LOCUS       NZ_CP132228             4461 bp    DNA     circular CON 16-AUG-2023
DEFINITION  Enterococcus faecium strain TC64_3x4995_20_TV8 plasmid
            p4995TC_TV8_2, complete sequence.
ACCESSION   NZ_CP132228
VERSION     NZ_CP132228.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN36865801
            Assembly: GCF_030719015.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 4461)
  AUTHORS   Wardal,E., Sadowy,E., Zabicka,D. and Hryniewicz,W.
  TITLE     Transconjugant of vancomycin-, tigecycline- and linezolid-resistant
            Enteroccoccus faecium carrying both vanA and vanB genes
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4461)
  AUTHORS   Wardal,E., Sadowy,E., Zabicka,D. and Hryniewicz,W.
  TITLE     Direct Submission
  JOURNAL   Submitted (07-AUG-2023) Molecular Microbiology, National Medicines
            Institute, Chelmska 30/34, Warsaw 00-725, Poland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 12-JUN-2023
            Assembly Method                   :: Unicycler v. 0.4.7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 741.8x
            Sequencing Technology :: Oxford Nanopore MinION; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 08/14/2023 19:17:36
            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)                     :: 2,576
            CDSs (total)                      :: 2,486
            Genes (coding)                    :: 2,423
            CDSs (with protein)               :: 2,423
            Genes (RNA)                       :: 90
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 68
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 63
            CDSs (without protein)            :: 63
            Pseudo Genes (ambiguous residues) :: 0 of 63
            Pseudo Genes (frameshifted)       :: 37 of 63
            Pseudo Genes (incomplete)         :: 28 of 63
            Pseudo Genes (internal stop)      :: 12 of 63
            Pseudo Genes (multiple problems)  :: 11 of 63
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP132228.1.
            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..4461
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="TC64_3x4995_20_TV8"
                     /isolation_source="conjugation experiments"
                     /db_xref="taxon:1352"
                     /plasmid="p4995TC_TV8_2"
                     /geo_loc_name="Poland: Warsaw"
                     /collection_date="2023"
     gene            101..535
                     /gene="bacA"
                     /locus_tag="Q9153_RS12865"
                     /old_locus_tag="Q9153_12820"
     CDS             101..535
                     /gene="bacA"
                     /locus_tag="Q9153_RS12865"
                     /old_locus_tag="Q9153_12820"
                     /inference="COORDINATES: protein motif:HMM:NF041453.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="bacteriocin 51 precursor BacA"
                     /protein_id="WP_002351079.1"
                     /translation="MKNKIIKIITCLFLFGMIVGASTPLNLFPFSARGIKVEAASSRYN
                     HNHRGFTCYKMNYYVTNKMCRDLKKNYNKLKTPAQIASFIPIGGVGTWVITNAFSSAVD
                     AMNVFVRAANQGKGVQLTYNAHFSNTTSYQYNDYARYVIK"
                     /name="bacA"
     gene            1825..2748
                     /locus_tag="Q9153_RS12870"
                     /old_locus_tag="Q9153_12825"
     CDS             1825..2748
                     /locus_tag="Q9153_RS12870"
                     /old_locus_tag="Q9153_12825"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002296860.1"
                     /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_002351085.1"
                     /translation="MANEIVKYENRLNHIPLRKFNSREMNLFFSIASRVREKGVDEIIF
