LOCUS       NZ_CP097005             3733 bp    DNA     circular CON 19-MAY-2024
DEFINITION  Enterococcus faecalis strain LS05-2 plasmid pLS05-2-a, complete
            sequence.
ACCESSION   NZ_CP097005
VERSION     NZ_CP097005.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN28025470
            Assembly: GCF_023299485.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecalis
  ORGANISM  Enterococcus faecalis
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 3733)
  AUTHORS   Biggel,M.
  TITLE     Florfenicol-resistant Enterococci from pet food
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3733)
  AUTHORS   Biggel,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (02-MAY-2022) Institute for Food Safety and Hygiene,
            University of Zurich, Winterthurerstrasse 272, Zurich 8057,
            Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x, 100x
            Sequencing Technology :: Illumina MiniSeq, Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_023299485.1-RS_2024_05_19
            Annotation Date                   :: 05/19/2024 04:10:07
            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)                     :: 2,582
            CDSs (total)                      :: 2,509
            Genes (coding)                    :: 2,487
            CDSs (with protein)               :: 2,487
            Genes (RNA)                       :: 73
            rRNAs                             :: 4, 4, 4 (5S, 16S, 23S)
            complete rRNAs                    :: 4, 4, 4 (5S, 16S, 23S)
            tRNAs                             :: 57
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 22
            CDSs (without protein)            :: 22
            Pseudo Genes (ambiguous residues) :: 0 of 22
            Pseudo Genes (frameshifted)       :: 5 of 22
            Pseudo Genes (incomplete)         :: 17 of 22
            Pseudo Genes (internal stop)      :: 3 of 22
            Pseudo Genes (multiple problems)  :: 3 of 22
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP097005.1.
            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..3733
                     /organism="Enterococcus faecalis"
                     /mol_type="genomic DNA"
                     /strain="LS05-2"
                     /isolation_source="pet food (BARF)"
                     /db_xref="taxon:1351"
                     /plasmid="pLS05-2-a"
                     /collection_date="2022"
                     /collected_by="ILS, University of Zurich"
     gene            join(3610..3733,1..752)
                     /locus_tag="M2925_RS12840"
                     /old_locus_tag="M2925_12840"
     CDS             join(3610..3733,1..752)
                     /locus_tag="M2925_RS12840"
                     /old_locus_tag="M2925_12840"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002338069.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_129187473.1"
                     /translation="MKKLLSGLFGVSVILMLGACANSTSGKSENTKSAAEGKFVVSKNI
                     EITEQEKEMNVTERMNELFNAVNKDTIIANTSEKFGYQFAIEENLNEPYKLSDQINKNK
                     ELIFKNLDKEIGLENYYTKTALKHIKEEFERMNQHTPFQYPIDFFFLAQYTGHYWGEVK
                     TEDNGYVNAYIDRNTIVFDGQSWKINRIDSEGENVAKIEVTNDNIRPTNNSYTFDSSIL
                     ESQIKNKESDPIAESLQLNDHKYQNMSVIFSNPAINSLQLSNMSGKPALVVTLNKEDSI
