LOCUS       NZ_CP103849             3126 bp    DNA     circular CON 04-JUN-2024
DEFINITION  Staphylococcus aureus strain NRL 02/947 plasmid pE48, complete
            sequence.
ACCESSION   NZ_CP103849
VERSION     NZ_CP103849.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN30496472
            Assembly: GCF_024925485.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 3126)
  AUTHORS   Kuntova,L., Maslanova,I., Oborilova,R., Simeckova,H., Finstrlova,A.,
            Bardy,P., Siborova,M., Troianovska,L., Botka,T., Gintar,P., Sedo,O.,
            Farka,Z., Doskar,J. and Pantucek,R.
  TITLE     Staphylococcus aureus Prophage-Encoded Protein Causes Abortive
            Infection and Provides Population Immunity against Kayviruses
  JOURNAL   mBio 14 (2), e0249022 (2023)
   PUBMED   36779718
REFERENCE   2  (bases 1 to 3126)
  AUTHORS   Botka,T.
  TITLE     Direct Submission
  JOURNAL   Submitted (26-AUG-2022) Department of Experimental Biology, Masaryk
            University, Faculty of Science, Kotlarska 2, Brno 611 37, Czech
            Republic
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: JUL-2022
            Assembly Method                   :: Unicycler v. 0.4.8
            Assembly Name                     :: LMDM_Saur_1.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 293.0x
            Sequencing Technology             :: Illumina; Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_024925485.1-RS_2024_06_04
            Annotation Date                   :: 06/04/2024 05:57:36
            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)                     :: 2,844
            CDSs (total)                      :: 2,762
            Genes (coding)                    :: 2,687
            CDSs (with protein)               :: 2,687
            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)       :: 37 of 75
            Pseudo Genes (incomplete)         :: 41 of 75
            Pseudo Genes (internal stop)      :: 12 of 75
            Pseudo Genes (multiple problems)  :: 14 of 75
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP103849.1.
            Bacteria and source DNA available from Department of Experimental
            Biology, Masaryk University, Czech Republic.
            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..3126
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="NRL 02/947"
                     /isolation_source="nose"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="pE48"
                     /geo_loc_name="Czech Republic"
                     /lat_lon="49.1759072 N 16.5691014 E"
                     /collection_date="2002-07"
                     /collected_by="Faculty Hospital Brno Czech Republic"
     gene            complement(join(2761..3126,1..630))
                     /locus_tag="NYF25_RS00005"
                     /old_locus_tag="NYF25_00005"
     CDS             complement(join(2761..3126,1..630))
                     /locus_tag="NYF25_RS00005"
                     /old_locus_tag="NYF25_00005"
                     /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_001199892.1"
                     /translation="MQYNTTRSITENQDNKTLKDMTKSGKQRPWREKKIDNVSYADILE
                     ILKIKKAFNVKQCGNILEFKPTDEGYLKLHKTWFCKSKLCPVCNWRRAMKNSYQAQKVI
                     EKVIKEKPKARWLFLTLSTKNAIDGDTLEQSLKHLTKAFDRLSRYKKVKQNLVGFMRST
                     EVTVNKNDGSYNQHMHVLLCVENAYFRKKENYITQEEWVNLWQRALQVDYRPVANVKAI
                     KPNRKGDKDIESAIKETSKYSVKSSDFLTDDDEKNQEIVSDLEKGLYRKRMLSYGGLLK
                     QKHKILNLDDVEDGNLINASDEDKTTDEEEKAHSITAIWNFEKQNYYLRH"
                     /name="protein rep"
     gene            1082..1663
                     /locus_tag="NYF25_RS00010"
                     /old_locus_tag="NYF25_00010"
     CDS             1082..1663
                     /locus_tag="NYF25_RS00010"
                     /old_locus_tag="NYF25_00010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000991705.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000991705.1"
                     /translation="MNAIQNSISLRKILVVSLSILTILSMVLDFNFKEAQAQNKNNIAD
                     KNVETLNEKEIEKELKYIYGKIIILDKDGTAKDVNLENAKSRYGYVPEGFQKLKNDIEN
                     KKKTSSISPRAVGGNYKNSGDCFYSEVLNSYGELLTGNIITAVFEDVKAKNLKGVAKKL
                     AKIGIKGNLAGIAATMVSKDVQCNLKYGLL"
                     /name="hypothetical protein"
     gene            complement(1989..2177)
                     /locus_tag="NYF25_RS00015"
                     /old_locus_tag="NYF25_00015"
     CDS             complement(1989..2177)
                     /locus_tag="NYF25_RS00015"
