LOCUS       NZ_CP072592             4374 bp    DNA     circular CON 29-APR-2024
DEFINITION  Enterococcus faecium strain VB976 plasmid pVB976_p6, complete
            sequence.
ACCESSION   NZ_CP072592
VERSION     NZ_CP072592.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18533868
            Assembly: GCF_017815695.1
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. and Monisha,P.
  TITLE     Complete genome of Vancomycin Resistant Enterococcus faecium_VB976
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4374)
  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                     :: VB976
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 124.4x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_017815695.1-RS_2024_04_29
            Annotation Date                   :: 04/29/2024 04:48:27
            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)                     :: 3,208
            CDSs (total)                      :: 3,117
            Genes (coding)                    :: 2,986
            CDSs (with protein)               :: 2,986
            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)              :: 131
            CDSs (without protein)            :: 131
            Pseudo Genes (ambiguous residues) :: 0 of 131
            Pseudo Genes (frameshifted)       :: 41 of 131
            Pseudo Genes (incomplete)         :: 81 of 131
            Pseudo Genes (internal stop)      :: 34 of 131
            Pseudo Genes (multiple problems)  :: 22 of 131
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP072592.1.
            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="VB976"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pVB976_p6"
                     /geo_loc_name="India"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2019"
                     /collected_by="Christian medical college"
     gene            join(3910..4374,1..942)
                     /locus_tag="J7300_RS15840"
                     /old_locus_tag="J7300_15880"
     CDS             join(3910..4374,1..942)
                     /locus_tag="J7300_RS15840"
                     /old_locus_tag="J7300_15880"
                     /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_085811611.1"
                     /translation="MGFSISFKKGTKNTSISHNNRELTDRQKTNDWHKHIDFTKSDENI
                     YLEQTNLADKYEELFGEVVEKYNAKQKRADRKIEDYLAKVRKDKKLEPQREFIVQIGIL
                     DDFQTNRADGSSTGISKQQAEQNRVIANKILVQYYKEFQERNPNLAVYNAVIHNDEISP
                     HLHLNIVPVAEGYKRGVQKQPSFNKALVQQGIHADKDNGRVLFNNFRNQEVDSIERLMN
                     DYGWKRDIVGTNKIKDIHEYKEIMSEISELRQTAVKERESVSDELRYISRQREENEREK
                     ALMASERAKIEEEKKNMLNVKKEMAVIFQKDMVPLESFKRLPDGSYHLSGNDFVDLYQR
                     ATRATNAKRNADNMSEQYLQMLEQNTELNEYVATLEEERHLSGRKQLADLQVENKKLKE
                     ENRSLRQRLERLKNAFQKSITRLSIRFGLAEKDMGLSEELEVLEQEKTLFYRQNVSQRK
                     LERSEDEIEW"
                     /name="plasmid recombination protein"
     gene            1389..2357
                     /locus_tag="J7300_RS15845"
                     /old_locus_tag="J7300_15885"
     CDS             1389..2357
                     /locus_tag="J7300_RS15845"
                     /old_locus_tag="J7300_15885"
                     /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            2360..2593
                     /locus_tag="J7300_RS15850"
                     /old_locus_tag="J7300_15890"
     CDS             2360..2593
                     /locus_tag="J7300_RS15850"
                     /old_locus_tag="J7300_15890"
                     /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            2586..3005
