LOCUS       NZ_CP059791             3846 bp    DNA     circular CON 20-SEP-2023
DEFINITION  Enterococcus faecium strain BA17124 plasmid pBA17124_P7, complete
            sequence.
ACCESSION   NZ_CP059791
VERSION     NZ_CP059791.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14675398
            Assembly: GCF_012932975.2
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  JOURNAL   Unpublished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                     :: BA17124
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 78.0x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/20/2023 03:29:58
            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)                     :: 2,905
            CDSs (total)                      :: 2,814
            Genes (coding)                    :: 2,728
            CDSs (with protein)               :: 2,728
            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)              :: 86
            CDSs (without protein)            :: 86
            Pseudo Genes (ambiguous residues) :: 0 of 86
            Pseudo Genes (frameshifted)       :: 36 of 86
            Pseudo Genes (incomplete)         :: 50 of 86
            Pseudo Genes (internal stop)      :: 18 of 86
            Pseudo Genes (multiple problems)  :: 14 of 86
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP059791.1.
            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="BA17124"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pBA17124_P7"
                     /geo_loc_name="India: Vellore"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2018"
                     /collected_by="CMC Vellore"
     gene            join(3543..3846,1..59)
                     /locus_tag="HI828_RS14385"
                     /old_locus_tag="HI828_014385"
     CDS             join(3543..3846,1..59)
                     /locus_tag="HI828_RS14385"
                     /old_locus_tag="HI828_014385"
                     /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            281..1687
                     /locus_tag="HI828_RS14390"
                     /old_locus_tag="HI828_014390"
     CDS             281..1687
                     /locus_tag="HI828_RS14390"
                     /old_locus_tag="HI828_014390"
                     /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            2275..3255
                     /locus_tag="HI828_RS14395"
                     /old_locus_tag="HI828_014395"
     CDS             2275..3255
                     /locus_tag="HI828_RS14395"
                     /old_locus_tag="HI828_014395"
                     /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"
     gene            3242..3490
                     /locus_tag="HI828_RS14400"
                     /old_locus_tag="HI828_014400"
     CDS             3242..3490
                     /locus_tag="HI828_RS14400"
                     /old_locus_tag="HI828_014400"
                     /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"
     Typing          2276..3255
                     /name="rep_cluster_1077"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          282..1684
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.359"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aaagtcagat gagtgagagt aaatttacgt caatatttaa tgacgtgaat ttacgataag
       61 cgattatttt gcgtgaagca aaataaagcg taaaaggagt tgagagcgtg acacgctttc
      121 ggctcctttt ttcgttgtca cttgtgacag cgaataccct cggagagcat ttggaattgt
      181 gacagccatg tcacaattag gaaaatgtta ctctttgaca aagagtaaca gaaaggttta
      241 cactcttttt attagcgaca gcgcgaagga ggggtctaac ttggggttta gtatttcgtt
      301 caaaaaggga acaaagaata caagcatttc tcataataat cgtgagttaa ctgatagcca
      361 aaaaatcaat gactggcata agcatattga tttcacaaaa tcggatgaaa atatctattt
      421 ggaacaaata aatattcgtg aaaaatatga agaattattc ggtgaagccg tagaaaaata
      481 taatgcaaag cagaaaagag ccgatagaaa aatcgaggac tatttagcaa aggttcgcaa
      541 ggataaaaaa atggaaccac agcgagaatt tatcgtgcaa attggtactc ttgatgattt
      601 tcgtactact cgtgatgatg gttcttctac tggcatatcg gaacaacaag cagaacaaaa
