LOCUS       NZ_CP071966             4374 bp    DNA     circular CON 22-APR-2024
DEFINITION  Enterococcus faecium strain VB13828 plasmid p8VB13828, complete
            sequence.
ACCESSION   NZ_CP071966
VERSION     NZ_CP071966.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18353823
            Assembly: GCF_017603725.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 4374)
  AUTHORS   Balaji,V., Yamuna,B.D. and Anushree,A.
  TITLE     Complete genome of vancomycin resistant E. faecium_VB13828
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4374)
  AUTHORS   Balaji,V., Yamuna,B.D. and Anushree,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (19-MAR-2021) Clinical Microbiology, Christian Medical
            College, Ida Scudder Road, Vellore, Tamil Nadu 632004, India
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2021
            Assembly Method :: CANU v. v.1.7; UNICYCLER HYBRID v. v.0.4.6
            Assembly Name                     :: VB13828
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 59.0x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_017603725.1-RS_2024_04_22
            Annotation Date                   :: 04/22/2024 04:36:32
            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)                     :: 3,107
            CDSs (total)                      :: 3,015
            Genes (coding)                    :: 2,851
            CDSs (with protein)               :: 2,851
            Genes (RNA)                       :: 92
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 70
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 164
            CDSs (without protein)            :: 164
            Pseudo Genes (ambiguous residues) :: 0 of 164
            Pseudo Genes (frameshifted)       :: 52 of 164
            Pseudo Genes (incomplete)         :: 102 of 164
            Pseudo Genes (internal stop)      :: 38 of 164
            Pseudo Genes (multiple problems)  :: 26 of 164
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP071966.1.
            Bacteria and source DNA available from Christian medical college.
            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..4374
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="VB13828"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="p8VB13828"
                     /geo_loc_name="India"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2020"
                     /collected_by="Christian medical college"
     gene            join(3382..4374,1..414)
                     /locus_tag="J4767_RS15350"
                     /old_locus_tag="J4767_15350"
     CDS             join(3382..4374,1..414)
                     /locus_tag="J4767_RS15350"
                     /old_locus_tag="J4767_15350"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016173818.1"
                     /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="plasmid recombination protein"
                     /protein_id="WP_002317172.1"
                     /translation="MGFSISFKKGTKNTSISHNNRELTDRQKTNDWHKHIDFTKSDENI
                     YLEQTNLADKYEELFGEVVEKYNAKQKRADRKIEDYLAKVRKDKKLEPQREFIVQIGIL
                     DDFQTNRADGSSTGISKQQAEQNRVIANKILVQYYKEFQERNPNLAVYNAVIHNDEISP
                     HLHLNIVPVAEGYKRGVQKQPSFNKALVQQGIHADKDNGRVLFNNFRNQEVDSIERLMN
