LOCUS       NZ_CP076845             3410 bp    DNA     circular CON 19-JUL-2023
DEFINITION  Staphylococcus aureus strain 55-100-003 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP076845
VERSION     NZ_CP076845.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN19718724
            Assembly: GCF_018987345.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 3410)
  AUTHORS   Larsen,J.
  TITLE     Pleuromutilin-resistance in MRSA CC398
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3410)
  AUTHORS   Larsen,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (17-JUN-2021) Depaertment of Bacteria, Parasites and
            Fungi, Statens Serum Institut, Artillerivej 5, Copenhagen S 2300,
            Denmark
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8-beta
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 300.0x
            Sequencing Technology :: Oxford Nanopore MinION; Illumina NextSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/19/2023 03:16:06
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 2,754
            CDSs (total)                      :: 2,673
            Genes (coding)                    :: 2,555
            CDSs (with protein)               :: 2,555
            Genes (RNA)                       :: 81
            rRNAs                             :: 7, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 7, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 58
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 118
            CDSs (without protein)            :: 118
            Pseudo Genes (ambiguous residues) :: 0 of 118
            Pseudo Genes (frameshifted)       :: 76 of 118
            Pseudo Genes (incomplete)         :: 36 of 118
            Pseudo Genes (internal stop)      :: 25 of 118
            Pseudo Genes (multiple problems)  :: 17 of 118
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP076845.1.
            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..3410
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="55-100-003"
                     /host="Sus scrofa"
                     /db_xref="taxon:1280"
                     /plasmid="unnamed2"
                     /geo_loc_name="Denmark"
                     /collection_date="2014"
     gene            complement(join(3119..3410,1..641))
                     /locus_tag="KRH49_RS13655"
                     /old_locus_tag="KRH49_13655"
     CDS             complement(join(3119..3410,1..641))
                     /locus_tag="KRH49_RS13655"
                     /old_locus_tag="KRH49_13655"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011167206.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0003916 - DNA topoisomerase activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation factor domain-containing
                     protein"
                     /protein_id="WP_107607531.1"
                     /translation="MSKKEQINDFNQEMNNNLKTGYSNSRLSVPIWDTPQPKLSFDAMT
                     IVGNLNKNNAQKLSEFMSLEPQIRLWDILQTKFKAKALQEKVYIEYDKVKADTWDRRNM
                     RVEFNPNKLTHEEMLWLKQNIIDYMEDDGFTRLDLAFDFEDDLSDYYAMTDKSVKKTIF
                     YGRNGKPETKYFGVRDSDRFIRIYNKKQERKDNADIEIISEHLWRVEIELKRDMVDYWN
                     DCFNDLHILKPDYSTIEKAPDRHTIMALLFDESEWGKLERKKKYRMKKLMTEISTIDLT
                     DLMKLTLKENEKQLQKQIDFWQREFRFWK"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            1051..1299
