LOCUS       NZ_CP059812             4148 bp    DNA     circular CON 20-SEP-2023
DEFINITION  Enterococcus faecium strain BP5067 plasmid pBP5067_P6, complete
            sequence.
ACCESSION   NZ_CP059812
VERSION     NZ_CP059812.1
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 4148)
  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  JOURNAL   Unpublished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 4148)
  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 4148)
  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
            CP059812.1.
            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..4148
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="BP5067"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pBP5067_P6"
                     /geo_loc_name="India: Vellore"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2017"
                     /collected_by="CMC Vellore"
     gene            complement(192..554)
                     /locus_tag="HI834_RS14270"
                     /old_locus_tag="HI834_014270"
     CDS             complement(192..554)
                     /locus_tag="HI834_RS14270"
                     /old_locus_tag="HI834_014270"
                     /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"
     gene            complement(558..866)
                     /locus_tag="HI834_RS14275"
                     /old_locus_tag="HI834_014275"
     CDS             complement(558..866)
                     /locus_tag="HI834_RS14275"
                     /old_locus_tag="HI834_014275"
                     /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(875..1294)
                     /locus_tag="HI834_RS14280"
                     /old_locus_tag="HI834_014280"
     CDS             complement(875..1294)
                     /locus_tag="HI834_RS14280"
                     /old_locus_tag="HI834_014280"
                     /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_002368182.1"
                     /translation="MSNPVEKMTIKNLADELGISKNTVRNQLVNAGYDLARYKDNGVIM
                     LDKELIGVVRSIYRSKGGQLTGDLPVNDAGNDFPLEKENEFLREQLAEKDRHISELTEM
                     IRDQQKLTLLQQQKNDQLLLENQELKNRKWWQFWK"
                     /name="hypothetical protein"
     gene            complement(1291..2265)
                     /locus_tag="HI834_RS14285"
                     /old_locus_tag="HI834_014285"
     CDS             complement(1291..2265)
                     /locus_tag="HI834_RS14285"
                     /old_locus_tag="HI834_014285"
                     /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_169043388.1"
                     /translation="MSKNGIIVNEWENLTALSNRRLNVKTFYTPLKIRWSIDRITIVGK
                     LKENIYYHTQNDVLILDFEQLMRLNENNGYVKSVGLNGWQIVDKHDENIAYIEILKYQE
                     GQGRIDFNPNKINQFLASSMKNFIHDLFLEPHFSRADIACDIIDVPDDFITQYRVVDPV
                     SFKPIYGRSGKLETAYWGSRASERQIRMYNKKLEQERKRKIVPKEIETWWRLELQLRRG
                     KATDWHAMVHESLDSFASPHFLPIDTKHTDRIMIAGLMSDHSLWSGLTRPTKYKYRNLL
                     KQESQNDELTNHLRETFSESADDLKKELDTWLQGLDVTEVGAE"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            complement(2712..4118)
                     /locus_tag="HI834_RS14265"
                     /old_locus_tag="HI834_014265"