                     WKINTVEYGY"
                     /name="hypothetical protein"
     gene            complement(1336..1599)
                     /locus_tag="M2925_RS12845"
                     /old_locus_tag="M2925_12845"
     CDS             complement(1336..1599)
                     /locus_tag="M2925_RS12845"
                     /old_locus_tag="M2925_12845"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002336758.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="epsilon-antitoxin"
                     /protein_id="WP_002336758.1"
                     /translation="MTLDYRKTFEIEIINEFQSAIHSKMLNYVLNNELDKSDSTNLQVN
                     LLKQLSNMNQINLFELSLEELEAYHDYLRTIKKYADNITRTA"
                     /name="epsilon-antitoxin"
     gene            2434..3408
                     /locus_tag="M2925_RS12850"
                     /old_locus_tag="M2925_12850"
     CDS             2434..3408
                     /locus_tag="M2925_RS12850"
                     /old_locus_tag="M2925_12850"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002358693.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     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 protein"
                     /protein_id="WP_089202028.1"
                     /translation="MANEIVKYHSELNTIPLRKFTPVEMNLFFSIVSRMREKGDKTVRF
                     TFDQLKDLSNYKATANNRFIDDLQDTYEKILSLRFGSRSESGLNRSMFVMFTEFEIVGD
                     VDEPYVDIRIYEKALPLLNNLDSWTRYSLQQFNELQSSYAKTMFRLLKQFRTKGCAYFS
                     KDDFYELLDIPKTYKQGNVDQKVLQPIKQELTAIFKGLTIKKKYGKGRGKPVIGYQFSF
                     KPEIKKADDFNKHAPTKEEQNRALAQADKQKEYEQQPTTIDEKILEAKRKVELLEQLKE
                     LEKKEKQDTTNQTPTEQKKSKSDSQLSEKDKQDLLNGLSNFGK"
                     /name="replication initiation protein"
     Typing          2435..3408
                     /name="rep_cluster_1197"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.2"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 caaaaaatat agaaataact gaacaagaaa aagaaatgaa tgttactgag aggatgaatg
       61 aactatttaa tgcagttaat aaagacacga taatagcaaa tacttcggaa aaatttggct
      121 atcaatttgc tattgaagag aatttgaatg aaccttataa actaagtgat caaattaata
      181 agaataaaga acttattttc aaaaacttag ataaagaaat agggttggaa aattattata
      241 caaaaacagc attgaaacat atcaaggaag aatttgaaag aatgaatcaa cacacacctt
      301 ttcaatatcc gatagacttc tttttcttag ctcaatacac tggacattat tggggagaag
      361 taaagactga agacaatggt tacgtgaatg cttatattga tagaaatact atagtttttg
      421 atggtcaaag ttggaagata aatcgcatag attctgaagg agagaacgtt gctaaaatag
      481 aagttacaaa cgataatatt cgtccaacaa acaattcgta tacatttgac tcttctatct
      541 tagagagtca aataaaaaac aaagaaagtg atccaatagc tgaatcatta caattaaatg
      601 atcacaagta ccaaaatatg tctgtcattt tcagcaatcc tgcaattaat tcgttacagt
      661 tatctaatat gagtggaaaa cctgctttgg ttgtaacttt aaataaagaa gattcaattt
      721 ggaaaatcaa cacagtagag tatggatatt aattttgaca ggtgaatatt atgaataaag
      781 tactaaatgg actttcaaat tttggaaaat aatttcactg attttttcaa aaatggggat
      841 tggggcaacg cccaaaaaat aaaaagaatc gtctgaaacg aggaacaaat taaaatgcaa
      901 attttagttg tgaccgagtg gaagatgatt actttttacc gtaagtgtgt acacacttac
      961 taagctcgct acaaagaaat atctatctgc atagaaacaa gagcgtagcg aattttaaca
     1021 aacacgcttg acgggaaaag agtacagttt cacgtgagtg atctgtactc ttttttagca
