LOCUS       NZ_CP072584             4373 bp    DNA     circular CON 29-APR-2024
DEFINITION  Enterococcus faecium strain VB12993 plasmid pVB12993_p5, complete
            sequence.
ACCESSION   NZ_CP072584
VERSION     NZ_CP072584.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18533867
            Assembly: GCF_017815655.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 4373)
  AUTHORS   Balaji,V., Yamuna,B. and Monisha,P.
  TITLE     Complete genome of Vancomycin Resistant Enterococcus faecium_VB12993
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4373)
  AUTHORS   Balaji,V., Yamuna,B. and Monisha,P.
  TITLE     Direct Submission
  JOURNAL   Submitted (30-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                   :: UNICYCLER v. v0.4.8
            Assembly Name                     :: VB12993
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 98.7x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_017815655.1-RS_2024_04_29
            Annotation Date                   :: 04/29/2024 04:39:46
            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)                     :: 3,132
            CDSs (total)                      :: 3,040
            Genes (coding)                    :: 2,896
            CDSs (with protein)               :: 2,896
            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)              :: 144
            CDSs (without protein)            :: 144
            Pseudo Genes (ambiguous residues) :: 0 of 144
            Pseudo Genes (frameshifted)       :: 37 of 144
            Pseudo Genes (incomplete)         :: 94 of 144
            Pseudo Genes (internal stop)      :: 39 of 144
            Pseudo Genes (multiple problems)  :: 23 of 144
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP072584.1.
            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..4373
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="VB12993"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pVB12993_p5"
                     /geo_loc_name="India"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2018"
                     /collected_by="Christian medical college"
     gene            complement(join(4065..4373,1..660))
                     /locus_tag="J7299_RS15540"
                     /old_locus_tag="J7299_15540"
     CDS             complement(join(4065..4373,1..660))
                     /locus_tag="J7299_RS15540"
                     /old_locus_tag="J7299_15540"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /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: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation factor domain-containing
                     protein"
                     /protein_id="WP_002347008.1"
                     /translation="MSKKRTIVNEWEKLTALSNRRLNVQTLVQTIKLNWSIDRITIVGK
                     LNQNIFYHTQHDVLILDFEQLMRVNEGNGYLKAVGNNGWQLLDQHDENIAYIEISKWQE
                     GKGRIDFNPNKISRFLADSMKNFIHDLFLEPHFSRADVACDLIDVPDEFITQYRIIDPV
                     SFKLIYGRSGKLETVYWGSRASERQIRLYNKKIEQEMKRKVVPSEINTWWRLEMQLRRG
                     KATEWYAMVKESLDSFVSPHFLPTDIKPTDKVMIDGLLANHSNWAILSRNSKYKYRNLL
                     KRESQNDELTNHLRETFEESADDLKKELDTWLQGLDVTEEE"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            complement(1105..2512)
                     /locus_tag="J7299_RS15545"
                     /old_locus_tag="J7299_15545"
                     /pseudo=""
     CDS             complement(1105..2512)
                     /locus_tag="J7299_RS15545"
                     /old_locus_tag="J7299_15545"
                     /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="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid recombination protein"
                     /name="plasmid recombination protein"
     gene            complement(2734..3096)
