LOCUS       NZ_CP059790             4465 bp    DNA     circular CON 20-SEP-2023
DEFINITION  Enterococcus faecium strain BA17124 plasmid pBA17124_P6, complete
            sequence.
ACCESSION   NZ_CP059790
VERSION     NZ_CP059790.1
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 4465)
  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  JOURNAL   Unpublished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 4465)
  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 4465)
  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
            CP059790.1.
            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..4465
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="BA17124"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pBA17124_P6"
                     /geo_loc_name="India: Vellore"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2018"
                     /collected_by="CMC Vellore"
     gene            complement(join(4185..4465,1..643))
                     /locus_tag="HI828_RS14365"
                     /old_locus_tag="HI828_014365"
     CDS             complement(join(4185..4465,1..643))
                     /locus_tag="HI828_RS14365"
                     /old_locus_tag="HI828_014365"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002296860.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     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 protein"
                     /protein_id="WP_002351085.1"
                     /translation="MANEIVKYENRLNHIPLRKFNSREMNLFFSIASRVREKGVDEIIF
                     SFHDLKKLSGYTERGEQFIKDLSSTYDKLLSINAWNDDGNTLTKFVAFTKYSIIRDKQL
                     VIISVNPEFKGLFNQLKNWTRFNLEQFTNLDSTYSKTMFRLLKQYRTQGWTEFSKEKFF
                     DLLDIPKSYWNSPSNIDKFILRPIKEELTPLFKGLTIRKKYGKGRGKPVIGYRFTWKAE
                     INHADDFSKGKQEDLRIKLFNIDHNGELTREEKWRAKDRILNLPLGTHEADFKQQQQTE
                     EKQAEKRELSNKLKQDLLGNLQNLFD"
                     /name="replication initiation protein"
     gene            complement(1933..2367)
                     /gene="bacA"
                     /locus_tag="HI828_RS14370"
                     /old_locus_tag="HI828_014370"
     CDS             complement(1933..2367)
                     /gene="bacA"
                     /locus_tag="HI828_RS14370"
                     /old_locus_tag="HI828_014370"
                     /inference="COORDINATES: protein motif:HMM:NF041453.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="bacteriocin 51 precursor BacA"
                     /protein_id="WP_002351079.1"
                     /translation="MKNKIIKIITCLFLFGMIVGASTPLNLFPFSARGIKVEAASSRYN
                     HNHRGFTCYKMNYYVTNKMCRDLKKNYNKLKTPAQIASFIPIGGVGTWVITNAFSSAVD
                     AMNVFVRAANQGKGVQLTYNAHFSNTTSYQYNDYARYVIK"
                     /name="bacA"
     gene            complement(2772..2945)
                     /locus_tag="HI828_RS14375"
                     /old_locus_tag="HI828_014375"
     CDS             complement(2772..2945)
                     /locus_tag="HI828_RS14375"
                     /old_locus_tag="HI828_014375"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002341717.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_010729871.1"
                     /translation="MLKKTVLVLGSISLGILGFSPMLLSVIGKNNSNGELKLNSNYYNS
                     PNEELFVKETDK"