     CDS             complement(2712..4118)
                     /locus_tag="HI834_RS14265"
                     /old_locus_tag="HI834_014265"
                     /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_152156453.1"
                     /translation="MGFSISFKKGTKNTSISHNNRELTDRQKTNDWHKHIDFTKSDENI
                     YLEQTNLADKYEELFGEVVEKYNAKQKRADRKIEDYLAKVRKDKKLEPQREFIVQIGIL
                     DDFQTNRADGSSTGISKQQAEQNRVIANKILVQYYKEFQERNPNLAVYNAVIHNDEISP
                     HLHLNIVPVAEGYKRGVQKQPSFNKALVQQGIHADKDNGRVLFNNFRNQEVDSIERLMN
                     DYGWKRDIVGTNKIKDIHEYKEIMSEISELRQTAVKERESVSDELRYISRQREENERDK
                     ALMASERAKIEEEKKNMLNVKKEMAVIFQKDMVPLESFKRLPDGSYHLSGNDFVDLYQR
                     ATRATNAKRNADNMSEQYLQMLEQNTELNEYVAALEEERHLSGRKQLADLQVENKKLKE
                     ENRSLRQRLERLKNAFQKSITRLSIRFGLAEKDMGLSEELEVLEQEKTLFYRQNVSQHK
                     LERSEDEIEW"
                     /name="plasmid recombination protein"
     Typing          complement(1300..2182)
                     /name="rep_cluster_943"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="82.014"
                     /coverage="98.0"
                     /evalue="0.0"
     Typing          complement(2716..4118)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.308"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aaaaagagtg taaacctttc tgttactctt tgtcaaagag taacattttc ctaattgtga
       61 catggctgtc acaattccaa atgctctccg agggtattcg ctgtcacaag tgacaacgaa
      121 aaaaggagcc gaaagcgtgt cacgctctca actcctttta cgctttattt tgcttcacgc
      181 aaaataatcg cttatcgtaa attcacgtca ttaaatattg acgtaaattt actctcactc
      241 atctgacttt tcttattcgg tatcactccg aataagccgt cagattcatc gggataatct
      301 cgttcgcttg gcgctgattt ttcatcagca agccactcat tatccactga tttttcgtgt
      361 tgctgatcgt cagaaatcga cgatagccac cgctcaaaat cagcaaaagt ttcaaaccca
      421 aaacgcttcc gaagtgcctt acccatttca gcattttctt tctcaatcaa gcgttttttc
      481 tgttggcgaa gtttcgcttg ttcttttttt aatttttctt cttgcgcttt aatatctgct
      541 aaagtcattc ccataaacta catctccttt tctttggaat taataacgga aatttggttt
      601 aactgcataa catgactcat taatttcaac caaaattctt tttctgattc atcagttgtt
      661 tgcgctaaat gcttatgaac aaattcatta gtcaaaactg aagattttgc tagatcagca
      721 ttgataaccg agttgagaac atccataatt cgttcaagca tttcactata attatcttca
      781 tccggcaaat tcaaataatc agctaaccgt tcatacatca attcaattct atcgactgtt
      841 tcttctctca aatcaatttt atccatgtca cacctcactt ccagaattgc caccattttc
      901 gattttttaa ttcttgattt tctagtaaca actgatcgtt tttttgttgc tgaagcaaag
      961 tcaatttttg ttggtcacga atcatttccg ttaattcaga aatatgccta tctttttccg
     1021 ctaattgttc acgcaaaaat tcattttctt tttctaacgg gaaatcattg cctgcatcat
     1081 tgaccggtaa atcaccagtc aattgaccac cttttgaccg ataaattgac cgcacaacac
     1141 caatcaattc cttgtctaac atgataaccc cattatcttt ataccgagca aggtcataac
     1201 ctgcattgac cagttgattg cgcactgtat ttttagatat acccaactca tcagcaaggt
     1261 tttttatggt cattttttct actggattac tcattcagca cctacttccg ttacatcaag
     1321 tccttgaagc catgtgtcta attctttttt taaatcgtct gccgattccg aaaatgtttc
     1381 tcgtaaatga ttcgtcaatt catcattctg actctcttgt tttaacaaat ttcgatattt
     1441 gtatttggtt ggtctagtta accccgacca taaagaatgg tctgacatta aaccagcaat
     1501 cataattcta tctgtatgtt ttgtatctat tggtaaaaag tgtggactag caaaactatc
