LOCUS       NZ_CP059754             2056 bp    DNA     circular CON 03-OCT-2023
DEFINITION  Enterococcus faecium strain A7214 plasmid pA7214_P7, complete
            sequence.
ACCESSION   NZ_CP059754
VERSION     NZ_CP059754.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14675388
            Assembly: GCF_012933165.2
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 2056)
  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  JOURNAL   Unpublished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 2056)
  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 2056)
  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                     :: A7214
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 95.82x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 10/03/2023 03:40:33
            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)                     :: 3,080
            CDSs (total)                      :: 2,987
            Genes (coding)                    :: 2,866
            CDSs (with protein)               :: 2,866
            Genes (RNA)                       :: 93
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 71
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 121
            CDSs (without protein)            :: 121
            Pseudo Genes (ambiguous residues) :: 0 of 121
            Pseudo Genes (frameshifted)       :: 48 of 121
            Pseudo Genes (incomplete)         :: 68 of 121
            Pseudo Genes (internal stop)      :: 33 of 121
            Pseudo Genes (multiple problems)  :: 24 of 121
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP059754.1.
            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..2056
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="A7214"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pA7214_P7"
                     /geo_loc_name="India: Vellore"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2019"
                     /collected_by="CMC Vellore"
     gene            complement(join(1757..2056,1..303))
                     /locus_tag="HI844_RS15220"
                     /old_locus_tag="H4J16_015220"
     CDS             complement(join(1757..2056,1..303))
                     /locus_tag="HI844_RS15220"
                     /old_locus_tag="H4J16_015220"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002323513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication protein"
                     /protein_id="WP_002323513.1"
                     /translation="MTSRKTKDERTRNWTFVVYPESAPENWREFLDELHVPWVESPLHD
                     KDVNPDGELKKPHWHVLIMFSGKKTYDQIREITQKLRSPNPQKCANAKGMVRYFAHMDN
                     PEKFQYAKSDIIAHGGAEIASYLSVTSAERYELIREMMSFVDSKNITEIKDLIDYAMSE
                     RFDDWFPLLCDNSAYIIGQYIKSNRHGGSVNSKINKG"
                     /name="replication protein"
     gene            complement(370..525)
                     /locus_tag="HI844_RS15225"
                     /old_locus_tag="H4J16_015225"
     CDS             complement(370..525)
                     /locus_tag="HI844_RS15225"
                     /old_locus_tag="H4J16_015225"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002299939.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="CopG family transcriptional regulator"
                     /protein_id="WP_002299939.1"
                     /translation="MISNEKKRVVVTLTKEVADNLDKIAKQMGLSKSGLITIWVNANGK
                     ENEQKK"
                     /name="CopG family transcriptional regulator"
     gene            1142..1363
                     /locus_tag="HI844_RS15230"
                     /old_locus_tag="H4J16_015230"
     CDS             1142..1363
                     /locus_tag="HI844_RS15230"
