttgttttt caaaattcca
     1741 aattgccgta attgaatgtg cttttgcttc ttcatctgtt attttatctt catcacttgt
     1801 attaattaaa ttaccatctt cagcatcgtc taagtttaaa attttatgct tttgtttaag
     1861 caatccacca taacttaaca tacgttttcg atataaacct ttttctaaat cacttacaat
     1921 ttcttgattt ttttcgtcat tgtcagttaa aaaatcagat gacttaaccg aatattttga
     1981 tgtctctttg attgccgatt caatatcttt atcgcctttt tgattaggtt taattgcttt
     2041 aatatttgca acaggtcgat aatcaacttg taatgctttt tgccataaat taacccattc
     2101 ttcttgagtt atataattct ctttttttct aaaatatgca ttttcaacac ataacaaaac
     2161 gtgcatatgc tgattataac taccatcatt tttattaacg gtaacttctg ttgaacgcat
     2221 aaatccaaca agattttgtt taaccttttt atatctactc aacctatcaa atgctttagt
     2281 tagatgcttc aaactttgtt ctaaagtatc tccatctatc gcatttttgg ttgaaagtgt
     2341 taaaaacaac caacgtgctt ttggcttttc cttaattact tcttcaatca ctttttgagc
     2401 ttgataacta tttttcatag cacgcctcca attacaaact ggacatagct ttgatttaca
     2461 aaaccacgtc ttatgtaatt tcaaataacc ttcatcggtc ggcttgaatt ctaagacgtt
     2521 accacattgt tttacgttat aagccttttt tatttttaaa atttcaagta tatctgcata
     2581 gcttacatta tctattttct tttctctcca tgggcgttgt ttcccacttt tcgtcatatc
     2641 ttttaacgtt ttattatctt gattttcggt tatacttcta gtagtattat attgcatata
     2701 aaaagacccc cagtattatt taagattcga caccttaata atataactgg ggttttttat
     2761 tgtcaaattt tcctttcacg cacaaaaaca cgtttaaacg ctgtaatatc aacagttaca
     2821 gctatatata taaaatcgag ttatttctat atagtatcaa gacaagaaga aactcgtttt
     2881 caactcgttt caaaaacaat ctatttcttt ttctctttat agccctctaa acctaaataa
     2941 atcaatgtga aaaccaacga ataaataaag ctttctaaaa agtcaaaagg attattaaat
     3001 aaaatcgaat t
//