     1561 caaactttcg tgaaccattg catgccaatc agtggctttc ccacgtcgca actgcaattc
     1621 taaacgccac caagtttcga tttctttcgg aacaattttc cgttttcttt cttgttctaa
     1681 ttttttgtta tacatccgaa tttgacgttc gctggcacga ctgccccaat aagcagtttc
     1741 taacttgcca gaccgaccat aaattggttt aaacgataca ggatcaacca cccgatattg
     1801 ggtaatgaaa tcatctggta cgtcaattat atcgcaagca atatctgcac gtgaaaaatg
     1861 cggctccaaa aataaatcat ggataaaatt cttcatagag ctagctaaaa actgattaat
     1921 tttattcgga ttaaagtcaa ttcgcccttg accttcttga tatttcaaaa tttcaatgta
     1981 agcaatattc tcatcatgct tatccacaat ttgccaacca tttagaccaa cagatttaac
     2041 ataaccatta ttttcattca gtcgcattaa ctgttcaaag tctaaaatca atacatcatt
     2101 ttgagtatga taataaatat tttctttcag ttttccaaca atggtaattc ggtcaattga
     2161 ccaccgtatt ttcaaggggg tgtaaaaagt ttttacattt aaccgcctgt tagatagggc
     2221 tgttaaattt tcccactcat ttacgattat gccattttta ctcaaatttt gttcctcctc
     2281 aaagaaaaag agacttctgg aaagaatttt caaaagttca cgtaactctt aaaaattcat
     2341 taccaaaaaa tctctagtct tgaagaaatc taaaaatatt cgtataatga ttaagaagtt
     2401 acggagctag tgcgattagt ttccgtaaag gtcgagaacg ttggtagcgt tgctcgacta
     2461 tttttttact cttttttcag ttcatttgtt tgctaactca ataatagcac ttctctttag
     2521 ctatgcaaat atccaaaaaa taaaaccgca ccctttgaaa agggcgcccc caaacttcgc
     2581 taacgctagg ttggccaaaa aatggactgg ccatttttta gcaaatgtca gcttaatagg
     2641 ctagtggttt agccgtcaac tccttatcct cggcacaaac cgcctccggt accgttgact
     2701 gcacatcgta actaccactc gatctcatct tcagaacgct ctaatttatg ctgtgagacg
     2761 ttttgacgat aaaataaggt tttctcctgc tctaatactt ctaattcctc agaaagcccc
     2821 atatcctttt ctgcaagccc aaaacggata gacaaacgag tgatcgattt ttgaaatgcg
     2881 ttttttaatc gctctaaacg ctggcgtaaa gagcgatttt cttctttcag ctttttattt
     2941 tccacttgta aatctgctaa ttgttttcta ccagacaaat gacgctcttc ttccaatgca
     3001 gctacatact catttaattc tgtattttgc tcaagcatct gtaaatattg ctcactcatg
     3061 ttatcagcat ttctcttggc atttgttgct ctcgtagctc gttgatacaa atcaacaaaa
     3121 tcattcccag ataaatgata cgaaccatca ggaagcctct tgaaactttc taaaggaacc
     3181 atatcttttt ggaaaatgac cgccatctct ttttttacat tcagcatatt tttcttctct
     3241 tcttcaatct tcgctctctc agaagccatc agagccttat cacgctcgtt ttcttctctt
     3301 tgcctagaaa tatacctcaa ctcatcagaa acgctctcac gctcttttac agccgtttgg
     3361 cgcaattcag aaatttcact catgatttct ttgtattcgt gaatatcttt aattttgttg
     3421 gtaccgacaa tatccctttt ccaaccgtaa tcattcatta atcgttctat agagtcaact
     3481 tcttgatttc taaaattatt gaaaagcact cgaccattat ctttatcagc gtgtatccct
     3541 tgttgaacca gtgctttatt aaagctcggc tgcttttgaa caccccgttt ataaccttca
     3601 gcaaccggca caatattcaa gtgcaggtgc ggacttattt cgtcattatg aataacagca
     3661 ttataaacag ccaaattagg gtttctctct tgaaactcct tgtaatactg aaccaaaatt
     3721 ttattggcaa tcactcgatt ttgttcagct tgttgtttcg atatgccagt agaagaacca
     3781 tctgctcgat ttgtctggaa atcatctaaa atgcctattt gcacaataaa ttctcgttga
     3841 ggttccaact ttttatcctt gcgcactttc gctaaatagt cctcgatttt tctatcggct
     3901 cttttttgtt tcgcattata tttttctacc acttcgccaa acaattcctc atatttatct
     3961 gctagattcg tctgctctaa ataaatattt tcatccgatt tcgtgaagtc aatgtgctta
     4021 tgccaatcat tggttttctg gcgatcagtt aactcacgat tattatgaga aatacttgta
     4081 ttcttcgttc cttttttaaa tgaaatacta aaccccaagt taaaaccctc cttcgcgctg
     4141 tcgctaat
//
