LOCUS       NZ_CP044271             4461 bp    DNA     circular CON 10-NOV-2023
DEFINITION  Enterococcus faecium strain V1836 plasmid pHVH-V1836-7, complete
            sequence.
ACCESSION   NZ_CP044271
VERSION     NZ_CP044271.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN12818007
            Assembly: GCF_008728455.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 4461)
  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  JOURNAL   Unpublished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 4461)
  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                   :: 20.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/10/2023 05:23:15
            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)                     :: 3,287
            CDSs (total)                      :: 3,198
            Genes (coding)                    :: 3,028
            CDSs (with protein)               :: 3,028
            Genes (RNA)                       :: 89
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 67
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 170
            CDSs (without protein)            :: 170
            Pseudo Genes (ambiguous residues) :: 0 of 170
            Pseudo Genes (frameshifted)       :: 82 of 170
            Pseudo Genes (incomplete)         :: 89 of 170
            Pseudo Genes (internal stop)      :: 41 of 170
            Pseudo Genes (multiple problems)  :: 34 of 170
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP044271.1.
            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..4461
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="V1836"
                     /isolation_source="Rectum"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pHVH-V1836-7"
                     /geo_loc_name="Denmark:Copenhagen"
                     /lat_lon="55.67 N 12.56 E"
                     /collection_date="2017"
                     /collected_by="Copenhagen University Hospital Hvidovre"
     gene            570..1493
                     /locus_tag="F6439_RS16635"
                     /old_locus_tag="F6439_16635"
     CDS             570..1493
                     /locus_tag="F6439_RS16635"
                     /old_locus_tag="F6439_16635"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002296860.1"
                     /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_002351085.1"
                     /translation="MANEIVKYENRLNHIPLRKFNSREMNLFFSIASRVREKGVDEIIF
                     SFHDLKKLSGYTERGEQFIKDLSSTYDKLLSINAWNDDGNTLTKFVAFTKYSIIRDKQL
                     VIISVNPEFKGLFNQLKNWTRFNLEQFTNLDSTYSKTMFRLLKQYRTQGWTEFSKEKFF
                     DLLDIPKSYWNSPSNIDKFILRPIKEELTPLFKGLTIRKKYGKGRGKPVIGYRFTWKAE
                     INHADDFSKGKQEDLRIKLFNIDHNGELTREEKWRAKDRILNLPLGTHEADFKQQQQTE
                     EKQAEKRELSNKLKQDLLGNLQNLFD"
                     /name="replication initiation protein"
     gene            1509..2048
                     /locus_tag="F6439_RS16640"
                     /old_locus_tag="F6439_16640"
     CDS             1509..2048
                     /locus_tag="F6439_RS16640"
                     /old_locus_tag="F6439_16640"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016616811.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF536 domain-containing protein"
                     /protein_id="WP_002351084.1"
                     /translation="MADKTIKELAEELGVSKTAINKKVSDKNRKLWFAKNGNKFVINET
                     GQKAIKSMFLVDNANLNRKLVGEKSKTKNHKNTNQVSELKLLSFLEKQLNRKDIQLQEK
                     DNQIKQMQKLLDQQQQLTLQANQQIENLQEQLHLTYTEETPTTESTAFSEKKADNTQPL
