LOCUS       NZ_CP059813             4065 bp    DNA     circular CON 20-SEP-2023
DEFINITION  Enterococcus faecium strain BP5067 plasmid pBP5067_P7, complete
            sequence.
ACCESSION   NZ_CP059813
VERSION     NZ_CP059813.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14675394
            Assembly: GCF_012932985.2
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 4065)
  AUTHORS   Veeraraghavan,B., Vasudevan,K., Arumugam,A., Solaimalai,D. and
            Bakthavatchalam,Y.D.
  TITLE     Complete genome of vancomycin resistant Enterococcus faecium
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4065)
  AUTHORS   Veeraraghavan,B., Vasudevan,K., Arumugam,A., Solaimalai,D. and
            Bakthavatchalam,Y.D.
  TITLE     Direct Submission
  JOURNAL   Submitted (09-JUL-2020) Clinical Microbiology, Christian Medical
            College, Ida Scudder Road, Vellore, Tamil Nadu 632004, India
REFERENCE   3  (bases 1 to 4065)
  AUTHORS   Veeraraghavan,B., Solaimalai,D., Vasudevan,K. and Arumugam,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (23-APR-2020) Department of Clinical Microbiology,
            Christian Medical College and Hospital, Ida Scudder Road, Vellore,
            Tamil Nadu 632004, India
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2020
            Assembly Method :: CANU v. v. 1.7; UNICYCLER HYBRID v. v. 0.4.6
            Assembly Name                     :: BP5067
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 30.36x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/20/2023 03:47:10
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 2,890
            CDSs (total)                      :: 2,799
            Genes (coding)                    :: 2,719
            CDSs (with protein)               :: 2,719
            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)              :: 80
            CDSs (without protein)            :: 80
            Pseudo Genes (ambiguous residues) :: 0 of 80
            Pseudo Genes (frameshifted)       :: 29 of 80
            Pseudo Genes (incomplete)         :: 50 of 80
            Pseudo Genes (internal stop)      :: 15 of 80
            Pseudo Genes (multiple problems)  :: 11 of 80
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP059813.1.
            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..4065
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="BP5067"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pBP5067_P7"
                     /geo_loc_name="India: Vellore"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2017"
                     /collected_by="CMC Vellore"
     gene            join(3972..4065,1..1322)
                     /locus_tag="HI834_RS14290"
                     /old_locus_tag="HI834_014290"
     CDS             join(3972..4065,1..1322)
                     /locus_tag="HI834_RS14290"
                     /old_locus_tag="HI834_014290"
                     /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_025481041.1"
                     /translation="MGFSISFKKGTKNTSISHNNRELTDRQKTNDWHKHIDFTKSDENI
                     YLEQTNLADKYEELFGEVVEKYNAKQKRADRKIEDYLAKVRKDKKLEPQREFIVQIGIL
                     DDFQTNRADGSSTGISKQQAEQNRVIANKILVQYYKEFQERNPNLAVYNAVIHNDEISP
                     HLHLNIVPVAEGYKRGVQKQPSFNKALVQQGIHADKDNGRVLFNNFRNQEVDSIERLMN
                     DYGWKRDIVGTNKIKDIHEYKEIMSEISELRQTAVKERESVSAEMRYISKQREKNEREK
                     ALVASEKAKIEEEKKSIIDLEKELAVVFQKDPVPLTSFEKLPDGSYRLSSADFVDLYQK
                     ASNATNSKKYADMANESLGNTLDKNIALFDKNMALEQENSFLKNQQKVDLSAVVAENKK
                     LKEENRSLRQRLTQLKNAFQKSITRLSIRFGLVEKDMGISEELKILDQEKTLASQQNAP
                     ERNIGRSENEMEW"
                     /name="plasmid recombination protein"
     gene            1771..2745
                     /locus_tag="HI834_RS14295"
                     /old_locus_tag="HI834_014295"
     CDS             1771..2745
                     /locus_tag="HI834_RS14295"