                     /locus_tag="KRH49_RS13660"
                     /old_locus_tag="KRH49_13660"
     CDS             1051..1299
                     /locus_tag="KRH49_RS13660"
                     /old_locus_tag="KRH49_13660"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002447983.1"
                     /GO_component="GO:0016020 - membrane [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="GlsB/YeaQ/YmgE family stress response membrane
                     protein"
                     /protein_id="WP_076955182.1"
                     /translation="MGFIIMIIVGGLIGWLAGAILGKDVPFGIIGNIIAGLIGSAIGSK
                     LLGQWGPILGGVPILPALIGSIILILIVSFITKAINK"
                     /name="GlsB/YeaQ/YmgE family stress response membrane
                     protein"
     gene            complement(1593..2861)
                     /gene="mobV"
                     /locus_tag="KRH49_RS13665"
                     /old_locus_tag="KRH49_13665"
     CDS             complement(1593..2861)
                     /gene="mobV"
                     /locus_tag="KRH49_RS13665"
                     /old_locus_tag="KRH49_13665"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002493196.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006310 - DNA recombination [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobV family relaxase"
                     /protein_id="WP_154409734.1"
                     /translation="MSYSIIRVAKVKSNTNTTGLQKHIQRENNNYENIDINLEQSHLNY
                     DLVNDNPIDYNSAIDKKIEENYTSKRKIRTDAVKHIDGLITSDSEFFNNQSPEDTKQFF
                     EHAKIFLEQEYGKDNLLYATVHLDEKTPHMHYGVVPITTDGRLSAKEVVGNKKALTGFQ
                     DRFNEYLNKSGYDLERGLPKTLTKDKYEQLSQYKQKTEYHKEEYKHESQKLDYIKQEND
                     KLNLEYQNALKTLKKPLNVPYDFEMEKVGGLFNKEVHETGNVVISQDDFESFKTQIKAA
                     QSISEDYQFVKSGQALKDAEQKYRDLDNELTEYKVENEDLVDEFNNLAQRYNQLLDENQ
                     KKDKELSDSFKLFQNVFKIIKNIVKEDVYHKLIDHIDNRLESSKMREVMTVDNNDDVFF
                     KQKHKVQEPEIIFENDRDDGFTL"
                     /name="mobV"
     Typing          complement(2..512)
                     /name="rep_cluster_1118"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="90.039"
                     /coverage="95.0"
                     /evalue="0.0"
     Typing          complement(3122..3410)
                     /name="rep_cluster_1118"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.621"
                     /coverage="93.0"
                     /evalue="8.86e-143"
ORIGIN
        1 tttaactcaa tttctacacg ccataaatgt tctgaaataa tttcaatatc tgcattatcc
       61 ttacgttctt gttttttatt ataaattcta ataaatctat cactgtcacg aacaccaaaa
      121 tatttcgttt ctggtttacc gttacgacca taaaaaatag tttttttaac tgatttatca
      181 gtcattgcat aatagtcact caaatcatct tcaaaatcaa aagctaaatc caatcttgtg
      241 aaaccgtcat cttccatgta gtcgataata ttttgtttca accaaagcat ttcttcatgt
      301 gtaagtttat tcggattaaa ttcaacacgc atattacgtc tatcccacgt atctgctttt
      361 actttgtcat attcaatata tactttttct tgtagagctt tagctttaaa tttcgtttgt
      421 aatatatccc aaagtctaat ttgtggttca agactcataa attcagatag cttttgagca
      481 ttatttttat taagatttcc aacaattgtc atagcatcaa aacttaattt tggttggggg
      541 gtgtcccaaa tcggaacact taaccggcta ttagagtatc cggttttaag attattgttc
      601 atttcttgat taaaatcatt aatttgctct tttttactca taaaaaatcg actccttatt
      661 ttatctaaga agtcgctcac ccgaaatata tatcttgaag aataaactta tatcgtttaa