                     /name="hypothetical protein"
     gene            complement(3630..4169)
                     /locus_tag="HI828_RS14380"
                     /old_locus_tag="HI828_014380"
     CDS             complement(3630..4169)
                     /locus_tag="HI828_RS14380"
                     /old_locus_tag="HI828_014380"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016616811.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF536 domain-containing protein"
                     /protein_id="WP_002351084.1"
                     /translation="MADKTIKELAEELGVSKTAINKKVSDKNRKLWFAKNGNKFVINET
                     GQKAIKSMFLVDNANLNRKLVGEKSKTKNHKNTNQVSELKLLSFLEKQLNRKDIQLQEK
                     DNQIKQMQKLLDQQQQLTLQANQQIENLQEQLHLTYTEETPTTESTAFSEKKADNTQPL
                     IEKKWWQIWKSNRTNL"
                     /name="DUF536 domain-containing protein"
     Typing          complement(4186..4465)
                     /name="rep_cluster_1291"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.86e-144"
ORIGIN
        1 aaccgataac aggtttacct cgacctttac catatttttt acgaatagtt aatcctttaa
       61 ataagggagt gagttcttct ttaattggcc ttaagataaa tttgtcaata tttgacggac
      121 tattccaata acttttagga atatctagta aatcaaaaaa tttttctttg gaaaattcag
      181 tccagccttg agttcgatat tgttttaata atcgaaacat agtttttgaa tatgtgctat
      241 ccaaattagt aaattgctct agattaaatc ttgtccagtt ctttaattga ttaaaaagtc
      301 ctttaaattc tggattaact gaaattataa caagttgttt atctcgtata atgctatatt
      361 ttgtgaaagc aacaaattta gttaaagtat ttccatcatc attccaagca ttaatactta
      421 ataatttgtc atacgtgcta ctaagatctt ttataaattg ttccccacgt tctgtataac
      481 cgcttagttt tttcaaatcg tgaaatgaaa aaataatctc atctacacct ttttcacgta
      541 cacgtgaagc aattgaaaaa aataagttca tttcacgact attaaatttt ctcagaggaa
      601 tatgatttaa tctattttca tattttacaa tttcatttgc cataagcttc tcctactttt
      661 ataaagtatg aaataaaagt aacatacttt ataaaaatac tcaataatgt cggaaaacct
      721 acttgaaaag cgtagaaaac ctacttgaaa agcgtagaaa acctacttga aaagcgtaga
      781 aaacctactt gaaaaaactc tgaattgctt gggagagtaa ggacacagcc gacataaaag
      841 agatataaaa agagatataa aaagagatat aaaaagaggg gaggctaatt ttcccgccta
      901 aaaaatcact ccttttttct ctaaacaggt tcgcgaattt atcaaaactg ccaattccaa
      961 accttgctcc ctacggttcg ctaaaaaggt gtgatcgctc tgctctcaca ttatactgcg
     1021 cagtcgcctc cggctccttt gctaaaagcc gttcataagg aaccctttga gaagctctga
     1081 gcgttcgttt aagacatttt aagacagtcc tagtataaat cccttatctt gttcttaaaa
     1141 cgccttacag gcggtcaggg caagccctaa caaccctaaa attgtctaaa tgccctctaa
     1201 aattcgattt aagcactctc aaacctattc ttatatattt atatacttag gcgtttcaaa
     1261 cgtcttaaaa cgcaaattag agcttgataa agatatttgc tcgtgtgcct agacttttaa
     1321 aaaagtcggc acacgccatg acaaagctga aataaactgc ttcagctttg tcatggcgga
     1381 ttcgctcact tgaaaaagtg tttatttcgc tcgattatta gcatatattt tttagctttt
     1441 ttgctagcca aattttgcat taatttgctc ataagtccca ccctttcagt acgtcctacg
     1501 gacgtatcgt tcgtaatgtg aaagtacctt taaaggtact ttctacaaaa ctcactaaaa
     1561 gggtttggca agctctatat ttgctagcca aatacctccg tatttggtgc aaataaccgc
     1621 ttgtcaaagg ggcgcaagct cccccttgaa tccccctcaa aacccacgct ccacaataca
     1681 aaaagtggct agaaaatgct agccactttt tgtaaaattt agtatgattt atttttagct
     1741 atttagagtt tttatttccg taaatacttc taaaaattgc taagataaat gctataggaa