                     /old_locus_tag="HI834_014295"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002303407.1"
                     /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_010727957.1"
                     /translation="MSKKGTIINEWEKLTAPSNRRLSVPFMDTPLKIQWSIDRITIVGN
                     LKENIYYHTTHDVLILDFEQLMRLNEGNGYLRSVSNNGWQLLDQHEENIAYIEILKWQE
                     GKGRIDFNPNKISQFLASSMKNFIHDLFIEPHFSRADIACDIIDVPDEFITQYRVVDPV
                     SFKPIYGRNGKLETAYWGSRSSERQIRMYNKKLEQEKKRKIVPKEIVSWWRLELQLRRG
                     KATDWHAMVQESLDSFASPHYLPADTSVADKMMITALTTEHDYWGQINRKTKYKYRNLL
                     KQESQNDELTNHLRETFAESADDLKKELDTWLLGLDVTEEEEK"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            2742..2975
                     /locus_tag="HI834_RS14300"
                     /old_locus_tag="HI834_014300"
     CDS             2742..2975
                     /locus_tag="HI834_RS14300"
                     /old_locus_tag="HI834_014300"
                     /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_002303408.1"
                     /translation="MTEKQKYFGKKNWLVNLTGDYVVVVFLDSKKMSGKLLDVTQYELI
                     LKNNKIDSPIIIPKHAVKYIYAVAESSGEAND"
                     /name="hypothetical protein"
     gene            3046..3384
                     /locus_tag="HI834_RS14305"
                     /old_locus_tag="HI834_014305"
     CDS             3046..3384
                     /locus_tag="HI834_RS14305"
                     /old_locus_tag="HI834_014305"
                     /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_181742563.1"
                     /translation="MVAVLEMRCNMDKIDLREETVDRIELMYERLADYLKLPAEDNYSE
                     MLERMMDVLNSTINAGLAKSSVLTNEFVHKHLAQTTDESEKEFWLKLMSHVMQLNQISV
                     INSKEKEM"
                     /name="hypothetical protein"
     gene            3388..3750
                     /locus_tag="HI834_RS14310"
                     /old_locus_tag="HI834_014310"
     CDS             3388..3750
                     /locus_tag="HI834_RS14310"
                     /old_locus_tag="HI834_014310"
                     /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_113613589.1"
                     /translation="MGMTLADIKAQEEKLKKEQAKLRQQKKRLIEKENAEMGKALRKRF
                     GFETFADFERWLSSISDDQQHEKSVDNEWLADEKSAPSERDYPDESDGLFGVIPNKKSQ
                     MSESKFTSIFNDVNLR"
                     /name="hypothetical protein"
     Typing          1850..2745
                     /name="rep_cluster_2146"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.443"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          4..1319
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.089"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 ggcataagca cattgacttc acgaaatcgg atgaaaatat ttatttagag cagacgaatc
       61 tagcagataa atatgaggaa ttgtttggcg aagtggtaga aaaatataat gcgaaacaaa
      121 aaagagccga tagaaaaatc gaggactatt tagcgaaagt gcgcaaggat aaaaagttgg
      181 aacctcaacg agaatttatt gtgcaaatag gcattttaga tgatttccag acaaatcgag
      241 cagatggttc ttctactggc atatcgaaac aacaagctga acaaaatcga gtgattgcca
      301 ataaaatttt ggttcagtat tacaaggagt ttcaagagag aaaccctaat ttggctgttt
      361 ataatgctgt tattcataat gacgaaataa gtccgcacct gcacttgaat attgtgccgg
      421 ttgctgaagg ttataaacgg ggtgttcaaa agcagccgag ctttaataaa gcactggttc
      481 aacaagggat acacgctgat aaagataatg gtcgagtgct tttcaataat tttagaaatc
      541 aagaagttga ctctatagaa cgattaatga atgattacgg ttggaaaagg gatattgtcg
      601 gtaccaacaa aattaaagat attcacgaat acaaagaaat catgagtgaa atttctgaat
      661 tgcgccaaac ggctgtaaaa gagcgtgaga gcgtttctgc ggaaatgagg tatatttcta
      721 agcaaagaga aaaaaacgag cgtgagaagg ctctggtggc ttctgagaag gcgaaaattg
      781 aagaagagaa aaaatcgatt atcgatttgg aaaaagagct ggctgttgtt tttcaaaaag
      841 accctgttcc tttaacgagt tttgaaaaat taccggatgg ctcgtatcgc ttatctagtg
      901 ctgattttgt agatttgtat caaaaagcgt ctaatgctac gaacagcaaa aaatatgctg