      721 tatctagata tacaaaaatt aataaaacat aactctttat attttattta ggtaagtcgt
      781 tcacgaaaac tttggtcggt ttggggtgag cgacttcttt ttatttgttt attaatataa
      841 cactataaaa taacttggtc taataggaat aagttatttt tgtctactaa attatttagt
      901 cctctataac tttttaaatc aatgatcata aaaatacaat caaaatatac aagttttaat
      961 aaaacaggaa aagattaata cttaattcgt ttcaattaaa tattctcagg gtatacatta
     1021 taaataatac ttaaaaaagg agactacatc atgggattta ttattatgat aattgtcgga
     1081 ggactaattg gttggctcgc aggagctatc cttggtaaag atgtcccatt cggcataatc
     1141 ggaaatataa ttgcaggttt aattggttct gcaattggta gtaaactttt aggacaatgg
     1201 ggtccaatat taggtggagt tccaatttta ccagctctaa ttggatcaat tattttaata
     1261 ttaattgttt catttattac aaaagctata aataaataat caagtaacca gctatgtata
     1321 gttggttact tttttgcttt attccaattc ctctatttgt cgacgattct gcgctcctta
     1381 ataatcctaa agctgtccat cggtcgattt aatagctaac gctattgacc gctggcgctt
     1441 taagtctaat taagggctct catcgacaaa tagattttct cggcataaat gcgtgttctt
     1501 ttgttataat cagtatggaa ctccttccat acaggtatta ataaagcata agctatgttg
     1561 aattatatca acttcccaat agtttatgct ttttataacg taaaaccatc gtctctatcg
     1621 ttttcaaaaa ttatttctgg ctcttgtact ttatgttttt gcttaaagaa tacatcatca
     1681 ttattatcta ctgtcataac ttctctcatt ttcgaactct ctaatcgatt atcaatatga
     1741 tctatcaatt tatgataaac atcttctttc acaatatttt taattatttt aaatacattc
     1801 tgaaataatt tgaatgaatc actcaattct ttatctttct tctgattttc atctaacaat
     1861 tggttataac gctgtgctaa attattaaac tcatcaacta aatcttcatt ttctacttta
     1921 tattcggtca attcattatc taaatctcta tatttttgtt cagcatcttt caatgcttga
     1981 ccacttttaa caaattgata atcttctgaa atagattgtg cagcctttat ctgagtttta
     2041 aaactttcaa agtcatcttg gcttatcact acatttcctg tttcatgcac ttctttatta
     2101 aacaaaccac ctactttttc catttcaaaa tcataaggaa catttaaagg ctttttaagt
     2161 gtttttaatg cattttggta ctctaggttc aatttatcgt tttcttgctt tatatagtct
     2221 aatttttggc tctcatgctt atattcttct ttatgatatt ctgttttttg tttatactgg
     2281 cttaattgtt catatttatc ttttgttaac gtcttaggca gtccacgttc caaatcatac
     2341 ccagacttat taaggtattc attaaaccta tcttgaaatc ctgttaaagc ctttttatta
     2401 ccaacaactt ctttagcact taaacgtcca tcagtagtta ttggaaccac tccataatgc
     2461 atatgtggcg ttttctcatc caagtgaact gttgcgtata ataaattatc ttttccatat
     2521 tcctgttcta aaaatatttt cgcatgctca aaaaactgtt ttgtatcttc tggtgattga
     2581 ttgttaaaaa attcactatc tgatgtaatc aaaccatcta tgtgtttaac tgcgtctgtt
     2641 ctaatttttc ttttacttgt ataattttct tcgatttttt tatcgattgc cgaattgtag
     2701 tcaattggat tgtcattaac taaatcataa tttaaatgtg attgttctaa atttatatca
     2761 atattttcgt agttattatt ttctctttga atatgttttt gtaacccagt tgtatttgta
     2821 tttgatttca ctttagcaac ccgaataatt gaataagaca taaacaaaat cactcctcag
     2881 cacatctagt gtgttatctt tttaaataaa agtataacac actagactta ttttcaataa
     2941 gtcgttaaac cgtatgctct gcgaggctca aacatgtttt tgtgcaggca caaaaaatgg
     3001 actgaataaa tcagtccata agttcaaaac caaattcaaa atcaaaacac cagcaaccaa
     3061 aaatggtggt tgctaatgtt cataaatttt atgatcactc acgtgtataa aatttaattc
     3121 acttccaaaa tctaaattca cgttgccaaa aatcaatctg cttttgcaat tgtttttcgt
     3181 tctcttttaa agtcaatttc attaagtccg ttaaatcaat tgtagaaatt tcagtcatta
     3241 attttttcat tctatatttc ttcttacgtt ctaattttcc ccattcactc tcatcaaata
     3301 gcaaagccat aattgtatgt ctgtctggag ctttttctat tgtcgaatag tctggtttta
     3361 aaatatgtaa atcattaaaa caatcattcc agtaatcaac catatctctt
//