     1081 cgatagacac caaaatattt tggtgggtgt aagtgcgccc ttagcacaac gtagaaaaaa
     1141 ttcggtagat ttttttactg cgtataagtg cgcccttagt aaaaatcact aagggaatat
     1201 ttttcaaatt aactttgtag aaacgcaccc cttattttta agggcgcact tataccccta
     1261 aatttcattt agtggtaatt gtgctataaa acttaattta catttcgttt tatcgtcaag
     1321 cgtgttggtt aaaactcacg ctgttcgtgt gatgttatcg gcatattttt ttatcgttcg
     1381 taaatagtcg tgataggctt ctaattcttc taaagataat tcaaataaat taatttggtt
     1441 catgtttgat aattgtttta ataaatttac ttgtaggttt gtcgaatcac ttttatcgag
     1501 ttcattattt aaaacatagt tcaacatttt tgagtgaatt gctgattgaa attcattgat
     1561 tatctcaatt tcaaatgttt ttctgtaatc taatgtcatg ttgtttgctc ctttctggtt
     1621 tcgctttgct caactaaaca tttactttta attaaacaga cttcgctagt ttaatcaaaa
     1681 gtaaacgtgc gaataaaaag caaatcattt ttaaagctca taaaatgcgt tctaaggcgt
     1741 tttaacgatc atgccgataa actaactaaa taaacactaa aacctcttaa aacgcaaaat
     1801 atgacgttta aatggtattt tagtttgtat tgctatctaa aatctgcttt tgggtcgtta
     1861 gggcttgccc tgaccgtctg aaagacgctt gatgaacaag attacctaaa accactaaaa
     1921 acgtcttaga gagccttata tggcgttcta aacctaaacc aatccgcctt tgaacaacgg
     1981 ttttgatttt gcccttagcg agtgaacgaa gtgagcgctg caagtaaaat gtgagcgtgg
     2041 ttttcgatca ctcctttttt gtcttttggt tttttatttg cagttttgca aaattcgcga
     2101 acctgtttat ctaaaaaaat gagctttttt aggcgggaaa ttttgccccc cctcttttat
     2161 aatctctttt taaacctctt ttaaacctct ttaccgtcgg ctgtgtaatt actctcccaa
     2221 gaggtacaga gtcttttgaa caaccaattg tctgtttatg aacaaccaat tgtctgttta
     2281 tgaacaacca attgtctgtt tatgaacaac caattgtctg tttggtattg ttttacgaac
     2341 aaccagttgt tataataagt tgtataaaca gacaaaacaa cctttaaaag gttctgtatc
     2401 ccttgggaga gtaaggaaag gactgattca tatatggcta atgagattgt taagtaccat
     2461 tcagaactaa atacgattcc tttacggaaa tttactcccg tagaaatgaa tttatttttt
     2521 tctatcgtgt ccagaatgcg tgaaaaaggt gataaaaccg ttcgttttac ttttgaccaa
     2581 ctgaaagatt taagtaatta caaagcaacc gctaacaacc gttttattga cgacttacaa
     2641 gatacttatg aaaaaattct ttccttgcgt tttggtagtc gtagtgaaag tgggttaaac
     2701 agaagtatgt ttgtcatgtt tactgaattt gagattgtcg gggatgttga tgaaccttac
     2761 gtagatatac gaatttacga aaaagcattg cctttgttaa ataatcttga ttcatggact
     2821 cgttactctc tgcaacaatt caacgagcta caaagtagtt atgcaaaaac catgttcaga
     2881 ctgttaaaac agtttcgtac caaaggatgt gcgtatttct ctaaagacga tttttacgaa
     2941 ttattggaca ttccaaaaac ttacaaacaa ggtaatgtcg atcaaaaagt tctccagcct
     3001 atcaaacaag agttaactgc aatttttaaa ggactgacaa tcaaaaagaa atacggcaaa
     3061 ggtcgtggca agcctgttat tggctatcaa ttttcgttca aaccagaaat caagaaagca
     3121 gacgatttca acaaacatgc accaaccaaa gaagaacaaa atagagcgtt agcacaagcg
     3181 gataaacaaa aagaatacga gcaacaacca acaacgattg acgagaaaat tttagaagca
     3241 aaaagaaaag ttgagctact tgaacaactc aaagagttag aaaaaaaaga aaaacaagac
     3301 acaacaaatc agacacctac agaacaaaaa aaatcaaaaa gtgattcgca actttccgaa
     3361 aaagacaaac aagatttact aaatggactt tcaaattttg gaaaataatt tcactgattt
     3421 tttcaaaaat ggggattggg gcaacgcccc aaaaataaaa agaatcgtct gaaacgagga
     3481 acaaattaaa atgcaaattt tatgtaacga tcactcctta tgaaatgtag gaaaatgtca
     3541 gcatcccatt tgttataata gttcttggat taaataatat atatacatag acaaaaagga
     3601 gaagaataga tgaagaaatt gttaagtggg ttgtttggag tatcggtgat tttaatgttg
     3661 ggggcctgtg caaattcaac aagcggcaaa agtgaaaaca ccaagagtgc tgcagaagga
     3721 aaatttgttg tat
//