                     /old_locus_tag="H4J16_015230"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002299940.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002299940.1"
                     /translation="MRVIKSEKFTLAEIMTTSELAQELDYNQAYVLRLAKEHLTEGKEY
                     RSAGRRNYLFSPEALKKLEKVITTKEGE"
                     /name="hypothetical protein"
     gene            1364..1621
                     /locus_tag="HI844_RS15235"
                     /old_locus_tag="H4J16_015235"
     CDS             1364..1621
                     /locus_tag="HI844_RS15235"
                     /old_locus_tag="H4J16_015235"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002377879.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002299941.1"
                     /translation="MPKETTINVEQLEKLLESYSNDFIELTGGKVEETTDLFDLLLTNI
                     LELNSEEQKEHKGKLIAPSYRKVAKSAVPTGFLTKQPYIF"
                     /name="hypothetical protein"
     Typing          1524..1699
                     /name="MOBV"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.01e-87"
     Typing          complement(1830..2056)
                     /name="rep_cluster_2351"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="96.0"
                     /evalue="3.15e-115"
ORIGIN
        1 atgagcaaaa tatcgcacca taccttttgc attagcacat ttttgcgggt ttggagaccg
       61 aagcttttga gttatctcac gtatttgatc atacgtcttt ttaccgctaa acattatcaa
      121 aacatgccaa tgaggctttt tcaattcacc gtcaggattc acatctttat catgaagtgg
      181 actctcaacc caaggaacat gtaactcatc taaaaactcc ctccaatttt caggagccga
      241 ttcaggatag actacaaacg tccaattcct tgtgcgttca tctttagttt ttctactcgt
      301 catgctataa ttaccttaat tgaacaacag tctaacagca aaagcagtgc gccaacacta
      361 atgcttttgc tatttttttt gctcattttc ctttccgtta gcattaaccc aaattgtaat
      421 aagaccagac ttactaagac ccatttgttt cgcaatttta tcaagattat ctgccacttc
      481 cttagtaagc gttacaacga ctctcttttt ttcattactg atcataattc gtatcctcca
      541 acgacttttt cttaaaaacc atagtaacaa aaaagtaact aaggtgcaac agtttagata
      601 ctaattagcg aataataggc cttaaaccct tggcattact gattttgtca aaaaaaaacg
      661 ctgaaaccct tgggagagta aggctaaaca gctatcgacc aatgaccaat gaccaataag
      721 gggggtgtcg tagtcccccc ctcctccgcc caattcataa acaccaaaac caaaaaacaa
      781 acctcagggc tccgccccga accccgacct ccttctaccg aaatatatgc aggcgccacg
      841 cttactattt cgttcagcta tcggcttttg caatctaaca cgaccgtttc gctaccagtc
      901 gccttacagg ctccattctc gcttctctta cgtgttttaa cgattgcgcc gataactaaa
      961 cgaaatagac gctaaatcgc ttaaaacgca aaatagaccc tttttagagc attgattttt
     1021 tctactagtc atttcgataa tataaaattg accacaacac agaaaactta tattataagc
     1081 ttatgtcgta agtccgacgt actcacgtaa tatagacgga cgttaaatgg aaggagcata
     1141 aatgagagtg ataaaatcag aaaaattcac tttggccgaa attatgacga ccagcgaact
     1201 tgcacaagaa cttgattaca accaagctta cgttttgcgc ttagcgaaag aacatctgac
     1261 tgaaggaaaa gaatatcgct ctgccggtag aagaaactat cttttcagcc cagaagccct
     1321 taaaaaacta gaaaaagtca taaccaccaa agaaggtgag taaatgccta aagaaacaac
     1381 tatcaacgtt gaacaactag aaaaattgct agaatcatat tccaatgatt ttatcgaatt
     1441 gaccggcgga aaagtcgaag aaaccaccga cctctttgac ctacttctca caaatattct
     1501 ggaattaaac tctgaagaac aaaaagagca taagggaaaa ctgatagcac cttcctacag
     1561 gaaggtggct aagtcggctg tgccaactgg ttttcttaca aaacaacctt atattttttg
     1621 atatcacaaa aaaatccatt ttggacctat tttcggtcat aatatagtac ctacttttgg
     1681 tcatagtttc gtccgtagtt ttggtcatag tgactaagac tttcacgcac aaaaaaagag
     1741 ctgaaattaa cagctcttat cctttattta tttttgaatt tacacttcca ccatgacgat
     1801 tcgattttat atattgcccg ataatataag ctgaattatc acaaagaagc ggaaaccaat
     1861 catcaaatct ttctgacatt gcatagtcaa ttaaatcttt gatttcagtg atattcttag
     1921 aatcaacaaa cgacatcatc tctctaatca actcatatcg ttctgcactc gttactgaca
     1981 aataactagc aatttctgca ccaccatgag cgataatatc acttttagca tattgaaatt
     2041 tttctggatt atccat
//