                     DYGWKRDIVGTNKIKDIHEYKEIMSEISELRQTAVKERESVSDELRYISRQREENERDK
                     ALMASERAKIEEEKKNMLNVKKEMAVIFQKDMVPLESFKRLPDGSYHLSGNDFVDLYQR
                     ATRATNAKRNADNMSEQYLQMLEQNTELNEYVATLEEERHLSGRKQLADLQVENKKLKE
                     ENRSLRQRLERLKNAFQKSITRLSIRFGLAEKDMGLSEELEVLEQEKTLFYRQNVSQRK
                     LERSEDEIEW"
                     /name="plasmid recombination protein"
     gene            861..1829
                     /locus_tag="J4767_RS15355"
                     /old_locus_tag="J4767_15355"
     CDS             861..1829
                     /locus_tag="J4767_RS15355"
                     /old_locus_tag="J4767_15355"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002298422.1"
                     /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_002298422.1"
                     /translation="MSKNGIIVNEWENLTALSNRRLNVQNMYTPLKMQWSIDRITIVGK
                     LKENIYYHTQNDVLILDFEQLMRVNEGNGYLKAVGNNGWQLLDQYEENIAYIEILKWQD
                     GKGRIDFNPNKIGHFLASSMKNFIHDLFLEPHFSRADIACDIIDVPDEFITQYRVVDPV
                     SFKPIYGRSGKLETAYWGSRASERQIRLYNKKLEQETKRKIVPPEIETWWRLELQLRRG
                     KATDWHAMVHESLNSFASPHFLPLDVKTNDKVMIFGLIANPEMWGFLERRMKYKLRDIL
                     KRESQNDELTNHLRETFSESADVLKKELDTWLQGLDVTEEE"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            1832..2065
                     /locus_tag="J4767_RS15360"
                     /old_locus_tag="J4767_15360"
     CDS             1832..2065
                     /locus_tag="J4767_RS15360"
                     /old_locus_tag="J4767_15360"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002298421.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002298421.1"
                     /translation="MAEKQKHFGKKNWLVNLTGDNVVVVFLDSKKMSGKLLDVTQYELI
                     LKNNKIDSPIIIPKHAVKYVYGVAESNGEDND"
                     /name="hypothetical protein"
     gene            2058..2477
                     /locus_tag="J4767_RS15365"
                     /old_locus_tag="J4767_15365"
     CDS             2058..2477
                     /locus_tag="J4767_RS15365"
                     /old_locus_tag="J4767_15365"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002351943.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002298420.1"
                     /translation="MTDLPEKMTIKNLADELGISKNTVRNQLVNAGYDLARYKDNGVIM
                     LDKELIGVVRSIYRSKGGQLTGDLPVNDAGNDFPLEKENEFLREQLAEKDRHISELTEM
                     IRDQQKLTLLQQQKNDQLLLENQELKNRKWWQFWK"
                     /name="hypothetical protein"
     gene            2456..2794
                     /locus_tag="J4767_RS15370"
                     /old_locus_tag="J4767_15370"
     CDS             2456..2794
                     /locus_tag="J4767_RS15370"
                     /old_locus_tag="J4767_15370"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002321903.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002321903.1"
                     /translation="MVAILEVRCDMDKIDLREETVDRIELMYERLADYLNLPDEDNYSE
                     MLERMMDVLNSVINADLAKSSVLTNEFVHKHLAQTTDESEKEFWLKLMSHVMQLNQISV
                     INSKEKEM"
                     /name="hypothetical protein"
     gene            2798..3160
                     /locus_tag="J4767_RS15375"