      961 atatggcgaa tgaatcgctt ggaaatacat tagataaaaa tatcgcttta tttgataaaa
     1021 acatggcgtt agaacaagaa aattcttttt tgaaaaatca acaaaaggtt gatttgtcag
     1081 cggttgttgc tgaaaacaaa aagctgaagg aagaaaatcg ttctttgcgt cagcggttaa
     1141 ctcaactgaa aaacgcattt caaaaatcaa tcactcgttt atcaattcgt tttgggcttg
     1201 tagaaaaaga tatgggaata tctgaagagc taaaaatatt agatcaagag aaaacgttgg
     1261 ctagtcagca gaatgcccca gaacgtaata tagggcgttc tgagaatgag atggagtggt
     1321 agttatacgg tgcagtcaac ggtaccggag gcggtctgtg ccgaggataa ggagttgacg
     1381 gctaaaccac taatccctga agctgacatt tgctaaaaaa tggcaagtcc attttttggc
     1441 caacttagcg ttagcgaagt ttgggggcgc ccttttcaaa gggtgcggtt ttatgttttt
     1501 ggatatttgc atagctaaag agaagtgcta ttattgagtt atcaaataaa taaactgaaa
     1561 aaagagcaaa aaaataaagt cgagcaacgc tggacacgtt ctcgaccttt acggaaacta
     1621 atcacactag ctccgtaact caaattcatt atacgaataa tttcaggttt cttcaagact
     1681 agagattgct ggttatgaat tttttagagt tacgtgaact ctggaaaatt ctttccacca
     1741 atctcttttt tctttgagga ggaactaaat ttgagtaaaa aaggcacgat cataaatgag
     1801 tgggaaaaat taacagcccc ctctaacagg cggttaagtg tcccttttat ggacaccccc
     1861 ctaaaaattc agtggtcaat cgaccgaatt accattgttg gaaatcttaa agagaatatc
     1921 tattatcaca ctacacatga tgtgttgatt ttagattttg aacagcttat gcgcctaaat
     1981 gaaggtaacg gttatttaag atctgttagt aataatggtt ggcagttgtt agaccaacat
     2041 gaagagaata ttgcttatat tgaaatttta aaatggcaag aggggaaagg gcgtatagac
     2101 ttcaatccga ataagattag tcaattctta gctagttcca tgaaaaactt tattcatgat
     2161 ttgtttatcg aacctcactt ttcacgtgca gatattgctt gcgacattat cgatgtacct
     2221 gatgagttta ttacacaata tcgggtagtt gatccagttt cttttaagcc tatttatgga
     2281 cggaatggaa aattagagac ggcatattgg ggatctcgct cttctgaacg tcaaattcgg
     2341 atgtataata aaaaactgga acaagagaag aaaagaaaaa ttgtgccaaa agaaatcgtg
     2401 agttggtggc ggttagaatt acaattaaga cgagggaaag cgactgattg gcatgcaatg
     2461 gttcaagaaa gcttggatag ttttgctagt cctcattact tgcctgctga tacaagtgta
     2521 gctgacaaaa tgatgattac tgctttaaca acagaacatg attattgggg gcaaattaat
     2581 cgaaagacaa aatataaata tcgaaatttg ctgaagcaag aaagtcaaaa tgatgaattg
     2641 acgaatcatt tacgagaaac ctttgcagaa tcggcagacg atttaaaaaa agaattagac
     2701 acatggcttc tagggctaga cgtaacagag gaggaagaaa aatgacagaa aaacaaaagt
     2761 attttggtaa gaaaaattgg ttggtaaatt taacaggtga ttacgttgtg gttgtttttt
     2821 tggatagcaa aaaaatgtcc ggtaagttac ttgatgtaac gcaatatgaa ttgattttga
     2881 aaaataataa aattgactct ccgattatta tccctaagca cgccgttaaa tatatttatg
     2941 cggtagctga aagtagtgga gaagctaatg actgatttgt cagaaaagat gaccataaaa
     3001 aatcttgctg atgaattagg tgtatcgaaa attaaagaat cggaaatggt ggcagttttg
     3061 gaaatgaggt gtaacatgga taaaattgat ttaagagaag agacagttga tagaattgaa
     3121 ttgatgtatg agcggttagc tgattatttg aaattgccgg ctgaagataa ttacagtgaa
     3181 atgcttgagc gaatgatgga tgttttaaat tccacaatca atgccggttt agcaaaatct
     3241 tcagttttga ctaatgaatt tgttcataag catttagcgc aaacaactga tgaatcagaa
     3301 aaagaatttt ggttgaaatt aatgagtcat gttatgcagt taaaccaaat ttccgttatt
     3361 aattccaaag aaaaggagat gtagtttatg ggaatgactt tagcagatat taaagcgcaa
     3421 gaagaaaaat taaaaaaaga acaagcgaaa cttcgccaac agaaaaaacg cttgattgag
     3481 aaagaaaatg ctgaaatggg taaggcactt cggaagcgtt ttgggtttga aacttttgct
     3541 gattttgagc ggtggctatc gtcgatttct gacgatcagc aacacgaaaa atcagtggat
     3601 aatgagtggc ttgctgatga aaaatcagcg ccaagcgaac gagattatcc cgatgaatct
     3661 gacggcttat tcggagtgat accgaataag aaaagtcaga tgagtgagag taaatttacg
     3721 tcaatattta atgacgtgaa tttacgataa gcgattattt tgcgtgaagc aaaataaagc
     3781 gtaaaaggag ttgagagcgt gacacgcttt cggctccttt tttcgttgtc acttgtgaca
     3841 gcgaataccc tcggagagca tttggaattg tgacagccat gtcacaatta ggaaaatgtt
     3901 actctttgac aaagagtaac agaaaggttt acactctttt tattagcgac agcgcgaagg
     3961 agggttttaa cttggggttt agtatttcat ttaaaaaagg aacgaagaat acaagtattt
     4021 ctcataataa tcgtgagtta actgatcgcc agaaaaccaa tgatt
//