                     /locus_tag="J7299_RS15550"
                     /old_locus_tag="J7299_15550"
     CDS             complement(2734..3096)
                     /locus_tag="J7299_RS15550"
                     /old_locus_tag="J7299_15550"
                     /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_045135959.1"
                     /translation="MGMTLADIKAQEEKLKKEQAKLRQQKKRLIEKENAAMGKALRKRF
                     GFETFADFERWLSSISDDQQHEKTVDNEWLADEKSAPSERDYPDESDDLFGVIPNKKSQ
                     MSESKFTSIFNDVNLR"
                     /name="hypothetical protein"
     gene            complement(3100..3408)
                     /locus_tag="J7299_RS15555"
                     /old_locus_tag="J7299_15555"
     CDS             complement(3100..3408)
                     /locus_tag="J7299_RS15555"
                     /old_locus_tag="J7299_15555"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002292673.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002333831.1"
                     /translation="MDKIDLREETVDRIELMYERLADYLNLPDEDNYSEMLERIMDVLN
                     SVINADLAKSSVLTNEFVHKHLAQTTDESEKEFWLKLMSHVMQLNQISVINSKEKEM"
                     /name="hypothetical protein"
     gene            complement(3417..3836)
                     /locus_tag="J7299_RS15560"
                     /old_locus_tag="J7299_15560"
     CDS             complement(3417..3836)
                     /locus_tag="J7299_RS15560"
                     /old_locus_tag="J7299_15560"
                     /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            complement(3829..4062)
                     /locus_tag="J7299_RS15565"
                     /old_locus_tag="J7299_15565"
     CDS             complement(3829..4062)
                     /locus_tag="J7299_RS15565"
                     /old_locus_tag="J7299_15565"
                     /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"
     Typing          complement(1109..1704)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.985"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(1704..2605)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.671"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 tcttaactgc atttctaacc gccaccaagt attaatttct gaaggcacca cctttctttt
       61 catttcttgc tctatttttt tattgtacaa acgaatttgc cgctcgcttg cccgactacc
      121 ccaatacacc gtttccagtt ttcctgagcg tccataaatt aatttaaatg aaactggatc
      181 aataattcga tattgcgtga taaactcatc aggcacatca ataagatcgc aggcaacatc
      241 cgctcgtgaa aaatggggct ctaaaaataa atcatgaata aaatttttca tggaatccgc
      301 taaaaatcga ctgattttat taggattaaa atcaatccgc ccttttcctt cttgccattt
      361 agaaatttca atataggcaa tattttcgtc atgttggtct aatagctgcc aaccattatt
      421 tccaaccgct tttaaatagc cattgccttc atttacccgc ataagctgtt caaaatctaa
      481 tattaataca tcatgttgag tatgataaaa aatattttga ttcaactttc caacaatggt
      541 aattcggtca atcgaccaat ttaattttat agtttgtacc aaagtttgaa catttaaccg
      601 cctgttagac agggctgtta atttttccca ctcattcacg attgttcttt ttttactcat
      661 attcagttcc tcctcaaaga aaaaagagat ttttggaaag aatttccaga gttcacgtaa
      721 ctctaaaaat tcataaccat caatctctag tcttgaagaa acctaaaaat attcgtataa
      781 tgaatttgag ttacggaact agtgtggtta gtttccgtaa aggtcgagaa cgttggtagc
      841 gttgctcgac ttattttttt gctctttttc cagttcattt gtttgctaac tcaataatag
      901 cacttctctt tagctatgca aataccaaaa aaataaaacc gcaccctttg aaaagggcgc
      961 ccccaaactt cgctaacgct aagttggcca aaaaatggac ttgccatttt ttagcaaatg
     1021 tcagcttcag gggctagtgg tttagccgtc aactccttat cctcggcaca aaccgcctcc
     1081 ggtaccgttg actgcacatc gtggctacca ctcaatctca ttctcagaac gctctaattt
     1141 atgctgtgag acgttttgac gataaaataa ggttttctcc tgctctaata cttctaattc
     1201 ctcagaaagc cccatatcct tttctgcaag accaaaacgg atagacaaac gagtgatcga
     1261 tttttgaaat gcgtttttta atcgctctaa acgctggcgt aaagagcgat tttcttcttt
