LOCUS       NZ_CP059814             3846 bp    DNA     circular CON 20-SEP-2023
DEFINITION  Enterococcus faecium strain BP5067 plasmid pBP5067_P8, complete
            sequence.
ACCESSION   NZ_CP059814
VERSION     NZ_CP059814.1
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 3846)
  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  JOURNAL   Unpublished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 3846)
  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 3846)
  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
            CP059814.1.
            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..3846
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="BP5067"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pBP5067_P8"
                     /geo_loc_name="India: Vellore"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2017"
                     /collected_by="CMC Vellore"
     gene            complement(join(2663..3846,1..223))
                     /locus_tag="HI834_RS14315"
                     /old_locus_tag="HI834_014315"
     CDS             complement(join(2663..3846,1..223))
                     /locus_tag="HI834_RS14315"
                     /old_locus_tag="HI834_014315"
                     /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_002304901.1"
                     /translation="MGFSISFKKGTKNTSISHNNRELTDSQKINDWHKHIDFTKSDENI
                     YLEQINIREKYEELFGEAVEKYNAKQKRADRKIEDYLAKVRKDKKMEPQREFIVQIGTL
                     DDFRTTRDDGSSTGISEQQAEQNRVIANKILVEYFKEFKERNPSLSVYNAVIHNDEVSP
                     HLHLNIVPVAEGYKRGVQKQPSFNKALQQQGLRADKENGRVIWNNFRNQEVESIERLMA
                     DFGWERELVGTNKIKDIHEYKEIMSEISELRQTAVKERESVSDELRYICRQREENEREK
                     ALVASERAKIEEEKKNMLNVKKEMAVIFQKDMVPLESFKRLPDGSYHLSGNDFVDLYQR
                     ATRATNAKRNADNMSEQYLQMLEQNTELNEYVAALEEERHLSGRKQLADLQVENKKLKE
                     ENRSLRQRLERLKNAFQKSITRLSIRFGLAEKDMGLSEELEVLEQEKTLFYRQNVSQHK
                     LERSEDEIEW"
                     /name="plasmid recombination protein"
     gene            complement(445..807)
                     /locus_tag="HI834_RS14320"
                     /old_locus_tag="HI834_014320"
     CDS             complement(445..807)
                     /locus_tag="HI834_RS14320"
                     /old_locus_tag="HI834_014320"
                     /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_002318183.1"
                     /translation="MGVTLADIKAQEEKLKKEQAKLRQQKKRLIEKENAEMGKALRKHF
                     GFESFADFERWLSSISDDQQHEKSVDNEWLADEKSAPSERDYPDESDGLFGVIPNKKSQ
                     MSESKFTSIFNDVNLR"
                     /name="hypothetical protein"
     gene            complement(860..1108)
                     /locus_tag="HI834_RS14325"
                     /old_locus_tag="HI834_014325"
     CDS             complement(860..1108)
                     /locus_tag="HI834_RS14325"
                     /old_locus_tag="HI834_014325"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002323248.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002323248.1"
                     /translation="MKLDKQRLYEAVKDNCNCGGNRQLFKAMMVTVYRRLDGENAETAV