                     SFHDLKKLSGYTERGEQFIKDLSSTYDKLLSINAWNDDGNTLTKFVAFTKYSIIRDKQL
                     VIISVNPEFKGLFNQLKNWTRFNLEQFTNLDSTYSKTMFRLLKQYRTQGWTEFSKEKFF
                     DLLDIPKSYWNSPSNIDKFILRPIKEELTPLFKGLTIRKKYGKGRGKPVIGYRFTWKAE
                     INHADDFSKGKQEDLRIKLFNIDHNGELTREEKWRAKDRILNLPLGTHEADFKQQQQTE
                     EKQAEKRELSNKLKQDLLGNLQNLFD"
                     /name="replication initiation protein"
     gene            2764..3303
                     /locus_tag="Q9153_RS12875"
                     /old_locus_tag="Q9153_12830"
     CDS             2764..3303
                     /locus_tag="Q9153_RS12875"
                     /old_locus_tag="Q9153_12830"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016616811.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF536 domain-containing protein"
                     /protein_id="WP_002351084.1"
                     /translation="MADKTIKELAEELGVSKTAINKKVSDKNRKLWFAKNGNKFVINET
                     GQKAIKSMFLVDNANLNRKLVGEKSKTKNHKNTNQVSELKLLSFLEKQLNRKDIQLQEK
                     DNQIKQMQKLLDQQQQLTLQANQQIENLQEQLHLTYTEETPTTESTAFSEKKADNTQPL
                     IEKKWWQIWKSNRTNL"
                     /name="DUF536 domain-containing protein"
     gene            3984..4157
                     /locus_tag="Q9153_RS12880"
                     /old_locus_tag="Q9153_12835"
     CDS             3984..4157
                     /locus_tag="Q9153_RS12880"
                     /old_locus_tag="Q9153_12835"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002341717.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002318189.1"
                     /translation="MLKKTVLVLGSISLGILGFSPMLLSVIGKNNSNRELKLNSNYYNS
                     PNEELFVKETDK"
                     /name="hypothetical protein"
     Typing          1826..2748
                     /name="rep_cluster_1291"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ttataaaata aaccctcttg acaatattta attttctgat tattctaaat atatacagaa
       61 agcgctttcc taggatttta tatctaagga ggaagtaaca atgaaaaata aaattattaa
      121 aattattact tgtctatttt tgttcggtat gattgttgga gcaagtactc cgttaaatct
      181 gtttcctttt agtgctagag gtataaaagt ggaagctgca agttcacgat ataatcataa
      241 tcatcgtgga tttacttgct ataaaatgaa ctattatgtt actaataaaa tgtgtagaga
      301 tttgaaaaaa aattataata agctaaagac tcctgctcaa attgcatctt ttattcctat
      361 tggtggagtt ggaacatggg ttattacaaa tgcttttagt agtgctgttg atgcaatgaa
      421 tgtctttgta agagctgcaa atcaaggaaa aggtgtacaa ttaacatata atgctcactt
      481 tagcaataca acatcatatc aatacaatga ttacgctcgt tatgtaataa aataatcaga
      541 aagtgaaact atctcatgaa taaaaagatt ttagctgtaa ttatttcaat aatagtttta
      601 atcactatgt tcttcatatt taggctaatt ttcaatataa gcttacaaaa aagtattctt
      661 tatctaattc ctatagcatt tatcttagca atttttagaa gtatttacgg aaataaaaac
      721 tctaaatagc taaaaataaa tcatactaaa ttttacaaaa agtggctagc attttctagc
      781 cactttttgt attgtggagc gtgggttttg agggggattc aagggggagc ttgcgcccct
      841 ttgacaagcg gttatttgca ccaaatacgg aggtatttgg ctagcaaata tagagcttgc
      901 caaacccttt tagtgagttt tgtagaaagt acctttaaag gtactttcac attacgaacg
      961 atacgtccgt aggacgtact gaaagggtgg gacttatgag caaattaatg caaaatttgg
     1021 ctagcaaaaa agctaaaaaa tatatgctaa taatcgagcg aaataaacac tttttcaagt
     1081 gagcgaatcc gccatgacaa agctgaagca gtttatttca gctttgtcat ggcgtgtgcc
     1141 gactttttta aaagtctagg cacacgagca aatatcttta tcaagctcta atttgcgttt
     1201 taagacgttt gaaacgccta agtatataaa tatataagaa taggtttaag agtgcttaaa
     1261 tcgaatttta gagggcattt agacaatttt agggttgtta gggcttgccc tgaccgcctg
     1321 taaggcgttt taagaacaag ataagggatt tatactagga ctgtcttaaa atgtcttaaa
     1381 cgaacgctca gagcttctca aagggttcct tatgaacggc ttttagcaaa ggagccggag
     1441 gcgactgcgc agtataatgt gagagcagag cgatcacacc tttttagcga accgtaggga