      661 tcgagtgatt gccaacaaaa ttttagttga gtatttcaaa gaatttaaag aacggaatcc
      721 tagtttatcc gtctacaatg ctgttattca taatgacgaa gtaagtccgc acctgcattt
      781 gaatattgtt cctgttgctg aagggtataa acggggtgtt caaaagcaac caagttttaa
      841 caaagccttg caacagcagg gtttacgagc agataaagag aatggtcgag tgatttggaa
      901 taattttagg aatcaggaag ttgagtcaat tgaacgtttg atggcagatt ttggttggga
      961 gcgtgagtta gtcggtacta acaaaatcaa agatattcat gaatacaaag aaatcatgag
     1021 cgaaatttcc gaattgcgtc aaacggccgt aaaagagcgt gagagcgttt ctgatgagtt
     1081 gaggtatatt tgtaggcaaa gagaagaaaa cgagcgtgag aaggctctgg tggcttctga
     1141 gagagcgaag attgaagaag agaagaaaaa tatgctgaat gtaaaaaaag agatggcggt
     1201 cattttccaa aaagatatgg ttcctttaga aagtttcaag aggcttcctg atggttcgta
     1261 tcatttatct gggaatgatt ttgttgattt gtatcaacga gctacgagag caacaaatgc
     1321 caagagaaat gctgataaca tgagtgagca atatttacag atgcttgagc aaaatacaga
     1381 attaaatgag tatgtagctg cattggaaga agagcgtcat ttgtctggta gaaaacaatt
     1441 agcagattta caagtggaaa ataaaaagct gaaagaagaa aatcgctctt tacgccagcg
     1501 tttagagcga ttaaaaaacg catttcaaaa atcgatcact cgtttgtcta tccgttttgg
     1561 gcttgcagaa aaggatatgg ggctttctga ggaattagaa gtattagagc aggagaaaac
     1621 cttattttat cgtcaaaacg tctcacagca taaattagag cgttctgaag atgagatcga
     1681 gtggtagtta cgatgtgcag tcaacggtac cggaggcggt ttgtgccgag gataaggagt
     1741 tgacggctaa accactagcc tattaagctg acatttgcta aaaaatggca agtccatttt
     1801 ttggccaact tagcgttagc gaagtttggg ggcgcccttt ttaaagggtg cggttttatg
     1861 tttgcatgac taagaatgag tgggaaaatt taacagccct atctaacagg cggttaaatg
     1921 ttcaaaattt gaacaccccc ctaaaattac agtggtcgat tgatcgaatt ttatgtcttt
     1981 gggttttggg gttttaaaac gaaaaaaagg gggcgatttt cgccctcttt tttgatgttt
     2041 tttcttatct tgatacatag ggtaactatt ttcgggagaa aatcgtgcct atgtatggtc
     2101 ttttcccttg tggctctaag gaagaacaaa aaaaaagatt gctttttctt ccctagtatt
     2161 ttatagtttt aattgactag aaaaaaacta aactagaaag gagagcaatc tattttttgt
     2221 tatcggcttt tcagcctttt ttgtatacaa aatttgtaga ttcagtatag caagatgaaa
     2281 aagaaaaagc aagatttgat taacggaaca tttcgagaaa aaaagagaaa tttaaagaaa
     2341 atcatggcgt tcggtgatgg ccgtatttct ggcaaaacct tggaaaacat gaaagcctgt
     2401 ggatcattca tggagtttat agcaacggtt gacaaggaga agaaaaagat ggttcatggc
     2461 atgttctgta aaaaccgatt ttgtccggtt tgtgcatacc gaaaagcccg taaggacagc
     2521 tatatgctgt ctatcatgat ggaagctatc caagctgaaa aggggtatga atatatcttt
     2581 atgaccctca ccacacccaa tgtgcctgcg gataaattat ccgaagaaat tgatcgtttc
     2641 aacaaagcgc tgtcgaagct gtttcggcga aaaagggtga caacttcaat caagggctat
     2701 gtgcgaaaat tggaaatcac gtacaacaaa aaacggaatg actataaccc gcattttcac
     2761 ttgattttgg cagtaaataa atcttatttc acggataaag attattatat caagcaatcg
     2821 gaatggttag atttgtggcg ggatgtcacc ggtttggatg gcattaacga ggatggcacc
     2881 gatgaaattt gttcgttgga tgtccgcaag gtcaaaggat tccaacaaga caaagcggta
     2941 tcggaaattg ccaaatattc tgccaaagat tttgaaataa cctattccca agatgttttt
     3001 gacacgttct attttgctat gaaaggtcgt cagctgatga ctttcaatgg cgtgttcaag
     3061 gagtacagga aaaaatacga gagtggcgaa ctcgatcact acaagaaaaa agatgaaaac
     3121 gactatttct ggttcttgac tgctagctgg atgcaaaagg atgccaatta ctcggtggcc
     3181 gttcgtgagt tgacggatga tgagaagaaa ttctttgcgg aacgctatga taaggagggt
     3241 gatgaaactg gataagcaaa ggctatatga agcggtgaaa gataattgta attgtggcgg
     3301 aaatcgtcag ctttttaagg ctatgatggt gactgtttat cgtcggttgg atggggaaaa
     3361 tgctgagaca gctgtggaaa atgcttattt tcaagtgttc ggtgaacacc atagccctga
     3421 atgggatcgt gctattcttg atgatatggc ggaaatgcac gagaaattgt ggagggcgct
     3481 aaatgactaa tcaaattggt gttatttata gggatgaatc taagggtaag gagttgtaat
     3541 tcatgggagt aactttagct gatattaaag cacaagaaga aaaattgaaa aaagagcagg
     3601 caaaacttcg ccaacagaaa aagcgattga ttgagaagga aaatgctgaa atgggcaagg
     3661 cgcttcgcaa gcattttggg tttgaatctt ttgctgattt tgagcggtgg ctatcgtcga
     3721 tttctgacga tcagcaacac gaaaaatcag tggataatga gtggcttgct gatgaaaaat
     3781 cagcgccaag cgaacgagat tatcccgatg aatctgacgg cttattcgga gtgataccga
     3841 ataaga
//
