LOCUS       NZ_CP089324             1928 bp    DNA     circular CON 17-FEB-2024
DEFINITION  Enterococcus faecium strain NMVRE-001 plasmid p5, complete sequence.
ACCESSION   NZ_CP089324
VERSION     NZ_CP089324.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN23828484
            Assembly: GCF_021228615.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 1928)
  AUTHORS   Pincus,N.B. and Bachta,K.E.R.
  TITLE     Enterococcus faecium clinical isolates
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1928)
  AUTHORS   Pincus,N.B. and Bachta,K.E.R.
  TITLE     Direct Submission
  JOURNAL   Submitted (09-DEC-2021) Medicine (Infectious Diseases), Northwestern
            University Feinberg School of Medicine, 645 N Michigan Avenue,
            Chicago, IL 60611, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 29-MAY-2021
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 60.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/17/2024 08:03:55
            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)                     :: 3,146
            CDSs (total)                      :: 3,053
            Genes (coding)                    :: 2,912
            CDSs (with protein)               :: 2,912
            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)              :: 141
            CDSs (without protein)            :: 141
            Pseudo Genes (ambiguous residues) :: 0 of 141
            Pseudo Genes (frameshifted)       :: 47 of 141
            Pseudo Genes (incomplete)         :: 88 of 141
            Pseudo Genes (internal stop)      :: 32 of 141
            Pseudo Genes (multiple problems)  :: 23 of 141
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP089324.1.
            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..1928
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="NMVRE-001"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="p5"
                     /geo_loc_name="USA: Chicago, Illinois"
                     /lat_lon="41.89 N 87.62 W"
                     /collection_date="2021-02"
                     /collected_by="Clinical Microbiology Laboratory at
                     Northwestern"
     gene            join(1166..1928,1..203)
                     /locus_tag="LUB18_RS15630"
                     /old_locus_tag="LUB18_15630"
     CDS             join(1166..1928,1..203)
                     /locus_tag="LUB18_RS15630"
                     /old_locus_tag="LUB18_15630"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002305967.1"
                     /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_002305967.1"
                     /translation="MSKKGIIVNEWEKLNRISNRRLSVDDKVHPLKLSWSIDRITIVGK
                     LNDTIAYWTQNGVVFVDFEQLMRLNENQGYLKSVGTNGWQLFDQYGEDIAYIEMLKFHP
                     DKGRIDFNPNKIGEFLKGSMKQFIHDLFLDAHFSRADIACDILGVPDDFITQYRIVDPV
                     SFKPIYGRSGKLETAYWGSRASERQVRMYNKKLEQERKKQIVPKEIETWWRIEMQLRRG
                     KATDWHAMVRESLDSFASPHYLPGDVKPVDRIMIKGLNQDHSEWAYISRNLKYRLRKLL
                     KEESQNDELTNHLRETFKESANDLKIELDTWLLGLDVTEK"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            403..>585
                     /locus_tag="LUB18_RS15635"
                     /old_locus_tag="LUB18_15635"
                     /pseudo=""
     CDS             403..>585
                     /locus_tag="LUB18_RS15635"
                     /old_locus_tag="LUB18_15635"
                     /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"
     Typing          1365..1928
                     /name="rep_cluster_1968"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tgataaaagg gctgaatcaa gatcattcag agtgggcgta tattagcaga aatttgaaat
       61 atagattgcg caaattgttg aaagaagaaa gccaaaacga tgagttgacg aatcatttac
      121 gagagacgtt taaggaatct gcaaacgact tgaaaataga attagacacg tggcttttgg
      181 gtttggacgt gacagagaag tgataccgaa taagaaaagt cagatgagtg agagtaaatt
      241 tacgtcaatg tttaatgacg tgagtttacg ataagcgatt attttgcgtg aagcaaaata
      301 aagcgtaaaa ggagttgaga gcgtgacacg ctttcggctc cttttttcgt tgtcacttgt
      361 gacagcgaat accctcggag agcatttgga attgtgacag ccatgtcaca attaggaaaa
      421 tgttactctt tgtcaaagag taacagaaag gtttacactc tttttattag cgacagcgcg
      481 aaggaggggt ttaacttggg gtttagtatt tcgttcaaaa agggaacaaa aaatacaagc
      541 atttctcata ataatcgtga gttaactgat agccaaaaaa tcaatagttt gtctggtaga
      601 aaataattag cagatttaca agtgggaaat aaaaagctga aagaagaaaa ttgcatttca
      661 aactatattt tctacaatag ctctaaaatg gcatattttg cgttctgagc ggttttagcg
      721 tttatttcgt ttagttatcg gcacaatcgg tgaaacacgt tagaggagcg aaaatggagc
      781 ctgtaaggcg actggtagcg gaacggtcgt gttagattgt gtagccgata gctgaacgaa
      841 ataaatgctg gcagcgccat tctatttcgg caggaggagg ctcaaggggt tcggggaatg
      901 aaattccctg aggtcttttt attttttcta gaggagtgct ataatcaaag aaaatgagaa
      961 aaaagagtaa aaaaatagtc gagcagtgtt gacgcactct cgacctttac ggaaactact
     1021 tcacctagtt ccgtaactca agttcattat acgaatattt ttaggtttct tcaagctaga
     1081 gatttttgga tgtggatttt tagagttacg tgaactctgg aaattctttc caagaatctc
     1141 ttttttcgtt gaggaggagc tatttttgag taaaaaaggc ataatcgtaa atgagtggga
     1201 aaaacttaac cgtatttcta acaggcggtt aagtgttgac gataaggtac accccctaaa
     1261 attaagttgg tcaatcgatc gaattacaat cgtcggaaaa ctgaatgata ccatagctta
     1321 ttggacgcaa aatggagttg tgtttgtcga ttttgagcaa ttaatgcgtt tgaatgaaaa
     1381 tcaagggtat ttgaagtcgg ttggtacaaa tggttggcaa ttatttgacc aatatggaga
     1441 agatatcgcc tatatcgaaa tgttaaaatt tcaccctgac aaaggtcgta ttgattttaa
     1501 tccaaataaa attggcgagt ttttaaaggg gtcgatgaaa caattcattc atgatttgtt
     1561 tctggatgcg catttctcac gtgcagatat tgcttgcgat attctcggtg ttcctgatga
     1621 ttttattacc cagtatcgaa tcgttgaccc tgtgtctttt aagccaattt atggccgttc
     1681 tggcaaatta gaaacagcgt actggggtag tcgtgccagc gagcgacaag tgcggatgta
     1741 caacaaaaag cttgaacagg aacgaaaaaa acagattgta ccaaaagaaa tcgaaacatg
     1801 gtggcgtata gaaatgcagc taagacgtgg caaagcaaca gattggcatg cgatggttcg
     1861 ggaaagttta gatagctttg caagtcctca ttacttgcct ggagatgtaa aacctgttga
     1921 tagaatta
//