                     ENAYFQVFGEHHSPEWDRAILDDMAEMHEKLWRALND"
                     /name="hypothetical protein"
     gene            complement(1095..2075)
                     /locus_tag="HI834_RS14330"
                     /old_locus_tag="HI834_014330"
     CDS             complement(1095..2075)
                     /locus_tag="HI834_RS14330"
                     /old_locus_tag="HI834_014330"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002355134.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_014387154.1"
                     /translation="MKKKKQDLINGTFREKKRNLKKIMAFGDGRISGKTLENMKACGSF
                     MEFIATVDKEKKKMVHGMFCKNRFCPVCAYRKARKDSYMLSIMMEAIQAEKGYEYIFMT
                     LTTPNVPADKLSEEIDRFNKALSKLFRRKRVTTSIKGYVRKLEITYNKKRNDYNPHFHL
                     ILAVNKSYFTDKDYYIKQSEWLDLWRDVTGLDGINEDGTDEICSLDVRKVKGFQQDKAV
                     SEIAKYSAKDFEITYSQDVFDTFYFAMKGRQLMTFNGVFKEYRKKYESGELDHYKKKDE
                     NDYFWFLTASWMQKDANYSVAVRELTDDEKKFFAERYDKEGDETG"
                     /name="protein rep"
     Typing          complement(1096..2075)
                     /name="rep_cluster_1077"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(3..223)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.297"
                     /coverage="95.0"
                     /evalue="1.79e-40"
     Typing          complement(2667..3844)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.491"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 cggctctttt ctgctttgca ttatattttt ctacggcttc accgaataat tcttcatatt
       61 tttcacgaat atttatttgt tccaaataga tattttcatc cgattttgtg aaatcaatat
      121 gcttatgcca gtcattgatt ttttggctat cagttaactc acgattatta tgagaaatgc
      181 ttgtattctt tgttcccttt ttgaacgaaa tactaaaccc caagttagac ccctccttcg
      241 cgctgtcgct aataaaaaga gtgtaaacct ttctgttact ctttgtcaaa gagtaacatt
      301 ttcctaattg tgacatggct gtcacaattc caaatgctct ccgagggtat tcgctgtcac
      361 aagtgacaac gaaaaaagga gccgaaagcg tgtcacgctc tcaactcctt ttacgcttta
      421 ttttgcttca cgcaaaataa tcgcttatcg taaattcacg tcattaaata ttgacgtaaa
      481 tttactctca ctcatctgac ttttcttatt cggtatcact ccgaataagc cgtcagattc
      541 atcgggataa tctcgttcgc ttggcgctga tttttcatca gcaagccact cattatccac
      601 tgatttttcg tgttgctgat cgtcagaaat cgacgatagc caccgctcaa aatcagcaaa
      661 agattcaaac ccaaaatgct tgcgaagcgc cttgcccatt tcagcatttt ccttctcaat
      721 caatcgcttt ttctgttggc gaagttttgc ctgctctttt ttcaattttt cttcttgtgc
      781 tttaatatca gctaaagtta ctcccatgaa ttacaactcc ttacccttag attcatccct
      841 ataaataaca ccaatttgat tagtcattta gcgccctcca caatttctcg tgcatttccg
      901 ccatatcatc aagaatagca cgatcccatt cagggctatg gtgttcaccg aacacttgaa
      961 aataagcatt ttccacagct gtctcagcat tttccccatc caaccgacga taaacagtca
     1021 ccatcatagc cttaaaaagc tgacgatttc cgccacaatt acaattatct ttcaccgctt
     1081 catatagcct ttgcttatcc agtttcatca ccctccttat catagcgttc cgcaaagaat
     1141 ttcttctcat catccgtcaa ctcacgaacg gccaccgagt aattggcatc cttttgcatc
     1201 cagctagcag tcaagaacca gaaatagtcg ttttcatctt ttttcttgta gtgatcgagt
     1261 tcgccactct cgtatttttt cctgtactcc ttgaacacgc cattgaaagt catcagctga