                     /old_locus_tag="NYF25_00015"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001030810.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001039248.1"
                     /translation="MNKNTVLDEGYVIATILNVFFLLGLIFISHLENLYILIPYVILMG
                     INAIYLVVKVMNFKKNN"
                     /name="hypothetical protein"
     Typing          complement(2527..2691)
                     /name="MOBV"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.42e-81"
     Typing          complement(2..630)
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="90.506"
                     /coverage="98.0"
                     /evalue="0.0"
     Typing          complement(2762..3126)
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ttgtaatgct ctttgccata aattaaccca ttcttcttga gttatataat tctctttttt
       61 tctaaaatat gcattttcaa cacataacaa aacatgcatg tgctgattat aactaccgtc
      121 atttttatta acggtaactt ctgttgaacg cataaatcca acaagatttt gtttaacctt
      181 tttatatcta ctcaacctat caaatgcttt agttagatgc ttcaaacttt gttctaaagt
      241 atctccatct atcgcatttt ttgttgaaag tgttaaaaac aaccaacgtg cttttggctt
      301 ttccttaatt actttttcaa tcactttttg agcttgataa ctatttttca tagcacgtct
      361 ccaattacaa accggacata attttgattt acaaaaccat gtcttatgta acttcaaata
      421 gccttcatca gttggcttaa attctaaaat attaccacat tgttttacat taaaagcctt
      481 tttgattttt aaaatttcta gtatatctgc atagcttaca ttatctattt tcttttctct
      541 ccatgggcgt tgtttcccac ttttcgtcat atcttttaac gttttattat cttgattttc
      601 ggttatactt ctagtagtat tatattgcat ataaaaagac ccccagtatt atttaagatt
      661 cgacacctta ataatataac tggggttttt tattgtcaaa ttttcctttc acgcacaaaa
      721 acacgtttaa acactgtaat atcaacagtt acagctatat atataaaatc gagttatttc
      781 tatatagtat caagacaaga agaaactcgt tcacactcgt ttcaaaaaac aacctattcc
      841 ttcttctttt tatgaccctc taaacctaaa taaattaatg tgaaaaccaa tgaataaata
      901 aaactttcta aaaagtcaaa aggattatca aataaaatcg aattaacaaa attaaaaatt
      961 aaaaatacag ataataaaat aatcaaaaag taaaaaaact tattcatatt aaactccttt
     1021 gtttttatat gttaatatta tattgaattc atttaaataa caaaacaagg gggcatttac
     1081 aatgaatgca attcaaaaca gtatatcact aagaaagatt ttagtagtat ctttaagtat
     1141 tttaaccata ctttcaatgg tcttggattt taatttcaaa gaagctcaag cccaaaacaa
     1201 aaataacatt gcagataaaa acgttgaaac tttaaacgaa aaagaaattg aaaaagaact
     1261 aaaatacata tatggcaaaa ttattatttt agataaagac ggaacagcta aagatgttaa
     1321 tctagaaaat gccaaatctc gatatggata tgttcctgaa ggattccaaa aactaaaaaa
     1381 cgacatagag aataaaaaga aaactagttc aatatcacct agagcagttg gtgggaacta
     1441 caaaaatagc ggtgactgtt tctattctga agttttaaac tcatatggag aacttttaac
     1501 tggaaacata atcacagcag tttttgaaga tgttaaagcc aaaaacttaa agggcgtagc
     1561 aaaaaaatta gctaaaattg ggataaaagg aaacctagct ggaatcgcag ctactatggt
     1621 ttcgaaggat gtacaatgta atcttaaata cgggttactt tagatactat ttattccaat
     1681 tgctttattg acgttgagcc tcggaaccct taacaatccc aaaacttgtc gaatggtcgg
     1741 cttaatagct cacgctatgc cgacattcgt ctgcaagttt agttaagggt tcttctcaac
     1801 atcaataaat tttctcggca taaatgcgtc gtctattttt tattatcttc atgataatca
     1861 tatttttctt ccatctcgtc aaaagcatca tctttataga aaaacaaaaa gtaagcaaca
     1921 acaccaatag gaataaaaaa acagtgtgaa aacaagaaga aactcgtttc aaaatcccct
     1981 caaatattct aattattctt tttgaaattc ataaccttaa caaccaaata aatagcattt
     2041 attcccatca aaataacata cggaattaat atatataaat tttccaaatg agatataaaa
     2101 attaatccaa gtaaaaagaa aacatttaaa atagttgcta taacgtaacc ttcatctaac
     2161 actgtgtttt tattcaaaat aaacactcct tttttaaaaa actttatcac aagacttact
     2221 caaattataa atacctttat tttgagtttt aagggggtat tttaaaggtt taggggggta
     2281 tcatataggt ttttaactta aaaatatata caagctctta aaacgcaaat atgagccaaa
     2341 taaatatatg gtaatttcac aaacaaaaat ttcagcaaaa ccagtgacta attttttaac
     2401 actgcccatt tacatgcaaa ttaaaaatta gcataaaatc ctttaaaact tccacatgtt
     2461 tttctaaatt cctgcagggc gttttttatc aaaaatcgag aatttttaat ttttctctaa
     2521 aaactccgta agagcataag gagaatttgc tatcattcaa aaatgatagg tctggcaaag
     2581 ccagacattc caggggtttt aaggtatttt aaagtgatat catacaaagc tgtactgtct
     2641 tatttttgtg acacaatata ttgcgtttgt cttatttttg tgacactaca tacagcattt
     2701 gtcacaaaaa taagacagta cttttttata aaaaatcaac aaaaaagaca ttagtcaaca
     2761 ctaatgtctt aaataataat tttgcttttc gaaattccaa attgcggtaa ttgaatgtgc
     2821 tttttcttct tcgtctgttg ttttatcttc atcacttgca ttaatcaaat taccatcttc
     2881 gacatcgtct aagtttaaaa ttttatgttt ttgtttaagc aatccaccat aacttaacat
     2941 acgttttcga tacaaacctt tttctaaatc acttacaatt tcttgatttt tttcatcatc
     3001 atcagttaaa aaatcagatg atttaaccga atattttgag gtctctttga ttgccgattc
     3061 aatgtcttta tcgccttttc tattcggttt gatcgcttta acattagcaa caggtcgata
     3121 gtcaac
//