     1321 cagcttttta ttttccactt gtaaatctgc taattgtttt ctaccagaca aatgacgctc
     1381 ttcttccaat gtagctacat actcatttaa ttctgtattt tgctcaagca tctgtaaata
     1441 ttgctcactc atgttatcag catttctctt ggcatttgtt gctctcgtag ctcgttgata
     1501 caaatcaaca aaatcattcc cagataaatg atacgaacca tcaggaagcc tcttgaaact
     1561 ttctaaagga accatatctt tttggaaaat gaccgccatc tcttttttta cattcagcat
     1621 atttttcttc tcttcttcaa tcttcgctct ctcagaagcc atcagagcct tatcacgctc
     1681 gttttcttct ctttgcctat aaaatatacc tcaactcatc agaaacgctc tcacgctctt
     1741 ttacagccgt ttggcgcaat tcagaaattt cactcatgat ttctttgtat tcgtgaatat
     1801 ctttaatttt gttggtaccg acaatatccc ttttccaacc gtaatcattc attaatcgtt
     1861 ctatagagtc aacttcttga tttctaaaat tattgaaaag cactcgacca ttatctttat
     1921 cagcgtgtat cccttgttga accagtgctt tattaaagct cggctgcttt tgaacacccc
     1981 gtttataacc ttcagcaacc ggcacaatat tcaagtgcag gtgcggactt atttcgtcat
     2041 tatgaataac agcattataa acagccaaat tagggtttct ctcttgaaac tccttgtaat
     2101 actgaaccaa aattttattg gcaatcactc gattttgttc agcttgttgt ttcgatatgc
     2161 cagtagaaga accatctgct cgatttgtct ggaaatcatc taaaatgcct atttgcacaa
     2221 taaattctcg ttgaggttcc aactttttat ccttgcgcac tttcgctaaa tagtcctcga
     2281 tttttctatc ggctcttttt tgtttcgcat tatatttttc taccacttcg ccaaacaatt
     2341 cctcatattt atctgctaga ttcgtctgct ctaaataaat attttcatcc gatttcgtga
     2401 agtcaatgtg cttatgccaa tcattggttt tctggcgatc agttaactca cgattattat
     2461 gagaaatact tgtattcttc gttccttttt taaatgaaat actaaacccc aagttaaaac
     2521 cctccttcgc gctgtcgcta ataaaaagat tgtaaacctt tctgttactc tttgtcaaag
     2581 agtaacattt tcctaattgt gacatggatg tcacaattcc aaacgctctc cgagggtttt
     2641 cgctgtcaca agtgacaacg aaaaaaggag ccgaaagcgt atcacgctat caactccttt
     2701 tatgctttat tttgcttcac gcaaaataat cgcttatcgt aaattcacgt cattaaatat
     2761 tgacgtaaat ttactctcac tcatctgact tttcttattc ggtatcactc cgaataagtc
     2821 gtcagattca tcgggataat ctcgttcgct tggcgctgat ttttcatcag caagccactc
     2881 attatccact gttttttcgt gttgctgatc gtcagaaatt gacgataacc accgctcaaa
     2941 atcagcaaaa gtttcaaacc caaaacgctt gcgaagagcc ttgcccattg cagcattttc
     3001 tttctcaatc aagcgttttt tctgttggcg aagtttcgct tgttcttttt ttaatttttc
     3061 ttcttgcgct ttaatatctg ctaaagtcat tcccataaac tacatctcct tttctttgga
     3121 attaataacg gaaatttggt ttaactgcat aacatgactc attaatttca accaaaattc
     3181 tttttctgat tcatcagttg tttgcgctaa atgcttatga acaaattcat tagtcaaaac
     3241 tgaagatttt gctagatcag cattgataac cgagttgaga acatccataa ttcgttcaag
     3301 catttcacta taattatctt catccggcaa attcaaataa tcagctaacc gttcatacat
     3361 caattcaatt ctatcgactg tttcttctct caaatcaatt ttatccatgt cacacctcac
     3421 ttccagaatt gccaccattt tcgatttttt aattcttgat tttctagtaa caactgatcg
     3481 tttttttgtt gctgaagcaa agtcaatttt tgttggtcac gaatcatttc cgttaattca
     3541 gaaatatgcc tatctttttc cgctaattgt tcacgcaaaa attcattttc tttttctaac
     3601 gggaaatcat tgcctgcatc attgaccggt aaatcaccag tcaattgacc accttttgac
     3661 cgataaattg accgcacaac accaatcaat tccttgtcta acatgataac cccattatct
     3721 ttataccgag caaggtcata acctgcattg accagttgat tgcgcactgt atttttagat
     3781 atacccaact catcagcaag gttttttatg gtcatttttt ctggcaaatc agtcattatc
     3841 ttctccgtta ctttcagcta ccccataaac atatttaaca gcatgcttag ggataatgat
     3901 tggggaatca attttattat ttttcaaaat caactcatac tgcgttacat caagtaactt
     3961 accggacatt tttttgctat ccaaaaaaac aacgacaacg ttatcacctg ttaaattcac
     4021 caaccaattt ttcttaccaa aatgcttttg tttttctgcc attactattc ctcctctgtc
     4081 acatcaagtc cctgtaacca agtatccaat tcttttttta aatcatctgc tgattcttca
     4141 aatgtttctc gtaaatgatt cgtcaactca tcattttgac tttctcgctt taataaattt
     4201 cgatatttat atttcgagtt tcttgacaaa atcgcccaat tagaatgatt agctaacaat
     4261 ccatcaatca taactttatc cgtaggtttt atatcagttg gtaaaaaatg tggactcaca
     4321 aagctatcca aactttcttt caccatagca taccattccg tagctttacc acg
//
