LOCUS       NZ_CP044280             3221 bp    DNA     circular CON 10-NOV-2023
DEFINITION  Enterococcus faecium strain V2937 plasmid pHVH-V2937-6, complete
            sequence.
ACCESSION   NZ_CP044280
VERSION     NZ_CP044280.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN12818041
            Assembly: GCF_008728475.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 3221)
  AUTHORS   Rubin,I.M.C., Pedersen,M.S., Mollerup,S., Kaya,H., Petersen,A.M.,
            Westh,H. and Pinholt,M.
  TITLE     The association between vancomycin-resistant Enterococcus faecium
            colonization and infection: A retrospective WGS study
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3221)
  AUTHORS   Rubin,I.M.C., Pedersen,M.S., Mollerup,S., Kaya,H., Petersen,A.M.,
            Westh,H. and Pinholt,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (23-SEP-2019) Department of Clinical Microbiology,
            Copenhagen University Hospital Hvidovre, Kettegaard alle 30,
            Hvidovre, Copenhagen 2650, Denmark
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: JUL-2019
            Assembly Method                   :: Unicycler v. Version 0.4.7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 69.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/10/2023 05:32:25
            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)                     :: 3,145
            CDSs (total)                      :: 3,050
            Genes (coding)                    :: 2,940
            CDSs (with protein)               :: 2,940
            Genes (RNA)                       :: 95
            rRNAs                             :: 7, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 7, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 70
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 110
            CDSs (without protein)            :: 110
            Pseudo Genes (ambiguous residues) :: 0 of 110
            Pseudo Genes (frameshifted)       :: 44 of 110
            Pseudo Genes (incomplete)         :: 65 of 110
            Pseudo Genes (internal stop)      :: 22 of 110
            Pseudo Genes (multiple problems)  :: 16 of 110
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP044280.1.
            Bacteria and source DNA available from Department of Clinical
            Microbiology, Copenhagen University Hospital Hvidovre, Copenhagen,
            Denmark.
            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..3221
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="V2937"
                     /isolation_source="Rectum"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pHVH-V2937-6"
                     /geo_loc_name="Denmark:Copenhagen"
                     /lat_lon="55.67 N 12.56 E"
                     /collection_date="2018"
                     /collected_by="Copenhagen University Hospital Hvidovre"
     gene            889..1608
                     /locus_tag="F6440_RS16030"
                     /old_locus_tag="F6440_16030"
     CDS             889..1608
                     /locus_tag="F6440_RS16030"
                     /old_locus_tag="F6440_16030"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002311815.1"
                     /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_002311815.1"
                     /translation="MDEKTELTVKYQNELNLVPLKNFNAKQMDLFFALCARMKDRGLKK
                     VRFSFEELKELSDYKMTATKAFVGDLEKLYKDMLNLTYRTEDEDSIRYFVLFTGFEINK
                     TKKFVEVSVNPDLEYIINGLTAEFSRFELSAFTSLRSTYAKTLFRLLMQYRSTGYYVVR
                     IEEFRSLMDIPEYYQMGNIDQKVLNPALRELKKYFNDLKVTKIKAKKGNKIAKLEFTFS
                     SLTSDLPKISLRNWLEE"
                     /name="replication initiation protein"
     gene            complement(1745..2161)
                     /locus_tag="F6440_RS16035"
                     /old_locus_tag="F6440_16035"
     CDS             complement(1745..2161)
                     /locus_tag="F6440_RS16035"
                     /old_locus_tag="F6440_16035"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001232859.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001232859.1"
                     /translation="MRKTSVQKHVTLYPSHVDVLDSIIEKNPDINNYSEAIRFLCMSYE
                     PDTNTTTTSNQAKLNAMGKEISIMTEIIAEFADLYLKDTGVLIGTNSKVYQEVKEKIEA
                     KLNPSNRNRPKNHQKETSQTVTSRNFDPTNFLKR"
                     /name="hypothetical protein"
     gene            complement(2164..2448)
                     /locus_tag="F6440_RS16040"
                     /old_locus_tag="F6440_16040"
     CDS             complement(2164..2448)
                     /locus_tag="F6440_RS16040"
                     /old_locus_tag="F6440_16040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002337999.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000353844.1"
                     /translation="MDILVRNIDPKFVATIDKRCQELTNKTGEKWSRNKYLKVLIESDF