                     /locus_tag="J7300_RS15855"
                     /old_locus_tag="J7300_15895"
     CDS             2586..3005
                     /locus_tag="J7300_RS15855"
                     /old_locus_tag="J7300_15895"
                     /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            3014..3322
                     /locus_tag="J7300_RS15860"
                     /old_locus_tag="J7300_15900"
     CDS             3014..3322
                     /locus_tag="J7300_RS15860"
                     /old_locus_tag="J7300_15900"
                     /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_002298419.1"
                     /translation="MDKIDLREETVDRIELMYERLADYLNLPDEDNYSEMLERMMDVLN
                     SVINADLAKSSVLTNEFVHKHLAQTTDESEKEFWLKLMSHVMQLNQISVINSKEKEM"
                     /name="hypothetical protein"
     gene            3326..3688
                     /locus_tag="J7300_RS15865"
                     /old_locus_tag="J7300_15905"
     CDS             3326..3688
                     /locus_tag="J7300_RS15865"
                     /old_locus_tag="J7300_15905"
                     /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_085811612.1"
                     /translation="MGMTLADIKAQEEKLKKEQAKLRQQKKRLIEKENAAMGKALRKRF
                     GFETFADFERWLSSISDDQQHEKSVDNEWLADEKSAPSERDYLNESDGLFEVIPNNKSQ
                     MSESKFTSMFSDVDLR"
                     /name="hypothetical protein"
     Typing          1473..2347
                     /name="rep_cluster_943"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.032"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          3818..4374
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.462"
                     /coverage="100.0"
                     /evalue="1.32e-117"
ORIGIN
        1 attcataatg acgaaataag tccgcacctg cacttgaata ttgtgccggt tgctgaaggt
       61 tataaacggg gtgttcaaaa gcagccgagc tttaataaag cactggttca acaagggata
      121 cacgctgata aagataatgg tcgagtgctt ttcaataatt ttagaaatca agaagttgac
      181 tctatagaac gattaatgaa tgattacggt tggaaaaggg atattgtcgg taccaacaaa
      241 attaaagata ttcacgaata caaagaaatc atgagtgaaa tttctgaatt gcgccaaacg
      301 gctgtaaaag agcgtgagag cgtttctgat gagttgaggt atatttctag gcaaagagaa
      361 gaaaacgagc gtgagaaggc tctgatggct tctgagagag cgaagattga agaagagaag
      421 aaaaatatgc tgaatgtaaa aaaagagatg gcggtcattt tccaaaaaga tatggttcct
      481 ttagaaagtt tcaagaggct tcctgatggt tcgtatcatt tatctgggaa tgattttgtt
      541 gatttgtatc aacgagctac gagagcaaca aatgccaaga gaaatgctga taacatgagt
      601 gagcaatatt tacagatgct tgagcaaaat acagaattaa atgagtatgt agctacattg
      661 gaagaagagc gtcatttgtc tggtagaaaa caattagcag atttacaagt ggaaaataaa
      721 aagctgaaag aagaaaatcg ctctttacgc cagcgtttag agcgattaaa aaacgcattt
      781 caaaaatcga tcactcgttt gtctatccgt tttggtcttg cagaaaagga tatggggctt
      841 tctgaggaat tagaagtgtt agagcaggag aaaaccttat tttatcgtca aaacgtctca
      901 cagcgtaaat tagagcgttc tgaagatgag atcgagtggt agttacgatg tgcagtcaac
      961 ggtaccggag gcggtttgtg ccgaggataa ggagttgacg gctaaaccac tagcctatta
     1021 agctgacatt tgctaaaaaa tggccagtcc attttttggc caacctagcg ttagcgaagt
     1081 ttgggggcgc ccttttcaaa gggtgcggtt ttattttttg gatatttgca tagctaaaga
     1141 gaagtgctat tattgagtta gcaaacaaat gaactgaaaa aagagtaaaa aaatagtcga
     1201 gcaacgctac caacgttctc gacctttacg gaaactaatc gcactagctc cgtaacttct
     1261 taatcattat acgaatattt ttagatttct tcaagactag agattttttg gtaatgaatt
     1321 tttaagagtt acgtgaactt ttgaaaattc tttccagaag tctctttttc tttgaggagg
     1381 aacaaaattt gagtaaaaat ggcataatcg taaatgagtg ggaaaattta acagccctat
     1441 ctaacaggcg gttaaatgta caaaatatgt acaccccctt aaaaatgcag tggtcaattg