                     /old_locus_tag="J4767_15375"
     CDS             2798..3160
                     /locus_tag="J4767_RS15375"
                     /old_locus_tag="J4767_15375"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016173819.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002298418.1"
                     /translation="MGMTLADIKAQEEKLKKEQAKLRQQKKRLIEKENAAMGKALRKRF
                     GFETFADFERWLSSISDDQQHEKSVDNEWLADEKSAPSERDYPDESDGLFGVIPNKKSQ
                     MSESKFTSIFNDVNLR"
                     /name="hypothetical protein"
     Typing          945..1819
                     /name="rep_cluster_943"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.032"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          2..411
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.54"
                     /coverage="100.0"
                     /evalue="3.7099999999999996e-67"
     Typing          3290..4374
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.646"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 aatgattttg ttgatttgta tcaacgagct acgagagcaa caaatgccaa gagaaatgct
       61 gataacatga gtgagcaata tttacagatg cttgagcaaa atacagaatt aaatgagtat
      121 gtagctacat tggaagaaga gcgtcatttg tctggtagaa aacaattagc agatttacaa
      181 gtggaaaata aaaagctgaa agaagaaaat cgctctttac gccagcgttt agagcgatta
      241 aaaaacgcat ttcaaaaatc gatcactcgt ttgtctatcc gttttggtct tgcagaaaag
      301 gatatggggc tttctgagga attagaagtg ttagagcagg agaaaacctt attttatcgt
      361 caaaacgtct cacagcgtaa attagagcgt tctgaagatg agatcgagtg gtagttacga
      421 tgtgcagtca acggtaccgg aggcggtttg tgccgaggat aaggagttga cggctaaacc
      481 actagcctat taagctgaca tttgctaaaa aatggccagt ccattttttg gccaacctag
      541 cgttagcgaa gtttgggggc gcccttttca aagggtgcgg ttttattttt tggatatttg
      601 catagctaaa gagaagtgct attattgagt tagcaaacaa atgaactgaa aaaagagtaa
      661 aaaaatagtc gagcaacgct accaacgttc tcgaccttta cggaaactaa tcgcactagc
      721 tccgtaactt cttaatcatt atacgaatat ttttagattt cttcaagact agagattttt
      781 tggtaatgaa tttttaagag ttacgtgaac ttttgaaaat tctttccaga agtctctttt
      841 tctttgagga ggaacaaaat ttgagtaaaa atggcataat cgtaaatgag tgggaaaatt
      901 taacagccct atctaacagg cggttaaatg tacaaaatat gtacaccccc ttaaaaatgc
      961 agtggtcaat tgaccgaatt actatcgttg gaaaactgaa ggaaaatatt tattatcaca
     1021 ctcaaaatga tgtgttgatt ttagattttg agcaattaat gcgggtgaat gaaggcaatg
     1081 gctatttaaa agcggttggg aataacggct ggcaattatt agaccaatac gaagaaaata
     1141 ttgcttatat tgagattttg aaatggcaag atggcaaagg gcggattgat tttaacccga
     1201 ataagattgg tcatttttta gctagttcaa tgaaaaattt cattcatgat ttatttctag
     1261 aaccacattt ctcacgtgcg gatattgctt gcgatattat cgatgtgcct gatgagttta
     1321 ttacacaata tcgagtggtt gatcctgttt ctttcaagcc aatttatggg cggtctggga
     1381 agctggaaac agcttattgg ggcagtcgtg ccagcgaacg ccagattcgg ctatacaaca
     1441 aaaaattgga acaggaaacc aagcgtaaaa ttgtgccacc agaaatagaa acttggtggc
     1501 gactggaatt gcagttaagg cgtgggaaag caacagattg gcatgcaatg gttcatgaaa
     1561 gtttaaatag ttttgctagc cctcattttc taccacttga tgtaaaaaca aatgataagg
     1621 tgatgatttt tggactgatt gctaaccctg aaatgtgggg gtttttagag cgtagaatga
     1681 aatacaaatt gagagatatt ttgaaaagag aaagtcaaaa tgatgagttg acgaatcatt
     1741 tacgagaaac attttcggaa tcagcagatg ttttgaaaaa agaattagac acttggcttc
