LOCUS       NZ_CP133004             2491 bp    DNA     circular CON 17-APR-2024
DEFINITION  Staphylococcus epidermidis strain SEA37 plasmid unnamed5, complete
            sequence.
ACCESSION   NZ_CP133004
VERSION     NZ_CP133004.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN36827138
            Assembly: GCF_038116975.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus epidermidis
  ORGANISM  Staphylococcus epidermidis
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 2491)
  AUTHORS   Puls,J.S., Winnerling,B., Power,J.J., Kruger,A.M., Brajtenbach,D.,
            Johnson,M., Bilici,K., Camus,L., Fliesswasser,T., Schneider,T.,
            Sahl,H.G., Ghosal,D., Kubitscheck,U., Heilbronner,S. and Grein,F.
  TITLE     Staphylococcus epidermidis bacteriocin A37 kills natural competitors
            with a unique mechanism of action
  JOURNAL   ISME J 18 (1) (2024)
   PUBMED   38470311
REFERENCE   2  (bases 1 to 2491)
  AUTHORS   Power,J.J. and Heilbronner,S.
  TITLE     Direct Submission
  JOURNAL   Submitted (09-AUG-2023) Microbiology,
            Ludwig-Maximilians-Universitaet Muenchen, Grosshaderner Str. 2-4,
            Martinsried, Bavaria 82152, Germany
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: MAR-2022
            Assembly Method                   :: nf-core:bacass v. v2.0.0
            Assembly Name                     :: SEA37
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 30x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore PromethION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_038116975.1-RS_2024_04_16
            Annotation Date                   :: 04/16/2024 23:46:57
            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)                     :: 2,442
            CDSs (total)                      :: 2,358
            Genes (coding)                    :: 2,298
            CDSs (with protein)               :: 2,298
            Genes (RNA)                       :: 84
            rRNAs                             :: 7, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 7, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 61
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 60
            CDSs (without protein)            :: 60
            Pseudo Genes (ambiguous residues) :: 0 of 60
            Pseudo Genes (frameshifted)       :: 37 of 60
            Pseudo Genes (incomplete)         :: 39 of 60
            Pseudo Genes (internal stop)      :: 20 of 60
            Pseudo Genes (multiple problems)  :: 27 of 60
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP133004.1.
            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..2491
                     /organism="Staphylococcus epidermidis"
                     /mol_type="genomic DNA"
                     /strain="SEA37"
                     /isolation_source="Nasal cavity"
                     /host="Homo sapiens"
                     /db_xref="taxon:1282"
                     /plasmid="unnamed5"
                     /geo_loc_name="Germany: Bonn"
                     /collection_date="2013"
     gene            complement(join(1906..2491,1..359))
                     /locus_tag="SHJJP9001_RS12195"
                     /old_locus_tag="SHJJP9001_002432"
     CDS             complement(join(1906..2491,1..359))
                     /locus_tag="SHJJP9001_RS12195"
                     /old_locus_tag="SHJJP9001_002432"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002440612.1"
                     /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_002440612.1"
                     /translation="MSRKEQEIHSKQSTLQEVTNYTSTGYSNSRLGVHSVHPQNPKLSF
                     DAMTIVGNLSRDNAQKLSSFMSIEPQIRLWDILQTKFKAKALQEKVYIEYDKVKADTWD
                     RRNMRVEFNPNKLTHEEMLWLKQNIINYMEDDGFTRIDLAFDFEDDLSNYYAMTDKAVK
                     KTVFYGRDGKPETKYFGVRDSDRFIRIYNKKQERKDNADVEVMSDHLWRVEIELKRDMV
                     DYWNDCFNDLHILKPDWTSPEKLNEQAMVYMLIHEEDKWGELNKRTKYKYKNLIKEISP
                     VDLTELMKSTLRENEKQLQKQIEFWQTKGKKLF"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            complement(1004..1192)
                     /locus_tag="SHJJP9001_RS12200"