                     IEKKWWQIWKSNRTNL"
                     /name="DUF536 domain-containing protein"
     gene            2729..2902
                     /locus_tag="F6439_RS16900"
     CDS             2729..2902
                     /locus_tag="F6439_RS16900"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002341717.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002318189.1"
                     /translation="MLKKTVLVLGSISLGILGFSPMLLSVIGKNNSNRELKLNSNYYNS
                     PNEELFVKETDK"
                     /name="hypothetical protein"
     gene            3307..3741
                     /gene="bacA"
                     /locus_tag="F6439_RS16650"
                     /old_locus_tag="F6439_16650"
     CDS             3307..3741
                     /gene="bacA"
                     /locus_tag="F6439_RS16650"
                     /old_locus_tag="F6439_16650"
                     /inference="COORDINATES: protein motif:HMM:NF041453.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="bacteriocin 51 precursor BacA"
                     /protein_id="WP_002351079.1"
                     /translation="MKNKIIKIITCLFLFGMIVGASTPLNLFPFSARGIKVEAASSRYN
                     HNHRGFTCYKMNYYVTNKMCRDLKKNYNKLKTPAQIASFIPIGGVGTWVITNAFSSAVD
                     AMNVFVRAANQGKGVQLTYNAHFSNTTSYQYNDYARYVIK"
                     /name="bacA"
     Typing          571..1493
                     /name="rep_cluster_1291"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ttaaatcgaa ttttagaggg catttagaca attttagggt tgttagggct tgccctgacc
       61 gcctgtaagg cgttttaaga acaagataag ggatttatac taggactgtc ttaaaatgtc
      121 ttaaacgaac gctcagagct tctcaaaggg ttccttatga acggctttta gcaaaggagc
      181 cggaggcgac tgcgcagtat aatgtgagag cagagcgatc acaccttttt agcgaaccgt
      241 agggagcaag gtttggaatt ggcagttttg ataaattcgc gaacctgttt agagaaaaaa
      301 ggagtgattt tttaggcggg aaaattagcc tcccctcttt ttatatctct ttttatatct
      361 ctttttatat ctcttttatg tcggctgtgt ccttactctc ccaagcaatt cagagttttt
      421 tcaagtaggt tttctacgct tttcaagtag gttttctacg cttttcaagt aggttttcta
      481 cgcttttcaa gtaggttttc cgacattatt gagtattttt ataaagtatg ttacttttat
      541 ttcatacttt ataaaagtag gagaagctta tggcaaatga aattgtaaaa tatgaaaata
      601 gattaaatca tattcctctg agaaaattta atagtcgtga aatgaactta tttttttcaa
      661 ttgcttcacg tgtacgtgaa aaaggtgtag atgagattat tttttcattt cacgatttga
      721 aaaaactaag cggttataca gaacgtgggg aacaatttat aaaagatctt agtagcacgt
      781 atgacaaatt attaagtatt aatgcttgga atgatgatgg aaatacttta actaaatttg
      841 ttgctttcac aaaatatagc attatacgag ataaacaact tgttataatt tcagttaatc
      901 cagaatttaa aggacttttt aatcaattaa agaactggac aagatttaat ctagagcaat
      961 ttactaattt ggatagcaca tattcaaaaa ctatgtttcg attattaaaa caatatcgaa
     1021 ctcaaggctg gactgaattt tccaaagaaa aattttttga tttactagat attcctaaaa
     1081 gttattggaa tagtccgtca aatattgaca aatttatctt aaggccaatt aaagaagaac
     1141 tcactccctt atttaaagga ttaactattc gtaaaaaata tggtaaaggt cgaggtaaac
     1201 ctgttatcgg ttatcgtttt acttggaaag ctgaaattaa ccatgctgac gatttttcca
     1261 aagggaaaca agaagattta cgtataaaat tatttaatat tgatcacaat ggagaattaa
     1321 cacgagaaga aaaatggcgc gctaaagatc gaatactaaa tcttccctta ggcactcatg
     1381 aagctgattt taaacaacaa caacaaactg aagaaaaaca ggcagaaaaa cgagaacttt
     1441 caaacaaact caaacaagat ttactaggaa atttacaaaa cttattcgat taagcttaag
     1501 gagtatttat ggcagataaa acaatcaaag aacttgcgga agaattagga gttagtaaaa
     1561 cagcaattaa caaaaaagtt tctgacaaaa atcgaaaact ttggtttgca aaaaacggaa