     1801 ttagataaag aatacttttt tgtaagctta tattgaaaat tagcctaaat atgaagaaca
     1861 tagtgattaa aactattatt gaaataatta cagctaaaat ctttttattc atgagatagt
     1921 ttcactttct gattatttta ttacataacg agcgtaatca ttgtattgat atgatgttgt
     1981 attgctaaag tgagcattat atgttaattg tacacctttt ccttgatttg cagctcttac
     2041 aaagacattc attgcatcaa cagcactact aaaagcattt gtaataaccc atgttccaac
     2101 tccaccaata ggaataaaag atgcaatttg agcaggagtc tttagcttat tataattttt
     2161 tttcaaatct ctacacattt tattagtaac ataatagttc attttatagc aagtaaatcc
     2221 acgatgatta tgattatatc gtgaacttgc agcttccact tttatacctc tagcactaaa
     2281 aggaaacaga tttaacggag tacttgctcc aacaatcata ccgaacaaaa atagacaagt
     2341 aataatttta ataattttat ttttcattgt tacttcctcc ttagatataa aatcctagga
     2401 aagcgctttc tgtatatatt tagaataatc agaaaattaa atattgtcaa gagggtttat
     2461 tttataaaac gtgttatttt aaaggttagt agacataatg tgtactatgc caagtagcct
     2521 ctctaccaag ggatacaggg gctcactttg tgattttcga ttggtctaag tcaaaagctc
     2581 tttttaaggc ttgattttct gcagttgctt ctttccgttt ctttgtgaat ttttaccagt
     2641 cattttttac tggggtgtta tttttcataa aatatgataa atttttggta gcgcttcata
     2701 agcgcgttgc tttttcaaga ataaacactc attatttttt aactggctgc tcgaaagagc
     2761 agtctttttt attatttatc cgtctctttt acaaacaatt cttcgttagg actgttgtaa
     2821 taatttgaat ttaatttaag ttctccgttg gaattgtttt ttccaattac ggataatagc
     2881 atggggctaa aacctaatat tcctagagaa atagaaccca gtaccaacac agtttttttt
     2941 aacataggtt atacctccac tttttttaac gctaccactt gtatacacat tttaaatact
     3001 agccttcagt ttatcaaatg tttaaattga acggatataa atcaaaatta aattttcaaa
     3061 agttgttcta aaaaattttt cttttttgga agttactcta actttttttg cttgtggtgc
     3121 ttggtatgtt ttcttcgccg accgtttagg ttcttgacca ttttctctta taagtgggat
     3181 ttttaccacg ttgagagaaa atggtcaaga acctgggagg cggagaatgc ccttaatacc
     3241 aagcaccgca agcctttccc atactttatt cgatgatccc acgatgatct cataatgatt
     3301 ctacaatgac cctacgatga tcaaaattct caaaaaaaat aaacgaaatt tcaaacgatt
     3361 tttttgaaat tttgttaaaa tcacatttgt ttttttatga ctttttcaac aaaatcgatt
     3421 agaatttatt ttgtttttcc accaaaaatt gagtgagatt tcaacctatt ttaagcaata
     3481 agtcaccata tagtttgata gtttacaact ataaacattg attgtttaca gttgtaaact
     3541 attttttctt tctcataaaa atttgagtga tctccccatc aggtagtaca actttttcct
     3601 ctactatccg aactaacttc tagaaaattt tagagattgg ttctattaga tttccaaatt
     3661 tgccaccact ttttttcaat aagtggttgt gtattgtctg cttttttttc agaaaaggca
     3721 gttgattcgg ttgttggagt ttcttctgta taagttaaat ggagctgttc ttgtaggttc
     3781 tcaatttgtt ggttcgcttg tagagtgagt tgttgttgct ggtcgagtaa tttttgcatt
     3841 tgttttattt gattatcttt ttcttgtagc tgtatatctt ttcgatttaa ctgtttttct
     3901 aggaaagaaa ggagttttaa ttcggaaact tggttggtgt ttttatggtt tttggttttt
     3961 gatttttcgc caactagttt tcgatttaag tttgcgttat cgactaaaaa cattgatttt
     4021 atagcttttt gaccggtttc gttaatcaca aacttgtttc cgttttttgc aaaccaaagt
     4081 tttcgatttt tgtcagaaac ttttttgtta attgctgttt tactaactcc taattcttcc
     4141 gcaagttctt tgattgtttt atctgccata aatactcctt aagcttaatc gaataagttt
     4201 tgtaaatttc ctagtaaatc ttgtttgagt ttgtttgaaa gttctcgttt ttctgcctgt
     4261 ttttcttcag tttgttgttg ttgtttaaaa tcagcttcat gagtgcctaa gggaagattt
     4321 agtattcgat ctttagcgcg ccatttttct tctcgtgtta attctccatt gtgatcaata
     4381 ttaaataatt ttatacgtaa atcttcttgt ttccctttgg aaaaatcgtc agcatggtta
     4441 atttcagctt tccaagtaaa acgat
//
