LOCUS       NZ_CP059803             2056 bp    DNA     circular CON 20-SEP-2023
DEFINITION  Enterococcus faecium strain BP3378 plasmid pBP3378_P10, complete
            sequence.
ACCESSION   NZ_CP059803
VERSION     NZ_CP059803.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14675393
            Assembly: GCF_012933055.2
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 2056)
  AUTHORS   Veeraraghavan,B.
  TITLE     Complete genome of vancomycin resistant Enterococcus faecium
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2056)
  AUTHORS   Veeraraghavan,B.
  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                     :: BP3378
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 42.82x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/20/2023 03:40:36
            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)                     :: 3,196
            CDSs (total)                      :: 3,103
            Genes (coding)                    :: 2,981
            CDSs (with protein)               :: 2,981
            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)              :: 122
            CDSs (without protein)            :: 122
            Pseudo Genes (ambiguous residues) :: 0 of 122
            Pseudo Genes (frameshifted)       :: 40 of 122
            Pseudo Genes (incomplete)         :: 74 of 122
            Pseudo Genes (internal stop)      :: 28 of 122
            Pseudo Genes (multiple problems)  :: 17 of 122
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP059803.1.
            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="BP3378"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pBP3378_P10"
                     /geo_loc_name="India: Vellore"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2019"
                     /collected_by="CMC Vellore"
     gene            join(1853..2056,1..399)
                     /locus_tag="HI838_RS15825"
                     /old_locus_tag="HI838_015825"
     CDS             join(1853..2056,1..399)
                     /locus_tag="HI838_RS15825"
                     /old_locus_tag="HI838_015825"
                     /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_010729575.1"
                     /translation="MTSRKTKDERTRNWTFVVYPESAPENWREFLDELHVPWVESPLHD
                     KDVNPDGELKKPHWHVLIMFSGKKTYDQIREITQKIRSPNPQKCANAKGMVRYFAHMDN
                     PEKFQYAKSDIIAHGGAEIASYLSVTSAERYELIREMMSFVDSKNITEIKDLIDYAMSE
                     RFDDWFPLLCDNSAYIIGQYIKSNRHGGSVNSKINKG"
                     /name="replication protein"
     gene            complement(535..792)
                     /locus_tag="HI838_RS15830"
                     /old_locus_tag="HI838_015830"
     CDS             complement(535..792)
                     /locus_tag="HI838_RS15830"
                     /old_locus_tag="HI838_015830"
                     /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_002377879.1"
                     /translation="MPKETTINVEQLEKLLESYSNDFIELTGGKVEETTDLFDLLLTNI
                     LELNSEEQKEHKGKLIAPSYRKAAKSAVPTGFLTKQPYIF"
                     /name="hypothetical protein"
     gene            complement(793..1014)
                     /locus_tag="HI838_RS15835"
                     /old_locus_tag="HI838_015835"
     CDS             complement(793..1014)
                     /locus_tag="HI838_RS15835"
                     /old_locus_tag="HI838_015835"
                     /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            1631..1786
                     /locus_tag="HI838_RS15840"
                     /old_locus_tag="HI838_015840"
     CDS             1631..1786
                     /locus_tag="HI838_RS15840"
                     /old_locus_tag="HI838_015840"
                     /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"
     Typing          complement(458..633)
                     /name="MOBV"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.01e-87"
     Typing          1854..2056
                     /name="rep_cluster_2351"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="96.0"
                     /evalue="6.91e-102"
ORIGIN
        1 aagacgtatg atcaaatacg tgagataact caaaagattc ggtctccaaa cccgcaaaaa
       61 tgtgctaatg caaaaggtat ggtgcgatat tttgctcata tggataatcc agaaaaattt
      121 caatatgcta aaagtgatat tatcgctcat ggtggtgcag aaattgctag ttatttgtca
      181 gtaacgagtg cagaacgata tgagttgatt agagagatga tgtcgtttgt tgattctaag
      241 aatatcactg aaatcaaaga tttaattgac tatgcaatgt cagaaagatt tgatgattgg
      301 tttccgcttc tttgtgataa ttcagcttat attatcgggc aatatataaa atcgaatcgt
      361 catggtggaa gtgtaaattc aaaaataaat aaaggataag agctgttaat ttcagctctt
      421 tttttgtgcg tgaaagtctt agtcactatg accaaaacta cggacgaaac tatgaccaaa
      481 agtaggtact atattatgac cgaaaatagg tccaaaatgg atttttttgt gatatcaaaa
      541 aatataaggt tgttttgtaa gaaaaccagt tggcacagcc gacttagccg ccttcctgta
      601 ggaaggtgct atcagttttc ccttatgctc tttttgttct tcagagttta attccagaat
      661 atttgtgaga agtaggtcaa agaggtcggt ggtttcttcg acttttccgc cggtcaattc
      721 gataaaatca ttggaatatg attctagcaa tttttctagt tgttcaacgt tgatagttgt
      781 ttctttaggc atttactcac cttctttggt ggttatgact ttttctagtt ttttaagggc
      841 ttctgggctg aaaagatagt ttcttctacc ggcagagcga tattcttttc cttcagtcag
      901 atgttctttc gctaagcgca aaacgtaagc ttggttgtaa tcaagttctt gtgcaagttc
      961 gctggtcgtc ataatttcgg ccaaagtgaa tttttctgat tttatcactc tcatttatgc
     1021 tccttccatt taacgtccgt ctatattacg tgagtacgtc ggacttacga cataagctta
     1081 taatataagt tttctgtgtt gtggtcaatt ttatattatc gaaatgacta gtagaaaaaa
     1141 tcaatgctct aaaaagggtc tattttgcgt tttaagcgat ttagcgtcta tttcgtttag
     1201 ttatcggcgc aatcgttaaa acacgtaaga gaagcgagaa tggagcctgt aaggcgactg
     1261 gtagcgaaac ggtcgtgtta gattgcaaaa gccgatagct gaacgaaata gtaagcgtgg
     1321 cgcctgcata tatttcggta gaaggaggtc ggggttcggg gcggagccct gaggtttgtt
     1381 ttttggtttt ggtgtttatg aattgggcgg aggagggggg gactacgaca ccccccttat
     1441 tggtcattgg tcattggtcg atagctgttt agccttactc tcccaagggt ttcagcgttt
     1501 ttttttgaca aaatcagtaa tgccaagggt ttaaggccta ttattcgcta attagtatct
     1561 aaactgttgc accttagtta cttttttgtt actatggttt ttaagaaaaa gtcgttggag
     1621 gatacgaatt atgatcagta atgaaaaaaa gagagtcgtt gtaacgctta ctaaggaagt
     1681 ggcagataat cttgataaaa ttgcgaaaca aatgggtctt agtaagtctg gtcttattac
     1741 aatttgggtt aatgctaacg gaaaggaaaa tgagcaaaaa aaatagcaaa agcattagtg
     1801 ttggcgcact gcttttgctg ttagactgtt gttcaattaa ggtgattata gcatgacgag
     1861 tagaaaaact aaagatgaac gcacaaggaa ttggacgttt gtagtctatc ctgaatcggc
     1921 tcctgaaaat tggagggagt ttttagatga gttacatgtt ccttgggttg agagtccact
     1981 tcatgataaa gatgtgaatc ctgacggtga attgaaaaag cctcattggc atgttttgat
     2041 aatgtttagc ggtaaa
//
