LOCUS       NZ_AP026725             5143 bp    DNA     circular CON 26-FEB-2024
DEFINITION  Enterococcus faecalis strain SVR2330 plasmid pSVR2330_3, complete
            sequence.
ACCESSION   NZ_AP026725
VERSION     NZ_AP026725.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00520112
            Assembly: GCF_028131645.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecalis
  ORGANISM  Enterococcus faecalis
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1
  AUTHORS   Mimura,K., Hashimoto,Y. and Tomita,H.
  TITLE     Molecular epidemiological analysis of five strains of VanD-type
            vancomycin-resistant Enterococcus faecalis
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5143)
  AUTHORS   Mimura,K., Hashimoto,Y. and Tomita,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (31-AUG-2022) Contact:Kensuke Mimura Gunma university,
            Graduate School of Medicine, Bacteriology; 3-39-22, Showa-machi,
            Maebashi, Gunma 371-8511, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Flye v. 2.9
            Genome Coverage                   :: 180x
            Sequencing Technology             :: DNBSEQ; Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/26/2024 01:55:37
            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)                     :: 3,389
            CDSs (total)                      :: 3,313
            Genes (coding)                    :: 3,186
            CDSs (with protein)               :: 3,186
            Genes (RNA)                       :: 76
            rRNAs                             :: 3, 4, 3 (5S, 16S, 23S)
            complete rRNAs                    :: 3, 4, 3 (5S, 16S, 23S)
            tRNAs                             :: 62
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 127
            CDSs (without protein)            :: 127
            Pseudo Genes (ambiguous residues) :: 0 of 127
            Pseudo Genes (frameshifted)       :: 79 of 127
            Pseudo Genes (incomplete)         :: 45 of 127
            Pseudo Genes (internal stop)      :: 24 of 127
            Pseudo Genes (multiple problems)  :: 18 of 127
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP026725.1.
            Annotated by DFAST https://dfast.ddbj.nig.ac.jp/
            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..5143
                     /organism="Enterococcus faecalis"
                     /mol_type="genomic DNA"
                     /strain="SVR2330"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:1351"
                     /plasmid="pSVR2330_3"
                     /geo_loc_name="Japan:Fukuoka, Kitakyushu"
                     /collection_date="2017"
     gene            complement(493..789)
                     /locus_tag="PO855_RS16895"
                     /old_locus_tag="EfsSVR2330_33830"
     CDS             complement(493..789)
                     /locus_tag="PO855_RS16895"
                     /old_locus_tag="EfsSVR2330_33830"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002404941.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002360723.1"
                     /translation="MGLMTGYNMTKEEYEVTQAVLERLDKFESELEALLLDLEPLDLSR
                     LDTVVRDETLRMFNYLSRSYILLIDTVAYKVTLEEDISCGIVKIDGQSLDEEE"
                     /name="hypothetical protein"
     gene            complement(916..1638)
                     /locus_tag="PO855_RS16900"