     1621 acaagtttgt gattaacgaa accggtcaaa aagctataaa atcaatgttt ttagtcgata
     1681 acgcaaactt aaatcgaaaa ctagttggcg aaaaatcaaa aaccaaaaac cataaaaaca
     1741 ccaaccaagt ttccgaatta aaactccttt ctttcctaga aaaacagtta aatcgaaaag
     1801 atatacagct acaagaaaaa gataatcaaa taaaacaaat gcaaaaatta ctcgaccagc
     1861 aacaacaact cactctacaa gcgaaccaac aaattgagaa cctacaagaa cagctccatt
     1921 taacttatac agaagaaact ccaacaaccg aatcaactgc cttttctgaa aaaaaagcag
     1981 acaatacaca accacttatt gaaaaaaagt ggtggcaaat ttggaaatct aatagaacca
     2041 atctctaaaa ttttctagaa gttagttcgg atagtagagg aaaaagttgt actacctgat
     2101 ggggagatca ctcaaatttt tatgagaaag aaaaaatagt ttacaactgt aaacaatcaa
     2161 tgtttatagt tgtaaactat caaactatat ggtgacttat tgcttaaaat aggttgaaat
     2221 ctcactcaat ttttggtgga aaaacaaaat aaattctaat cgattttgtt gaaaaagtca
     2281 taaaaaaaca aatgtgattt taacaaaatt tcaaaaaaat cgtttgaaat ttcgtttatt
     2341 ttttttgaga attttgatca tcgtagggtc attgtagaat cattatgaga tcatcgtggg
     2401 atcatcgaat aaagtatggg aaaggcttgc ggtgcttggt attaagggca ttctccgcct
     2461 cccaggttct tgaccatttt ctcttataag tgggattttt accacgttga gagaaaatgg
     2521 tcaagaacct gggaggcgga gaaaacatac caagcaccac aagcaaaaaa agttagagta
     2581 acttccaaaa aagaaaaatt ttttagaaca acttttgaaa atttaatttt gatttatatc
     2641 cgttcaattt aaacatttga taaactgaag gctagtattt aaaatgtgta tacaagtggt
     2701 agcgttaaaa aaagtggagg tataacctat gttaaaaaaa actgtgttgg tactgggttc
     2761 tatttctcta ggaatattag gttttagccc catgctatta tccgtaattg gaaaaaacaa
     2821 ttccaacaga gaacttaaat tgaattcaaa ttattacaac agtcctaacg aagaattgtt
     2881 tgtaaaagaa acggataaat aataaaaaag actgctcttc cgagcagcca gttaaaaaat
     2941 aatgagtgtt tattcttgaa aaagcaacgc gcttataaag cgctaccaaa aatttatcat
     3001 attttatgaa aaataacaat ccagtaaaaa atgactggta aaaattcaca aagaaacgga
     3061 aagaagcaac tgcagaaaat caagccttaa aaagagcttt ttacctagac caattaaaaa
     3121 tcacaaagtg agcccctgta tcggttgata caagggctac ttggcatact gtacattatg
     3181 tctactaacc tttaaaataa cacgttttat aaaataaacc ctcttgacaa tatttaattt
     3241 tctgattatt ctaaatatat acagaaagcg ctttcctagg attttatatc taaggaggaa
     3301 gtaacaatga aaaataaaat tattaaaatt attacttgtc tatttttgtt cggtatgatt
     3361 gttggagcaa gtactccgtt aaatctgttt ccttttagtg ctagaggtat aaaagtggaa
     3421 gctgcaagtt cacgatataa tcataatcat cgtggattta cttgctataa aatgaactat
     3481 tatgttacta ataaaatgtg tagagatttg aaaaaaaatt ataataagct aaagactcct
     3541 gctcaaattg catcttttat tcctattggt ggagttggaa catgggttat tacaaatgct
     3601 tttagtagtg ctgttgatgc aatgaatgtc tttgtaagag ctgcaaatca aggaaaaggt
     3661 gtacaattaa catataatgc tcactttagc aatacaacat catatcaata caatgattac
     3721 gctcgttatg taataaaata atcagaaagt gaaactatct catgaataaa aagattttag
     3781 ctgtaattat ttcaataata gttttaatca ctatgttctt catatttagg ctaattttca
     3841 atataagctt acaaaaaagt attctttatc taattcctat agcatttatc ttagcaattt
     3901 ttagaagtat ttacggaaat aaaaactcta aatagctaaa aataaatcat actaaatttt
     3961 acaaaaagtg gctagcattt tctagccact ttttgtattg tggagcgtgg gttttgaggg
     4021 ggattcaagg gggagcttgc gcccctttga caagcggtta tttgcaccaa atacggaggt
     4081 atttggctag caaatataga gcttgccaaa cccttttagt gagttttgta gaaagtacct
     4141 ttaaaggtac tttcacatta cgaacgatac gtccgtagga cgtactgaaa gggtgggact
     4201 tatgagcaaa ttaatgcaaa atttggctag caaaaaagct aaaaaatata tgctaataat
     4261 cgagcgaaat aaacactttt tcaagtgagc gaatccgcca tgacaaagct gaagcagttt
     4321 atttcagctt tgtcatggcg tgtgccgact tttttaaaag tctaggcaca cgagcaaata
     4381 tctttatcaa gctctaattt gcgttttaag acgtttgaaa cgcctaagta tataaatata
     4441 taagaatagg tttaagagtg c
//
