LOCUS       NZ_CP071924             2857 bp    DNA     circular CON 20-APR-2024
DEFINITION  Enterococcus faecium strain VRE3355 plasmid unnamed7, complete
            sequence.
ACCESSION   NZ_CP071924
VERSION     NZ_CP071924.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15566637
            Assembly: GCF_017584065.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 2857)
  AUTHORS   Wyres,K.L., Hawkey,J., Mirceta,M., Judd,L.M., Wick,R., Gorrie,C.L.,
            Pratt,N.F., Garlick,J., Watson,K., Pilcher,D., McGloughlin,S.,
            Abbott,I.J., Macesic,N., Spelman,D.W., Jenney,A.W.J. and Holt,K.E.
  TITLE     Genomic surveillance of antimicrobial resistant bacterial
            colonisation and infection in intensive care patients
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2857)
  AUTHORS   Wyres,K.L., Hawkey,J., Mirceta,M., Judd,L.M., Wick,R., Gorrie,C.L.,
            Pratt,N.F., Garlick,J., Watson,K., Pilcher,D., McGloughlin,S.,
            Abbott,I.J., Macesic,N., Spelman,D.W., Jenney,A.W.J. and Holt,K.E.
  TITLE     Direct Submission
  JOURNAL   Submitted (06-NOV-2020) Department of Infectious Diseases, Monash
            University, Level 2, The Burnet Institute, Melbourne, VIC 3004,
            Australia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2020
            Assembly Method                   :: Unicycler v. v0.4.7
            Assembly Name                     :: Enterococcus faecium VRE3355
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 120.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_017584065.1-RS_2024_04_19
            Annotation Date                   :: 04/19/2024 09:55:16
            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)                     :: 3,108
            CDSs (total)                      :: 3,017
            Genes (coding)                    :: 2,883
            CDSs (with protein)               :: 2,883
            Genes (RNA)                       :: 91
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 69
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 134
            CDSs (without protein)            :: 134
            Pseudo Genes (ambiguous residues) :: 0 of 134
            Pseudo Genes (frameshifted)       :: 63 of 134
            Pseudo Genes (incomplete)         :: 73 of 134
            Pseudo Genes (internal stop)      :: 23 of 134
            Pseudo Genes (multiple problems)  :: 21 of 134
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP071924.1.
            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..2857
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="VRE3355"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="unnamed7"
                     /geo_loc_name="Australia"
                     /lat_lon="37.81 S 144.96 E"
                     /collection_date="2014"
                     /collected_by="Alfred Health"
     gene            189..470
                     /locus_tag="J5F47_RS00005"
                     /old_locus_tag="J5F47_00005"
     CDS             189..470
                     /locus_tag="J5F47_RS00005"
                     /old_locus_tag="J5F47_00005"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002347307.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_010729433.1"
                     /translation="MDILVRKIDSKVIAKIDKRCQELTNKTGKKWSRNKYLKVLIESDF
                     DRQLTTYKKDQFDLLLEKFIAIQTKNTQVLNDYVHTNNQLIETLIGGK"
                     /name="hypothetical protein"
     gene            472..888
                     /locus_tag="J5F47_RS00010"
                     /old_locus_tag="J5F47_00010"
     CDS             472..888
                     /locus_tag="J5F47_RS00010"
                     /old_locus_tag="J5F47_00010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001232859.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_010729434.1"
                     /translation="MRKTSVQKHVTLYPSHVDVLDSIIERNPDINNYSEAIRFLCMSYE
                     PDTNTTTTSNQAKLNAMGKEISIMSEIIAEFADLYLKDTGVLIGTNSKVYQEVKEKTEA
                     KLNPSNRNRPKNHQKETSQTVTSRNFDPTNFLKR"
                     /name="hypothetical protein"
     gene            complement(1049..1276)
                     /locus_tag="J5F47_RS00015"
                     /old_locus_tag="J5F47_00015"
     CDS             complement(1049..1276)
                     /locus_tag="J5F47_RS00015"
                     /old_locus_tag="J5F47_00015"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002311817.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_010729435.1"
                     /translation="MTEKFPYEYYQNLEKLESAIQLVKLDLLDENLLKYKNITPERKGK
                     LKKMQQLFDEEDGISDVIFDTWSEFHGEYN"
                     /name="hypothetical protein"
     gene            complement(1273..2247)
                     /locus_tag="J5F47_RS00020"