                     /old_locus_tag="EfsSVR2330_33840"
     CDS             complement(916..1638)
                     /locus_tag="PO855_RS16900"
                     /old_locus_tag="EfsSVR2330_33840"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002360724.1"
                     /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_002360724.1"
                     /translation="MSDKSELAVKYQNELNLVPLKNFNAKQMDLFFALCARMKDKGVEN
                     IRFSFEELKELSDYKMTATKAFVADLEKLYKDMLNLSYRTENDDEIEYFVLFNGFKIDK
                     KQKFVEVRVNQDLDYIINGLTTEFSRFELSAFTSIRSTYAKTLFRLLMQYRSTGYYVVS
                     IEDFRELLDIPEYYQMGNIDQKVLKPAMKELHNYFENLEVTKIKAKKGNKIAKLEFTFT
                     GLKTNKPSVTMHDWVNGE"
                     /name="replication initiation protein"
     gene            2285..2371
                     /locus_tag="PO855_RS16905"
     CDS             2285..2371
                     /locus_tag="PO855_RS16905"
                     /inference="COORDINATES: protein motif:HMM:NF033608.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type I toxin-antitoxin system Fst family toxin"
                     /protein_id="WP_107196852.1"
                     /translation="MIESLISLIIAPLFVGLVLLLVDRWLDD"
                     /name="type I toxin-antitoxin system Fst family toxin"
     gene            complement(2890..3090)
                     /locus_tag="PO855_RS16910"
                     /old_locus_tag="EfsSVR2330_33860"
     CDS             complement(2890..3090)
                     /locus_tag="PO855_RS16910"
                     /old_locus_tag="EfsSVR2330_33860"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016632908.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002364281.1"
                     /translation="MKKLLVLILGVSFISVALSSTTEASAREWDSIECQPGFYWKKGGW
                     TAGGYHKAGGFCIPMHTRWTK"
                     /name="hypothetical protein"
     gene            complement(3179..4858)
                     /gene="mobV"
                     /locus_tag="PO855_RS16915"
                     /old_locus_tag="EfsSVR2330_33870"
     CDS             complement(3179..4858)
                     /gene="mobV"
                     /locus_tag="PO855_RS16915"
                     /old_locus_tag="EfsSVR2330_33870"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002401964.1"
                     /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_010717414.1"
                     /translation="MSKIVARMEKMKDGNLSGIQRHNQRETNNHSNPDIDIEKSHLNYD
                     LVNPGSINYREKIKQIIESQRISKRAVRKDAVLVNEWIITSDTAFFQENTDTQAFFTDV
                     VAYFSDRCGRQNVAYATVHLDETTPHMHLGIVPMYEGRLSSKQVFSRQNLLEIQEELPT
                     YLQERGYAIERGLRGSPQKHLSVKEYKDVQKELQVSKQELANQEQILAEKERELHSYEQ
                     AIFRIDRLLEEKNEEVKGKVQAMNQLETKRNEIINSLQTTVLPDLANVKEKKFSLNGLK
                     YVLSASDFSAIKSITKDFETLRTQNKHLKIENNNLAQKNKELTQVNHEQELQITELAYE
                     LTLKKEQLTAFEEKQLNYDQSEQIKQELDTTTQTVSVLETENKRLKDKITDLTYDFSEL
                     NEKYQEIKLKFDGLTTYLHERLGHAKETILFTIQQGVKYLQNAPKLKKSLERYSKDRTY
                     LIDEKGTLFLPPDTGSKGVTMSLNPHFYPLKAPFYNRETGCYEFVGEYMANGRSRTNTL
                     QLSEEQVLEKKAFTFEQSTDKKAWQQSKKYSRDMSKGRGLSR"
                     /name="mobV"
     Typing          2..261
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="80.0"
                     /coverage="81.0"