     1501 accgaattac tatcgttgga aaactgaagg aaaatattta ttatcacact caaaatgatg
     1561 tgttgatttt agattttgag caattaatgc gggtgaatga aggcaatggc tatttaaaag
     1621 cggttgggaa taacggctgg caattattag accaatacga agaaaatatt gcttatattg
     1681 agattttgaa atggcaagat ggcaaagggc ggattgattt taacccgaat aagattggtc
     1741 attttttagc tagttcaatg aaaaatttca ttcatgattt atttctagaa ccacatttct
     1801 cacgtgcgga tattgcttgc gatattatcg atgtgcctga tgagtttatt acacaatatc
     1861 gagtggttga tcctgtttct ttcaagccaa tttatgggcg gtctgggaag ctggaaacag
     1921 cttattgggg cagtcgtgcc agcgaacgcc agattcggct atacaacaaa aaattggaac
     1981 aggaaaccaa gcgtaaaatt gtgccaccag aaatagaaac ttggtggcga ctggaattgc
     2041 agttaaggcg tgggaaagca acagattggc atgcaatggt tcatgaaagt ttaaatagtt
     2101 ttgctagccc tcattttcta ccacttgatg taaaaacaaa tgataaggtg atgatttttg
     2161 gactgattgc taaccctgaa atgtgggggt ttttagagcg tagaatgaaa tacaaattga
     2221 gagatatttt gaaaagagaa agtcaaaatg atgagttgac gaatcattta cgagaaacat
     2281 tttcggaatc agcagatgtt ttgaaaaaag aattagacac ttggcttcaa gggttagatg
     2341 taacggagga ggaataagaa tggcagaaaa acaaaagcat tttggtaaga aaaattggtt
     2401 ggtgaattta acaggtgata acgttgtcgt tgtttttttg gatagcaaaa aaatgtccgg
     2461 taagttactt gatgtaacgc agtatgagtt gattttgaaa aataataaaa ttgattcccc
     2521 aatcattatc cctaagcatg ctgttaaata tgtttatggg gtagctgaaa gtaacggaga
     2581 agataatgac tgatttgcca gaaaaaatga ccataaaaaa ccttgctgat gagttgggta
     2641 tatctaaaaa tacagtgcgc aatcaactgg tcaatgcagg ttatgacctt gctcggtata
     2701 aagataatgg ggttatcatg ttagacaagg aattgattgg tgttgtgcgg tcaatttatc
     2761 ggtcaaaagg tggtcaattg actggtgatt taccggtcaa tgatgcaggc aatgatttcc
     2821 cgttagaaaa agaaaatgaa tttttgcgtg aacaattagc ggaaaaagat aggcatattt
     2881 ctgaattaac ggaaatgatt cgtgaccaac aaaaattgac tttgcttcag caacaaaaaa
     2941 acgatcagtt gttactagaa aatcaagaat taaaaaatcg aaaatggtgg caattctgga
     3001 agtgaggtgt gacatggata aaattgattt gagagaagaa acagtcgata gaattgaatt
     3061 gatgtatgaa cggttagctg attatttgaa tttgccggat gaagataatt atagtgaaat
     3121 gcttgaacga atgatggatg ttctcaactc ggttatcaat gctgatctag caaaatcttc
     3181 agttttgact aatgaatttg ttcataagca tttagcgcaa acaactgatg aatcagaaaa
     3241 agaattttgg ttgaaattaa tgagtcatgt tatgcagtta aaccaaattt ccgttattaa
     3301 ttccaaagaa aaggagatgt agtttatggg aatgacttta gcagatatta aagcgcaaga
     3361 agaaaaatta aaaaaagaac aagcgaaact tcgccaacag aaaaaacgct tgattgagaa
     3421 agaaaatgct gcaatgggca aggctcttcg caagcgtttt gggtttgaaa cttttgctga
     3481 ttttgagcgg tggctatcgt cgatttctga cgatcagcaa cacgaaaaat cagtggataa
     3541 tgagtggctt gctgatgaaa aatcagcgcc aagcgaacga gattatctaa acgaatctga
     3601 cggcttattc gaagtgatac cgaataacaa aagtcagatg agtgagagta aatttacgtc
     3661 aatgtttagt gacgtggatt tacgataagc gattattttg cgtgaagcaa aataaagcgt
     3721 aaaaggagtt gagagcgtga cacgctttcg gctccttttt tcgttgtcac ttgtgacagc
     3781 gaataccctc ggagagcatt tggaattgtg acagccatgt cacaattagg aaaatgttac
     3841 tctttgacaa agagtaacag aaaggtttac actcttttta ttagcgacag cgcgaaggag
     3901 ggttttaact tggggtttag tatttcattt aaaaaaggaa cgaagaatac aagtatttct
     3961 cataataatc gtgagttaac tgatcgccag aaaaccaatg attggcataa gcacattgac
     4021 ttcacgaaat cggatgaaaa tatttattta gagcagacga atctagcaga taaatatgag
     4081 gaattgtttg gcgaagtggt agaaaaatat aatgcgaaac aaaaaagagc cgatagaaaa
     4141 atcgaggact atttagcgaa agtgcgcaag gataaaaagt tggaacctca acgagaattt
     4201 attgtgcaaa taggcatttt agatgatttc cagacaaatc gagcagatgg ttcttctact
     4261 ggcatatcga aacaacaagc tgaacaaaat cgagtgattg ccaataaaat tttggttcag
     4321 tattacaagg agtttcaaga gagaaaccct aatttggctg tttataatgc tgtt
//