                     /old_locus_tag="J5F47_00020"
     CDS             complement(1273..2247)
                     /locus_tag="J5F47_RS00020"
                     /old_locus_tag="J5F47_00020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002342725.1"
                     /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_010729436.1"
                     /translation="MGKKRTIVNEWEKLTAPSNRRLNVGESVKMIKMDWSIDRITIVGT
                     LNENIYYHTQNDVLILDFEQLMRVNEGNGHLKAVGNNGWQLVDQHEENIAYIEILKWQE
                     GKGRIDFNPNKISQFLASSMKKFIHDLFLEPHFSRADVACDLIDVPDEFITQYRVVDPV
                     SFKPIYGRSGKLETAYWGSRASERQIRMYNKKLEQEAKRKIVPKEVETWWRLELQLRRG
                     KATDWYEMVQESLDSFASPHYFPEDVKTLDRVMIKGLLYDHSEWSTISRDLKYRLRKLL
                     KQESQNDELTNHLRETFEESADELKRELDTWLLGLDVTEEEEK"
                     /name="replication initiation factor domain-containing
                     protein"
     Typing          complement(1313..2147)
                     /name="rep_cluster_943"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="82.423"
                     /coverage="92.0"
                     /evalue="0.0"
ORIGIN
        1 gtgtacccac tttctaaaaa aagcgggcag ataggctgtg cctatcacgt ttctaagaaa
       61 aaaatttgat atcacttttt cgccattgtg actagcttat gtatagtgtt tcagcaaaaa
      121 acagctatac aaatactata ttcgtatgat atacataaat tatacacaaa tgcgaaagga
      181 gtttttctat ggacatttta gttcggaaga ttgattcaaa ggttattgca aaaatagaca
      241 aacgttgcca agaactcaca aataaaactg gcaaaaaatg gagtcgaaat aaatatctaa
      301 aagttttaat cgaaagtgat tttgaccgtc aacttacgac ttacaaaaaa gaccaattcg
      361 atttattact cgaaaaattt atcgctattc agacaaaaaa cactcaagta ctaaacgact
      421 atgttcatac aaataatcaa cttattgaaa cacttattgg aggaaaatag catgagaaaa
      481 acttctgttc aaaaacacgt taccctttat cccagtcacg tggacgtttt agattccatt
      541 atcgaaagaa atccagatat caacaattac tcggaagcca ttcgtttttt atgtatgagt
      601 tatgaacctg ataccaacac gactactacc agcaatcaag ccaaactaaa tgctatggga
      661 aaagaaattt ccatcatgtc cgaaatcatt gcagaatttg ctgatttata tctaaaagat
      721 acaggcgttc ttattggcac aaattctaaa gtgtatcaag aagtgaaaga aaaaaccgaa
      781 gctaaactaa atccgtcgaa tcgaaatcga ccaaagaatc atcaaaaaga aacgagtcaa
      841 acagtcactt ctagaaattt cgacccaaca aattttctaa aacgctaaaa aataaaacga
      901 gaattttttt atttctcgtt ttatttttta ggaaagccgg tcttacagca agatttgcaa
      961 gttaccggta acttgcggaa aagaagaagc cgctcacgcg acttcttctt tttgcatttt
     1021 ctgaaagcta ccacaattcc taacttcgct aattatattc tccatgaaat tcgctccatg
     1081 tatcaaaaat cacatctgaa attccatctt cttcatcaaa taattgctgc atttttttca
     1141 atttaccctt tctctctggc gtaatatttt tgtattttag taaattctca tccaacaaat
     1201 ccagcttgac caactgaata gcactctcca atttttctag attttgataa tactcgtatg
     1261 gaaatttctc agtcattttt cttcctcctc tgtcacatct aaacctaaaa gccatgtatc
     1321 caattctctt tttaattcgt ctgcagactc ctcaaatgtt tctcgtaaat gattcgtcaa
     1381 ttcatcattt tgactttctt gcttcagcaa tttccttagc cgatatttca agtcacgact
     1441 aatagttgac cactcagaat ggtcatacaa caaccccttt atcatcactc tatccaacgt
     1501 ttttacatct tcaggaaaat aatgcggact agcaaaacta tccaaacttt cttgaaccat
     1561 ctcataccaa tcagtcgctt ttccacggcg caattgtaac tccaaacgcc accacgtctc
     1621 gacttcttta ggtacaattt ttcgctttgc ttcctgttcc aacttcttgt tgtacatccg
     1681 aatttggcgt tcgctggcac gactacccca ataagccgtt tctagcttac cagagcgtcc
     1741 ataaattggt ttgaaggaca cagggtcaac tacacgatat tgtgtaataa actcatcagg
     1801 cacatcaata agatcgcagg caacatccgc tcgtgaaaaa tggggctcta aaaataaatc
     1861 atgaataaat tttttcatag agcttgctaa aaattgacta attttattgg ggttaaagtc
     1921 aatccgccct ttaccctctt gccatttcaa aatttcgata taggcaatat tttcttcgtg
     1981 ttgatctacc aattgccaac cattattccc aacagctttt aaatgaccat taccttcgtt
     2041 cactcgcatt aattgctcaa aatctaaaat caacacatca ttttgagtgt gataataaat
     2101 attttcattc aaagttccga caatcgtaat tcggtcaatc gaccaatcca tttttatcat
     2161 ttttacgctc tcaccgacat ttaaccgcct gttagagggg gctgttaatt tttcccactc
     2221 attcacaatt gttctttttt tacccaaatt ttgttcctcc tcaaagaaaa aaagagattt
     2281 ttggaaagaa tttccagagt tcacgtaact ctaaaaatcc acatccaaaa atctctagct
     2341 tgaagaaacc taaaaatatt cgtataatga acttgagtta cggaactagg ctagtagttt
     2401 ccgtaaaggt cgagagtgtt agcgcactgc tcgactattt ttttgctctt ttttctcgtt
     2461 ttctttgatt atagcactcc tcttaaaaaa ataaaaagac ctcagggaat ttcattcccc
     2521 gaaccccttg agcctcctcc tgccgaaatc atttcacgct tccgctcttc atttcattca
     2581 gttctcggct ttcacaatct aacacgccgt ttcgctacca gtcgccttac aggctccatt
     2641 ctcgcttctc ttacgtgttt taccgattgt gccgacaact aaacgaaatg aacgctaaaa
     2701 cgtcttagaa cgcaaaatac acgcttataa aatcatttca tcttgattat atgctcatca
     2761 taatcgttca atttgacatc atttccgtaa acttttttta tttttataag cagaaaaaag
     2821 tcgcacatca acattttttt aaagagcata aggaaac
//