     1501 gcaaggtttg gaattggcag ttttgataaa ttcgcgaacc tgtttagaga aaaaaggagt
     1561 gattttttag gcgggaaaat tagcctcccc tctttttata tctcttttta tatctctttt
     1621 tatatctctt ttatgtcggc tgtgtcctta ctctcccaag caattcagag ttttttcaag
     1681 taggttttct acgcttttca agtaggtttt ctacgctttt caagtaggtt ttctacgctt
     1741 ttcaagtagg ttttccgaca ttattgagta tttttataaa gtatgttact tttatttcat
     1801 actttataaa agtaggagaa gcttatggca aatgaaattg taaaatatga aaatagatta
     1861 aatcatattc ctctgagaaa atttaatagt cgtgaaatga acttattttt ttcaattgct
     1921 tcacgtgtac gtgaaaaagg tgtagatgag attatttttt catttcacga tttgaaaaaa
     1981 ctaagcggtt atacagaacg tggggaacaa tttataaaag atcttagtag cacgtatgac
     2041 aaattattaa gtattaatgc ttggaatgat gatggaaata ctttaactaa atttgttgct
     2101 ttcacaaaat atagcattat acgagataaa caacttgtta taatttcagt taatccagaa
     2161 tttaaaggac tttttaatca attaaagaac tggacaagat ttaatctaga gcaatttact
     2221 aatttggata gcacatattc aaaaactatg tttcgattat taaaacaata tcgaactcaa
     2281 ggctggactg aattttccaa agaaaaattt tttgatttac tagatattcc taaaagttat
     2341 tggaatagtc cgtcaaatat tgacaaattt atcttaaggc caattaaaga agaactcact
     2401 cccttattta aaggattaac tattcgtaaa aaatatggta aaggtcgagg taaacctgtt
     2461 atcggttatc gttttacttg gaaagctgaa attaaccatg ctgacgattt ttccaaaggg
     2521 aaacaagaag atttacgtat aaaattattt aatattgatc acaatggaga attaacacga
     2581 gaagaaaaat ggcgcgctaa agatcgaata ctaaatcttc ccttaggcac tcatgaagct
     2641 gattttaaac aacaacaaca aactgaagaa aaacaggcag aaaaacgaga actttcaaac
     2701 aaactcaaac aagatttact aggaaattta caaaacttat tcgattaagc ttaaggagta
     2761 tttatggcag ataaaacaat caaagaactt gcggaagaat taggagttag taaaacagca
     2821 attaacaaaa aagtttctga caaaaatcga aaactttggt ttgcaaaaaa cggaaacaag
     2881 tttgtgatta acgaaaccgg tcaaaaagct ataaaatcaa tgtttttagt cgataacgca
     2941 aacttaaatc gaaaactagt tggcgaaaaa tcaaaaacca aaaaccataa aaacaccaac
     3001 caagtttccg aattaaaact cctttctttc ctagaaaaac agttaaatcg aaaagatata
     3061 cagctacaag aaaaagataa tcaaataaaa caaatgcaaa aattactcga ccagcaacaa
     3121 caactcactc tacaagcgaa ccaacaaatt gagaacctac aagaacagct ccatttaact
     3181 tatacagaag aaactccaac aaccgaatca actgcctttt ctgaaaaaaa agcagacaat
     3241 acacaaccac ttattgaaaa aaagtggtgg caaatttgga aatctaatag aaccaatctc
     3301 taaaattttc tagaagttag ttcggatagt agaggaaaaa gttgtactac ctgatgggga
     3361 gatcactcaa atttttatga gaaagaaaaa atagtttaca actgtaaaca atcaatgttt
     3421 atagttgtaa actatcaaac tatatggtga cttattgctt aaaataggtt gaaatctcac
     3481 tcaatttttg gtggaaaaac aaaataaatt ctaatcgatt ttgttgaaaa agtcataaaa
     3541 aaacaaatgt gattttaaca aaatttcaaa aaaatcgttt gaaatttcgt ttattttttt
     3601 tgagaatttt gatcatcgta gggtcattgt agaatcatta tgagatcatc gtgggatcat
     3661 cgaataaagt atgggaaagg cttgcggtgc ttggtattaa gggcattctc cgcctcccag
     3721 gttcttgacc attttctctt ataagtggga tttttaccac gttgagagaa aatggtcaag
     3781 aacctgggag gcggagaaaa cataccaagc accacaagca aaaaaagtta gagtaacttc
     3841 caaaaaagaa aaatttttta gaacaacttt tgaaaattta attttgattt atatccgttc
     3901 aatttaaaca tttgataaac tgaaggctag tatttaaaat gtgtatacaa gtggtagcgt
     3961 taaaaaaagt ggaggtataa cctatgttaa aaaaaactgt gttggtactg ggttctattt
     4021 ctctaggaat attaggtttt agccccatgc tattatccgt aattggaaaa aacaattcca
     4081 acagagaact taaattgaat tcaaattatt acaacagtcc taacgaagaa ttgtttgtaa
     4141 aagaaacgga taaataataa aaaagactgc tcttccgagc agccagttaa aaaataatga
     4201 gtgtttattc ttgaaaaagc aacgcgctta taaagcgcta ccaaaaattt atcatatttt
     4261 atgaaaaata acaatccagt aaaaaatgac tggtaaaaat tcacaaagaa acggaaagaa
     4321 gcaactgcag aaaatcaagc cttaaaaaga gctttttacc tagaccaatt aaaaatcaca
     4381 aagtgagcgt ctctatccat tggtagaggg gctacttggc atagtgtaca ttatgtctac
     4441 taacctttaa aataacacgt t
//
