LOCUS       NZ_CP059762             2056 bp    DNA     circular CON 20-SEP-2023
DEFINITION  Enterococcus faecium strain A10290 plasmid pA10290_P7, complete
            sequence.
ACCESSION   NZ_CP059762
VERSION     NZ_CP059762.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14675380
            Assembly: GCF_012933345.2
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  JOURNAL   Unpublished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                     :: A10290
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 84.54x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/20/2023 03:59:25
            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)                     :: 3,199
            CDSs (total)                      :: 3,107
            Genes (coding)                    :: 2,958
            CDSs (with protein)               :: 2,958
            Genes (RNA)                       :: 92
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 70
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 149
            CDSs (without protein)            :: 149
            Pseudo Genes (ambiguous residues) :: 0 of 149
            Pseudo Genes (frameshifted)       :: 48 of 149
            Pseudo Genes (incomplete)         :: 96 of 149
            Pseudo Genes (internal stop)      :: 34 of 149
            Pseudo Genes (multiple problems)  :: 26 of 149
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP059762.1.
            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="A10290"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pA10290_P7"
                     /geo_loc_name="India: Vellore"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2019"
                     /collected_by="CMC Vellore"
     gene            join(1906..2056,1..71)
                     /locus_tag="HI839_RS15855"
                     /old_locus_tag="HI839_015850"
     CDS             join(1906..2056,1..71)
                     /locus_tag="HI839_RS15855"
                     /old_locus_tag="HI839_015850"
                     /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            72..329
                     /locus_tag="HI839_RS15860"
                     /old_locus_tag="HI839_015855"
     CDS             72..329
                     /locus_tag="HI839_RS15860"
                     /old_locus_tag="HI839_015855"
                     /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"
     gene            complement(465..1067)
                     /locus_tag="HI839_RS15865"
                     /old_locus_tag="HI839_015860"
     CDS             complement(465..1067)
                     /locus_tag="HI839_RS15865"
                     /old_locus_tag="HI839_015860"
                     /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(1134..1289)
                     /locus_tag="HI839_RS15870"
                     /old_locus_tag="HI839_015865"
     CDS             complement(1134..1289)
                     /locus_tag="HI839_RS15870"
                     /old_locus_tag="HI839_015865"
                     /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          232..407
                     /name="MOBV"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.01e-87"
     Typing          complement(538..1067)
                     /name="rep_cluster_2351"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="96.0"
                     /evalue="0.0"
ORIGIN
        1 gaaactatct tttcagccca gaagccctta aaaaactaga aaaagtcata accaccaaag
       61 aaggtgagta aatgcctaaa gaaacaacta tcaacgttga acaactagaa aaattgctag
      121 aatcatattc caatgatttt atcgaattga ccggcggaaa agtcgaagaa accaccgacc
      181 tctttgacct acttctcaca aatattctgg aattaaactc tgaagaacaa aaagagcata
      241 agggaaaact gatagcacct tcctacagga aggtggctaa gtcggctgtg ccaactggtt
      301 ttcttacaaa acaaccttat attttttgat atcacaaaaa aatccatttt ggacctattt
      361 tcggtcataa tatagtacct acttttggtc atagtttcgt ccgtagtttt ggtcatagtg
      421 actaagactt tcacgcacaa aaaaagagct gaaattaaca gctcttatcc tttatttatt
      481 tttgaattta cacttccacc atgacgattc gattttatat attgcccgat aatataagct
      541 gaattatcac aaagaagcgg aaaccaatca tcaaatcttt ctgacattgc atagtcaatt
      601 aaatctttga tttcagtgat attcttagaa tcaacaaacg acatcatctc tctaatcaac
      661 tcatatcgtt ctgcactcgt tactgacaaa taactagcaa tttctgcacc accatgagcg
      721 ataatatcac ttttagcata ttgaaatttt tctggattat ccatatgagc aaaatatcgc
      781 accatacctt ttgcattagc acatttttgc gggtttggag accgaagctt ttgagttatc
      841 tcacgtattt gatcatacgt ctttttaccg ctaaacatta tcaaaacatg ccaatgaggc
      901 tttttcaatt caccgtcagg attcacatct ttatcatgaa gtggactctc aacccaagga
      961 acatgtaact catctaaaaa ctccctccaa ttttcaggag ccgattcagg atagactaca
     1021 aacgtccaat tccttgtgcg ttcatcttta gtttttctac tcgtcatgct ataattacct
     1081 taattgaaca acagtctaac agcaaaagca gtgcgccaac actaatgctt ttgctatttt
     1141 ttttgctcat tttcctttcc gttagcatta acccaaattg taataagacc agacttacta
     1201 agacccattt gtttcgcaat tttatcaaga ttatctgcca cttccttagt aagcgttaca
     1261 acgactctct ttttttcatt actgatcata attcgtatcc tccaacgact ttttcttaaa
     1321 aaccatagta acaaaaaagt aactaaggtg caacagttta gatactaatt agcgaataat
     1381 aggccttaaa cccttggcat tactgatttt gtcaaaaaaa aacgctgaaa cccttgggag
     1441 agtaaggcta aacagctatc gaccaatgac caatgaccaa taaggggggt gtcgtagtcc
     1501 ccccctcctc cgcccaattc ataaacacca aaaccaaaaa acaaacctca gggctccgcc
     1561 ccgaaccccg acctccttct accgaaatat atgcaggcgc cacgcttact atttcgttca
     1621 gctatcggct tttgcaatct aacacgaccg tttcgctacc agtcgcctta caggctccat
     1681 tctcgcttct cttacgtgtt ttaacgattg cgccgataac taaacgaaat agacgctaaa
     1741 tcgcttaaaa cgcaaaatag acccttttta gagcattgat tttttctact agtcatttcg
     1801 ataatataaa attgaccaca acacagaaaa cttatattat aagcttatgt cgtaagtccg
     1861 acgtactcac gtaatataga cggacgttaa atggaaggag cataaatgag agtgataaaa
     1921 tcagaaaaat tcactttggc cgaaattatg acgaccagcg aacttgcaca agaacttgat
     1981 tacaaccaag cttacgtttt gcgcttagcg aaagaacatc tgactgaagg aaaagaatat
     2041 cgctctgccg gtagaa
//