                     DRQLTTYKKDQFDLLLDKFIAIQTENTQILSEYVYTNNQIIEMLIGGMI"
                     /name="hypothetical protein"
     gene            2814..3038
                     /locus_tag="F6440_RS16045"
                     /old_locus_tag="F6440_16045"
     CDS             2814..3038
                     /locus_tag="F6440_RS16045"
                     /old_locus_tag="F6440_16045"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000410576.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000410576.1"
                     /translation="MEKFPYEYFQNLEKLEQAIQAIKFDLTDEKLLEYKNMTPERKRSL
                     EKLMQLVNEDGGISDAAFDAWSEFHGEYN"
                     /name="hypothetical protein"
     Typing          890..1608
                     /name="rep_cluster_1763"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aaatatttat ttctgttata atttgattgc aaataagtga acacgaaaca cacgaaagcc
       61 ccagagaggt cggattctct ggggcttttt ttgtgggctg agtcgcctta attaagtttt
      121 acttcttgtt tcggttattc aaccagtaac tgaacaaagc gcttaaaagc ccaacaagaa
      181 gggagcaaat aaagttagtg aacacgaaac acacctcctt ccagtcgcaa gactgtcgga
      241 taggcgacaa tcaattatac aataaaaaag caaaaataag cctaagtttt ttattgcctt
      301 ggggttgtta gggcttgccc tgaccgcctg taaggcgctt tagaacgaag gacatagttt
      361 ttatcgaatc ttgtcttaga acggcttaga cgagctctca ggacgccaca aaggagtccc
      421 taatgaatta tttttggcga aggagcctaa aggcgactgc tgcaagtaaa atgtgagagc
      481 gtagcgatca ctccttctta cagcgaccat agggagctag attggcagtt taatatcatg
      541 cgcgaacctg tttattttaa aaagtgggtg attttttggc gggaaatttt gctcgcgcgc
      601 gcgcgtttat tttatttatt ttttaaagat tttttagaac cctttttagg gggcagttga
      661 gccttactct cccaacggat acagaagggt actaacaact ttttatctga gtactaacaa
      721 ctttttatct gagtactaac aactttttat ctgagtacta acaacttttt atctgagtac
      781 taacaacttt ttatctgagt actaatatcc ttttgtataa taacaaccaa cctatttacg
      841 agttggttgt taaaggttat tatttatttg taagggggga agaaaggaat ggatgaaaaa
      901 acggaattaa cagtcaaata tcaaaatgaa ttgaatttag taccgctgaa aaatttcaat
      961 gctaagcaga tggatttatt ttttgcatta tgcgctcgta tgaaagatcg tggtttgaaa
     1021 aaagttagat tttctttcga ggaattaaaa gagttaagtg attataagat gactgctaca
     1081 aaagcctttg tcggtgattt agaaaagctc tataaagata tgcttaatct tacttaccgt
     1141 actgaagatg aggattctat tcgctacttt gttttgttta ctggttttga aatcaataaa
     1201 acaaaaaagt ttgttgaagt cagtgttaat ccggacctag aatatattat taatggttta
     1261 acagctgaat ttagtagatt tgaattatct gctttcacgt cgttgcgttc tacgtatgca
     1321 aaaactctat tccgactgct tatgcagtac cgttctactg gttattatgt agttcgtatt
     1381 gaagagttta ggagcttaat ggatatccca gaatactatc aaatgggtaa cattgatcaa
     1441 aaagtattaa atcctgcatt acgagaacta aaaaaatact tcaatgatct taaagtcaca
     1501 aaaataaaag caaaaaaggg caataaaatc gccaaattag aatttacttt ttcaagccta
     1561 acgtcagatt tgccaaagat ttctctgcgt aactggttag aagaataaat aaaaaagaac
     1621 tcgcccccct tacattaagc aagtagacaa gtcccttaca accgactaag attgctagta
     1681 cattctagca tattgtatgg ggcttctaaa taaaaaacag ataggaataa ctcctatctg
     1741 ttttttatcg ttttagaaaa tttgttgggt cgaaatttct agaagtgact gtttgactgg
     1801 tttctttttg atgattcttt ggtcgatttc gatttgatgg atttagttta gcttcgattt
     1861 tttctttcac ttcttgatat actttagaat ttgtgccaat aagaacgcct gtatctttta
     1921 gatataaatc agcaaattct gcgatgattt cagtcatgat ggaaatttct tttcccatag
     1981 catttagttt tgcctgattg ctggtagtgg tcgtgttggt atcgggttca taactcatac
     2041 ataaaaagcg aatggcttcc gagtagttat tgatatctgg atttttttcg atgatggaat
     2101 ctaaaacgtc aacatgacta gggtacaaag taacatgttt ttggacagaa gtttttctca
     2161 tggttatatc attcctccga taagcatttc aatgatttga ttatttgtgt agacatactc
     2221 gcttaatatt tgagtatttt ctgtttggat agcaataaat ttatcgagca ataaatcgaa
     2281 ttggtctttt ttgtaagtcg taagttgacg gtcaaaatca ctttcgatta aaacttttag
     2341 atatttattt cgactccatt tttctcctgt tttattcgtg agttcttggc aacgtttgtc
     2401 tattgttgca acaaactttg gatcaatatt ccgaactaaa atgtccataa aaaatctcct
     2461 tttgcaatta tgtataattt atgtatacca tacaaatact atatttgtat agctgttttt
     2521 tgccaaaatg ctatacataa gctacccacg atggcgaaaa agtgatatca aatttttttc
     2581 tgagaaacgt gataggcaca gcctatctac ccactttttt tagaaagtgg gtacacgttt
     2641 ccttatgctc tttaaaattc gggggggagt gctgcacgtg taatcgataa ccaaatttaa
     2701 aaatgcacga tcaaaaattt atttagtttt tcaaacgaca ttttttttga gagtatagac
     2761 ggcaaagaag tgattttatt tctagaaaaa ttgtgagact ggagaaagaa aaaatggaaa
     2821 aatttcctta cgaatatttt caaaacttag aaaaattaga gcaagcaatt caagcaatca
     2881 agttcgattt aacagacgaa aaattgttgg aatataaaaa tatgacaccc gaaagaaaac
     2941 gatcgttgga aaaattaatg caactagtga acgaagacgg cggaatttca gacgcagctt
     3001 ttgacgcatg gagcgaattt catggagaat ataattaagt gggtttaaat ggctctaaaa
     3061 tcgcttctaa gagtttttta gcttggacca atgaaataca ccaaaaacta aataaaacgt
     3121 cttaaatcga aaaatacgag ctctcagagc gactttattt gtaaatgttg catataagaa
     3181 ataattacgg attttagact tttgtaggat atttttgaaa t
//