                     /evalue="1.95e-45"
     Typing          complement(917..1638)
                     /name="rep_cluster_2301"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(3183..4933)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 ctgctagccg gtgctagtaa tgtgctaatt tggtgctaaa aacctgctag tcactgctag
       61 gaatctgcta gtttgggtgc tagaaacctg ctattgagtg ctaaaaatgt gctagtttac
      121 ctgaaagtac ctgctagtaa agtgctagcg aagaacgaaa gtgtacccca cgggaaagcc
      181 ttgcactgca aggcggggta ccttgtgtgc cccccagttc cccttatgct cttccgaaac
      241 acaggaagaa attaagcgaa tttcaacagt aaaagcaaaa aataacagca gtgggattgg
      301 gggaacccca aaaatttgaa cgactcctac cagtattttt ggtaggagtc gttcaaaata
      361 tcgcaacatg gtaccatgtt gctccgcttg caaaaagaaa gcctacccca aaatggaagt
      421 aggctaatct tgatattttt cgagtgttat cccaaatagt caacattttt ttataacaag
      481 caagggtagt ttttattctt cttcgtctag agattgaccg tcaatcttca caatcccaca
      541 ggaaatatct tcttctagcg taactttgta ggctaccgta tcaataagta gaatgtatga
      601 ccgacttaga taattaaaca ttcttagcgt ttcgtctcga actacagtat ctaatcgtga
      661 taagtcaagt ggctccaaat caagcaatag cgcttctagt tcactctcaa acttatctag
      721 tcgctccagt acagcctgtg tgacttcgta ctcctctttt gtcatgttgt atcctgtcat
      781 taatcccata agtaggacct ccaaaataat ttattttaga agtcctcacg caaatatgct
      841 aaaataatct agcagtccgg aagattgcgt gaggaacttg ctaacttgct taatgtgagg
      901 gggcaagttc tttttttatt ctccgtttac ccaatcgtgc atggttacgc ttggtttgtt
      961 ggttttcaga ccagtaaacg taaattctag tttggcaatc ttattgcctt ttttggcttt
     1021 gatttttgtt acttctaaat tctcaaaata gttatggagt tctttcattg ctggttttaa
     1081 aaccttttgg tcaatgttac ccatttgata atattcgggt atgtctaaca attctctgaa
     1141 gtcttcaata ctgactacat aataccctgt tgaacgatat tgcattaaca aacgaaacaa
     1201 tgttttagca tatgttgagc gtattgaagt aaaagcggac agctcaaacc tactaaactc
     1261 tgttgttaaa ccatttatta tatagtctaa atcttgatta actcgaactt caacaaactt
     1321 ttgttttttg tcgattttaa atccattgaa taaaacaaaa tactctattt cgtcatcgtt
     1381 ttctgtacga taagaaaggt tcagcatatc tttatacaac ttttctaagt ctgctacaaa
     1441 ggcttttgta gcagtcattt tgtagtcact caattccttt aattcctcga aggagaaacg
     1501 aatattctct actcctttat ctttcattcg tgcgcataac gcaaagaaca gatccatttg
     1561 ttttgcatta aagtttttaa gtggcacaag atttaactca ttttgatatt taacagctaa
     1621 ttccgattta tcactcattc ctttcgcccc ctcacaattc gaatattaaa acaaacaacc
     1681 aactttgtca acagttggtt gtttgtttta atattatgaa aataaaacag ataaaaagtt
     1741 gttggtagtc agataaaaag ttgttggtag tcagataaaa agttgttggt agtcagataa
     1801 aaagttgttg gtagtcagat aaaaagttgt tggtaccatc tgctcttcct tagagccacg
     1861 tggcacacag cccgcctaaa aaggttttaa aaatatatat aaaatatata taaaagaaac
     1921 gcgtgcgcgc gcggaaattt cccgcccaaa attaacctct tttttctaca aacaggtccg
     1981 cgatatttac aaaactggca ctaaaaaatc aaaaaaggag tgagcgaaaa tcccgctcac
     2041 attttgcttg cagcgttcac ttcgttcact cgctaaaatc aaaatcaata ccgttgacaa
     2101 ggtaaatcat ttggttaggc tctatttgct tgtctgaaga tctttaagac atgtttagtt
     2161 gttttagggt atcttggtta ggattgcgcc ttgcaggcgg tcagggcaag ccctaacaac
     2221 ccccacaaga aattcttctt gtgatatact tgttttggca actgccccga aagggggtgt
     2281 aaacatgatt gaaagcttaa tttcgttgat tatcgcccca ctttttgtgg gtttagtact
     2341 tttgctagtt gatcgttggc tagacgatta gcagataatc tatgcagttg cttttctagc
     2401 tccaacgctg aaatcgcaac agtgtaaaaa agccctccta ctgagaatag gagggctttt