     1801 aagggttaga tgtaacggag gaggaataag aatggcagaa aaacaaaagc attttggtaa
     1861 gaaaaattgg ttggtgaatt taacaggtga taacgttgtc gttgtttttt tggatagcaa
     1921 aaaaatgtcc ggtaagttac ttgatgtaac gcagtatgag ttgattttga aaaataataa
     1981 aattgattcc ccaatcatta tccctaagca tgctgttaaa tatgtttatg gggtagctga
     2041 aagtaacgga gaagataatg actgatttgc cagaaaaaat gaccataaaa aaccttgctg
     2101 atgagttggg tatatctaaa aatacagtgc gcaatcaact ggtcaatgca ggttatgacc
     2161 ttgctcggta taaagataat ggggttatca tgttagacaa ggaattgatt ggtgttgtgc
     2221 ggtcaattta tcggtcaaaa ggtggtcaat tgactggtga tttaccggtc aatgatgcag
     2281 gcaatgattt cccgttagaa aaagaaaatg aatttttgcg tgaacaatta gcggaaaaag
     2341 ataggcatat ttctgaatta acggaaatga ttcgtgacca acaaaaattg actttgcttc
     2401 agcaacaaaa aaacgatcag ttgttactag aaaatcaaga attaaaaaat cgaaaatggt
     2461 ggcaattctg gaagtgaggt gtgacatgga taaaattgat ttgagagaag aaacagtcga
     2521 tagaattgaa ttgatgtatg aacggttagc tgattatttg aatttgccgg atgaagataa
     2581 ttatagtgaa atgcttgaac gaatgatgga tgttctcaac tcggttatca atgctgatct
     2641 agcaaaatct tcagttttga ctaatgaatt tgttcataag catttagcgc aaacaactga
     2701 tgaatcagaa aaagaatttt ggttgaaatt aatgagtcat gttatgcagt taaaccaaat
     2761 ttccgttatt aattccaaag aaaaggagat gtagtttatg ggaatgactt tagcagatat
     2821 taaagcgcaa gaagaaaaat taaaaaaaga acaagcgaaa cttcgccaac agaaaaaacg
     2881 cttgattgag aaagaaaatg ctgcaatggg caaggctctt cgcaagcgtt ttgggtttga
     2941 aacttttgct gattttgagc ggtggctatc gtcgatttct gacgatcagc aacacgaaaa
     3001 atcagtggat aatgagtggc ttgctgatga aaaatcagcg ccaagcgaac gagattatcc
     3061 cgatgaatct gacggcttat tcggagtgat accgaataag aaaagtcaga tgagtgagag
     3121 taaatttacg tcaatattta atgacgtgaa tttacgataa gcgattattt tgcgtgaagc
     3181 aaaataaagc gtaaaaggag ttgagagcgt gacacgcttt cggctccttt tttcgttgtc
     3241 acttgtgaca gcgaataccc tcggagagca tttggaattg tgacagccat gtcacaatta
     3301 ggaaaatgtt actctttgac aaagagtaac agaaaggttt acaatctttt tattagcgac
     3361 agcgcgaagg agggttttaa cttggggttt agtatttcat ttaaaaaagg aacgaagaat
     3421 acaagtattt ctcataataa tcgtgagtta actgatcgcc agaaaaccaa tgattggcat
     3481 aagcatattg acttcacgaa atcggatgaa aatatttatt tagagcagac gaatctagca
     3541 gataaatatg aggaattgtt tggcgaagtg gtagaaaaat ataatgcgaa acaaaaaaga
     3601 gccgatagaa aaatcgagga ctatttagcg aaagtgcgca aggataaaaa gttggaacct
     3661 caacgagaat ttattgtgca aataggcatt ttagatgatt tccagacaaa tcgagcagat
     3721 ggttcttcta ctggcatatc gaaacaacaa gctgaacaaa atcgagtgat tgccaataaa
     3781 attttggttc agtattacaa ggagtttcaa gagagaaacc ctaatttggc tgtttataat
     3841 gctgttattc ataatgacga aataagtccg cacctgcact tgaatattgt gccggttgct
     3901 gaaggttata aacggggtgt tcaaaagcag ccgagcttta ataaagcact ggttcaacaa
     3961 gggatacacg ctgataaaga taatggtcga gtgcttttca ataattttag aaatcaagaa
     4021 gttgactcta tagaacgatt aatgaatgat tacggttgga aaagggatat tgtcggtacc
     4081 aacaaaatta aagatattca cgaatacaaa gaaatcatga gtgaaatttc tgaattgcgc
     4141 caaacggctg taaaagagcg tgagagcgtt tctgatgagt tgaggtatat ttctaggcaa
     4201 agagaagaaa acgagcgtga taaggctctg atggcttctg agagagcgaa gattgaagaa
     4261 gagaagaaaa atatgctgaa tgtaaaaaaa gagatggcgg tcattttcca aaaagatatg
     4321 gttcctttag aaagtttcaa gaggcttcct gatggttcgt atcatttatc tggg
//
