LOCUS       NZ_CP044281             2189 bp    DNA     circular CON 10-NOV-2023
DEFINITION  Enterococcus faecium strain V2937 plasmid pHVH-V2937-7, complete
            sequence.
ACCESSION   NZ_CP044281
VERSION     NZ_CP044281.1
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 2189)
  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  JOURNAL   Unpublished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 2189)
  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
            CP044281.1.
            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..2189
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="V2937"
                     /isolation_source="Rectum"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pHVH-V2937-7"
                     /geo_loc_name="Denmark:Copenhagen"
                     /lat_lon="55.67 N 12.56 E"
                     /collection_date="2018"
                     /collected_by="Copenhagen University Hospital Hvidovre"
     gene            254..>436
                     /locus_tag="F6440_RS16055"
                     /old_locus_tag="F6440_16055"
                     /pseudo=""
     CDS             254..>436
                     /locus_tag="F6440_RS16055"
                     /old_locus_tag="F6440_16055"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002313295.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /name="hypothetical protein"
     gene            1019..1984
                     /locus_tag="F6440_RS16065"
                     /old_locus_tag="F6440_16065"
     CDS             1019..1984
                     /locus_tag="F6440_RS16065"
                     /old_locus_tag="F6440_16065"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002305972.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0003916 - DNA topoisomerase 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 factor domain-containing
                     protein"
                     /protein_id="WP_002305972.1"
                     /translation="MSKRGTIINEWENLTALSNRRLSVQTLTTPLKIQWSIDRITIVGK
                     LKENIYYHTQNDVLILDFEQLMRLNENNGYVKSVGLNGWQIVDKHDENIAYIEILKYQE
                     GQGRIDFNPNKISQFLAGSMKNFIHDLFLEPHFSRADIACDIIDVPDDFITQYRVVDPV
                     SFKPIYGRSGKLETAYWGSRASERQIRMYNKKLEQETKRKIVPPEIKTWWRLELQLRRG
                     KATDWYAMVHESLDSFASPHFLPTDTKHTDRIMIAGLISDQNLWAGLARHTKYKYRNLL
                     KKESQSDELVNHLRETFSESADVLKKELDTWLLGLDVTEE"
                     /name="replication initiation factor domain-containing
                     protein"
     Typing          1098..1981
                     /name="rep_cluster_943"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.588"
                     /coverage="98.0"
                     /evalue="0.0"
ORIGIN
        1 ctcactctgg aaaattagag cgaagcagac gagattatcc caatgaatat gacggcttac
       61 tcggagtgat accgagtaaa aaagtcagat aagtgagagt aaatttacgt caatgtttaa
      121 gataagcgat tattttgcgt gaagcaaaat aaagcgtaaa aggagttgag agcgtgacac
      181 gctttcggct ccttttttcg ttgtcacttg tgacagcgaa aaccctcgga gagcgtttgg
      241 aattgtgaca gccatgtcac aattaggaaa atgttactct ttgtcaaaga gtaacagaaa
      301 ggtttacact ctttttatta gcgacagcgc gaaggagggg ttcaccttag ggtttagtat
      361 ttcgttcaaa aagggaacaa agaatacaag catttctcat aataatcgtg agttaactga
      421 tagccaaaaa atcaatggtt tgtctggtag aaaataatta gcagatttac aagtgggaaa
      481 taaaaagctg aaagaagaaa attgcatttc aaactacatt ttctacaata gctctaaaat
      541 ggcatatttt gcgttctgag cggttttagc gtttatttcg tttagttatc ggcacaatcg
      601 ttaaaacacg ttagaggagc gaaaatggag cctgtaaggc gactggtagc ggaacgatcg
      661 tgttagattg tgaaagccga tagctgaatg aaataaacag cgggtgcgcc ctttccattt
      721 cggcaggagg aggctcaagg ggttcgggga atgaaattcc ctgaggtctt tttatttttt
      781 taggaggagt gctataatca aagaaaacga gaaaaaagag caaaataaaa gccgagcagt
      841 gcgctaacac tctcgactat ttacggaaac tacttcacct agctccgtaa ctcaggttca
      901 ttatacgaat atttttaggt ttcttcaagc tagagatttt tggatatgaa tttttagggt
      961 tacgtgaact ctggaaattc tttccaaaag tctctttttc tttgaggagg aacaaaattt
     1021 gagtaaacgt ggcacgatca taaatgagtg ggaaaattta acagccctat ctaacaggcg
     1081 gttaagtgtg caaactttga ccacccccct taaaatacag tggtcaattg accgaattac
     1141 cattgttgga aaactcaaag agaatattta ttatcacacg caaaatgatg tattgatttt
     1201 agactttgaa cagttaatgc gactgaatga aaataatggt tatgttaaat ctgttggtct
     1261 aaatggttgg caaattgtgg ataagcatga tgagaatatt gcttacattg aaattttgaa
     1321 atatcaagaa gggcaagggc gaattgactt taacccaaat aaaattagcc aatttttggc
     1381 gggttcgatg aagaacttta tccatgattt atttttagaa ccacatttct cacgtgctga
     1441 tattgcttgc gacattatcg atgtgcctga tgattttatt acgcaatatc gtgtggttga
     1501 ccctgtttca ttcaaaccaa tctatgggcg gtctgggaag ctggaaacgg catattgggg
     1561 tagtcgtgcc agtgagcgac aaataaggat gtacaacaaa aaattggaac aagaaaccaa
     1621 acggaaaatt gtaccaccgg aaataaaaac ttggtggcga ctggaattgc agttacggcg
     1681 tggaaaagct actgattggt atgcgatggt tcatgaaagt ttagacagtt tcgcaagtcc
     1741 tcattttttg ccgactgata caaagcatac tgatagaatt atgattgcag gattgatttc
     1801 agatcaaaat ttatgggctg gcttggctcg tcatacaaaa tataaatatc gaaatttgtt
     1861 gaaaaaagaa agccaaagtg atgagttagt taatcattta cgagagacat tttcggaatc
     1921 ggcagatgtt ttgaaaaaag aattggatac gtggcttttg gggttggacg tgacggaaga
     1981 atgagtggat gaatttttgt ccactttttt attttcagca caagtcggca tggtgggtcg
     2041 tgcgtttgca gcaagagcga aaaaacgcta acgaatccgc aaatgccgac ttggataaaa
     2101 cagttgcgca aagagacttg gctttttata ataaatttag ggatatccca gtgtcactct
     2161 ttggggtaat tcgggggaag gagttaccc
//