     2461 tggtgtaaac atgattttgc ttaatttcgc ttcgcactta cacaataaca ttttttttct
     2521 gtattttcaa acatcagatt agattacgca aaacgtcaat tagagaaata ccatatcgaa
     2581 atagttagta ttaaacatag taatactatg aggatagaca atattttact ttttggacta
     2641 tcttcaaagc ttttattttc tggtctgtaa gtgggattca ctactttcgc gttgtaatcc
     2701 attgtacttc ccaaatatac ttctgaagga attaaaaaaa ataataaaat tccgtaaaaa
     2761 ataattatca atatgggcaa atcaatatta actaaaaaag aagttatata gcttaaaact
     2821 aaaggaatag taatataaaa tatatttttt attagatatt ttttcatgaa ataacctcaa
     2881 atttagcaac tattttgtcc atcttgtatg cattgggata caaaatccac cggctttatg
     2941 atatcctcct gcagtccacc cgcctttttt ccaataaaat cctggctgac actctataga
     3001 atcccactct ctagcacttg cttctgtagt tgaacttaaa gcaacagaga taaaagacac
     3061 ccctaaaatt agaactaaca actttttcat aatgcttacc tcactttttt ttaattttta
     3121 ttaatatatt ttaatttaac tgtttttatg tgtcaataat ttatcaatta aattattttt
     3181 aacgagataa acctcgtcct tttgacatat ctcttgaata ttttttactc tgttgccaag
     3241 cctttttatc tgtcgactgt tcaaacgtaa aagctttctt ctctagcact tgttcttcag
     3301 acagttgtaa agtattcgtt cgagaacgtc cattagccat atattcgccg acaaactcat
     3361 aacaccctgt ttctctgttg taaaacgggg cttttagggg gtagaaatgt gggtttaagg
     3421 acattgttac cccttttgac cccgtatctg gtggtaaaaa caatgtccct ttttcgtcaa
     3481 tgaggtaagt tctatccttg gaatatcgct ctagggattt ttttaattta ggcgcgttct
     3541 gaaggtactt cactccttgc tgaatcgtaa ataaaatggt ttctttagca tgacctagtc
     3601 tttcgtgaag gtaagtagtt aacccgtcaa actttaattt tatttcttga tatttttcat
     3661 ttagttcaga aaagtcgtag gttaagtcag taattttatc ttttaaccgc ttattctctg
     3721 tttctaacac agaaactgtt tgtgttgttg tatcaagttc ttgtttgatt tgttcgctct
     3781 ggtcatagtt tagttgtttt tcttcaaacg ctgttaattg ttcttttttc agggttaatt
     3841 cataggctaa ttccgttatt tgtaattctt gttcatgatt tacttgtgtc aattctttat
     3901 ttttctgtgc caagttattg ttttcgattt taaggtgctt attttgcgtt ctaagcgtct
     3961 cgaaatcttt cgtaatactt tttatcgccg aaaagtcaga agcgcttaaa acgtatttta
     4021 aaccgtttaa actaaatttc ttttctttga catttgctaa atcaggtaaa acggttgttt
     4081 gtagagagtt aatgatttcg tttcgcttcg tttccagttg gttcattgct tggactttgc
     4141 cctttacttc ttcgttcttc tcttcaagaa ggcggtcaat acggaagatt gcctgttcat
     4201 aagaatggag ttctctctct ttttctgcca gaatttgttc ctgattagcg agttcctgct
     4261 tagaaacttg tagctccttt tgaacgtctt tgtattcttt gacagataaa tgcttttgcg
     4321 gactcccacg gagtccacgc tcaatagcat agcctcgttc ttgcaaatag gttggcaatt
     4381 cttcttgaat ctctaacaaa ttttgccgac taaacacctg tttactgctc aatcgccctt
     4441 cgtacatagg cacaattcct aagtgcatat ggggcgtggt ttcgtctaaa tgtaccgtgg
     4501 cataggcgac attttgtcga ccgcagcgat cagagaaata tgcgacaaca tcggtaaaaa
     4561 atgcttgtgt gtctgtattc tcttgaaaaa aggcggtatc actagtgatt atccattcgt
     4621 tcacaaggac tgcgtctttt ctaaccgctc gtttactgat tcgttggctc tcaatgattt
     4681 gtttgatttt ctcccgataa ttgattgaac caggattgac taagtcataa ttcaagtgag
     4741 atttctcaat atcaatatca ggattggaat gattattggt ttctcgttga ttatgtcgtt
     4801 ggataccact taaatttccg tctttcattt tttccatacg tgcaacaatt tttgacatga
     4861 gcgctcctcc cccttttttt tcttgtgtcg ttcggtgtct ttggatttcg gcagtacttc
     4921 caagtaaagt ataacgcact atactttact tcgtaaaggt gcgctctgcc gagggctgtc
     4981 ggctagtact cgaaaggtca gcctttaggc ttcccaatct cgcacttagc cgattgccta
     5041 cggtcaaact ttccatttct gctaaggcag aaactccaaa tttccctccg tcagaaaacc
     5101 gtttaaataa cgactgcctg aaattagtga acgtgctagc ttt
//