     1321 cgacctttca tagcaaaata gaacgtgtca aaaacatctt gggaataggt tatttcaaaa
     1381 tctttggcag aatatttggc aatttccgat accgctttgt cttgttggaa tcctttgacc
     1441 ttgcggacat ccaacgaaca aatttcatcg gtgccatcct cgttaatgcc atccaaaccg
     1501 gtgacatccc gccacaaatc taaccattcc gattgcttga tataataatc tttatccgtg
     1561 aaataagatt tatttactgc caaaatcaag tgaaaatgcg ggttatagtc attccgtttt
     1621 ttgttgtacg tgatttccaa ttttcgcaca tagcccttga ttgaagttgt cacccttttt
     1681 cgccgaaaca gcttcgacag cgctttgttg aaacgatcaa tttcttcgga taatttatcc
     1741 gcaggcacat tgggtgtggt gagggtcata aagatatatt catacccctt ttcagcttgg
     1801 atagcttcca tcatgataga cagcatatag ctgtccttac gggcttttcg gtatgcacaa
     1861 accggacaaa atcggttttt acagaacatg ccatgaacca tctttttctt ctccttgtca
     1921 accgttgcta taaactccat gaatgatcca caggctttca tgttttccaa ggttttgcca
     1981 gaaatacggc catcaccgaa cgccatgatt ttctttaaat ttctcttttt ttctcgaaat
     2041 gttccgttaa tcaaatcttg ctttttcttt ttcatcttgc tatactgaat ctacaaattt
     2101 tgtatacaaa aaaggctgaa aagccgataa caaaaaatag attgctctcc tttctagttt
     2161 agtttttttc tagtcaatta aaactataaa atactaggga agaaaaagca atcttttttt
     2221 ttgttcttcc ttagagccac aagggaaaag accatacata ggcacgattt tctcccgaaa
     2281 atagttaccc tatgtatcaa gataagaaaa aacatcaaaa aagagggcga aaatcgcccc
     2341 ctttttttcg ttttaaaacc ccaaaaccca aagacataaa attcgatcaa tcgaccactg
     2401 taattttagg ggggtgttca aattttgaac atttaaccgc ctgttagata gggctgttaa
     2461 attttcccac tcattcttag tcatgcaaac ataaaaccgc accctttaaa aagggcgccc
     2521 ccaaacttcg ctaacgctaa gttggccaaa aaatggactt gccatttttt agcaaatgtc
     2581 agcttaatag gctagtggtt tagccgtcaa ctccttatcc tcggcacaaa ccgcctccgg
     2641 taccgttgac tgcacatcgt aactaccact cgatctcatc ttcagaacgc tctaatttat
     2701 gctgtgagac gttttgacga taaaataagg ttttctcctg ctctaatact tctaattcct
     2761 cagaaagccc catatccttt tctgcaagcc caaaacggat agacaaacga gtgatcgatt
     2821 tttgaaatgc gttttttaat cgctctaaac gctggcgtaa agagcgattt tcttctttca
     2881 gctttttatt ttccacttgt aaatctgcta attgttttct accagacaaa tgacgctctt
     2941 cttccaatgc agctacatac tcatttaatt ctgtattttg ctcaagcatc tgtaaatatt
     3001 gctcactcat gttatcagca tttctcttgg catttgttgc tctcgtagct cgttgataca
     3061 aatcaacaaa atcattccca gataaatgat acgaaccatc aggaagcctc ttgaaacttt
     3121 ctaaaggaac catatctttt tggaaaatga ccgccatctc tttttttaca ttcagcatat
     3181 ttttcttctc ttcttcaatc ttcgctctct cagaagccac cagagccttc tcacgctcgt
     3241 tttcttctct ttgcctacaa atatacctca actcatcaga aacgctctca cgctctttta
     3301 cggccgtttg acgcaattcg gaaatttcgc tcatgatttc tttgtattca tgaatatctt
     3361 tgattttgtt agtaccgact aactcacgct cccaaccaaa atctgccatc aaacgttcaa
     3421 ttgactcaac ttcctgattc ctaaaattat tccaaatcac tcgaccattc tctttatctg
     3481 ctcgtaaacc ctgctgttgc aaggctttgt taaaacttgg ttgcttttga acaccccgtt
     3541 tatacccttc agcaacagga acaatattca aatgcaggtg cggacttact tcgtcattat
     3601 gaataacagc attgtagacg gataaactag gattccgttc tttaaattct ttgaaatact
     3661 caactaaaat tttgttggca atcactcgat tttgttctgc ttgttgttcc gatatgccag
     3721 tagaagaacc atcatcacga gtagtacgaa aatcatcaag agtaccaatt tgcacgataa
     3781 attctcgctg tggttccatt tttttatcct tgcgaacctt tgctaaatag tcctcgattt
     3841 ttctat
//