                     /old_locus_tag="SHJJP9001_002433"
     CDS             complement(1004..1192)
                     /locus_tag="SHJJP9001_RS12200"
                     /old_locus_tag="SHJJP9001_002433"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002440614.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="CsbD family protein"
                     /protein_id="WP_002440614.1"
                     /translation="MSEEKFEQAKGNIKETIGDATDNKDLKAEGKGDKASGKAKEVVDD
                     VKDKANDLIDKVKGDKN"
                     /name="CsbD family protein"
     Typing          complement(2..263)
                     /name="rep_cluster_1118"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.817"
                     /coverage="97.0"
                     /evalue="3.82e-116"
     Typing          complement(1931..2491)
                     /name="rep_cluster_1118"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.171"
                     /coverage="90.0"
                     /evalue="0.0"
ORIGIN
        1 tcatgcgtaa gtttattcgg attaaattca acacgcatat tacgtctatc ccatgtatct
       61 gcttttactt tgtcgtattc gatataaact ttttcctgca gtgctttagc tttaaatttc
      121 gtttgtagta tatcccaaag tcgaatttgt ggttcgatac tcataaatga cgatagcttt
      181 tgagcgttgt cacgactgag atttccaact attgtcatag cgtcaaaact taatttagga
      241 ttttgtgggt gcacagaatg cactcctaac cggctattag agtatccggt tgaggtgtaa
      301 tttgtaactt cttgtaatgt gctttgcttt gaatgaattt cttgctcttt tctactcata
      361 aaaaatcgac tccttaattt aatttaagaa gtcgcccacc cgaatattta tcttgatgta
      421 tatttaaata tcgtttagta tttaaatata caaattcata aaaaacaact catgttttct
      481 ttttggattg tcgttcacaa actttggtcg gtgggtgagc gacttctttt tatttgttta
      541 ttaatataac actatcaaaa ggcttggtct aatcagatca agtctttttt agtaccaaaa
      601 cttattacat aatcaaaaat taattttctt tagataattt atattgcttg taagcataat
      661 aaactataaa tgactgtact actacttgtg caaaagataa tgctatacga atgcttttct
      721 tagttttctc actcattttc ttcaactcct tttgttgctt tattccaatt gctttattga
      781 cgttgagcct cggaaccctt aacaatccca aaacttgtcg aatggtcggc ttaatagctc
      841 acgctatgcc gacattcgtc tccaagttta gttaagggtt cttctcaaca tcaataaatt
      901 ttctcggcat aaatgcgtgt cttattattt atttttattc actttaaata aaaaacgtcc
      961 caagtatgct acataataat acttaagacg ttttaatttt tatttagttt ttatctcctt
     1021 taactttatc aatcaagtca ttagctttat ctttaacatc atctactact tctttggctt
     1081 taccagaagc tttatctcct ttaccttctg cttttaaatc cttattatca gtagcatctc
     1141 caatagtctc tttgatattt ccttttgctt gttcgaattt ttcttcgctc attttctatt
     1201 cctcctaaat aatcaatgtc tacaatacaa ttctattatt caaataccct ttttaaaagt
     1261 gaaatcatat ccttttttat cccatgcatt aaaccttgta ttatcccatg tatacaaaat
     1321 gatttatgta ttactccttt tcatttagaa tatcaaaaac tatcctacag atagactact
     1381 caaaaaatga gtagtctttt tattttgcat tttaagccct ttctaggaca tttaatcatt
     1441 ccacgtataa aaatgactaa aaactttttt tgttcaacag agaggctata aatcatttta
     1501 aaatttattt ctcaacactt tcagaaaaaa atatgttttt ttattttaat tatccttctc
     1561 aataaaaagc taaaacctga aaaaaatagg tgtataatgt aacttttata ttttaaaata
     1621 ttttaaaaga gcataagagg aatcctacac agaaatgtct ccgtatgtag ccattcggta
     1681 gccgtttctg tgcaaaatat tgatttgaca gtgtcaaatg ggattcctat ttatgcgata
     1741 aaaattgtta tatgactccc gaacgactac acaaaagcta ccgaatagct acccaaaatc
     1801 aaaaatgact cccaaatggc tacataaaat caaaaatagc tcccaaatag ctcccttttt
     1861 atggagccat ttgggagcta aaagggagtc aaatggtagc catttttaaa atagcttctt
     1921 accttttgtc tgccaaaatt ctatttgctt ttgtaattgt ttttcatttt ctcttaaagt
     1981 cgatttcatt aattccgtta aatcaactgg agatatttct ttaattaaat ttttatattt
     2041 atatttagtt cttttattca attctcccca tttgtcttct tcatgaatta acatgtaaac
     2101 cattgcttgt tcatttaatt tttctggcga agtccaatct ggtttcaaga tatgtaaatc
     2161 attaaaacaa tcattccagt aatccaccat atctctttta agttcaattt ctacacgcca
     2221 taagtgatca gacataactt cgacatctgc gttatcttta cgttcttgtt ttttgttata
     2281 aattctaata aatctatcac tatcacgaac gccaaaatat tttgtttctg gtttcccgtc
     2341 acgaccataa aatacagttt tcttaactgc tttatcagtc attgcataat aattacttaa
     2401 atcatcttca aaatcaaaag ctaaatctat tcttgtaaaa ccgtcatctt ccatgtagtt
     2461 gataatgttt tgttttaacc aaagcatttc t
//
