LOCUS       NZ_CP066575             1980 bp    DNA     circular CON 20-FEB-2024
DEFINITION  Enterococcus faecium strain Dallas 97_1 plasmid p97_1_1.9kb,
            complete sequence.
ACCESSION   NZ_CP066575
VERSION     NZ_CP066575.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN17038090
            Assembly: GCF_016415025.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 1980)
  AUTHORS   Islam,M.J. and Palmer,K.
  TITLE     Molecular characterization of VREfm isolates from Dallas, Texas
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1980)
  AUTHORS   Islam,M.J. and Palmer,K.
  TITLE     Direct Submission
  JOURNAL   Submitted (21-DEC-2020) Biological Sciences, University of Texas at
            Dallas, 1520 Richardson Dr Apt 1418, Richardson, TX 75080, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2019
            Assembly Method                   :: Unicycler v. 0.4.7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 66.0x
            Sequencing Technology :: Illumina NextSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/20/2024 02:46:30
            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)                     :: 3,203
            CDSs (total)                      :: 3,112
            Genes (coding)                    :: 2,949
            CDSs (with protein)               :: 2,949
            Genes (RNA)                       :: 91
            rRNAs                             :: 6, 5, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 5, 6 (5S, 16S, 23S)
            tRNAs                             :: 70
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 163
            CDSs (without protein)            :: 163
            Pseudo Genes (ambiguous residues) :: 0 of 163
            Pseudo Genes (frameshifted)       :: 73 of 163
            Pseudo Genes (incomplete)         :: 87 of 163
            Pseudo Genes (internal stop)      :: 37 of 163
            Pseudo Genes (multiple problems)  :: 30 of 163
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP066575.1.
            Bacteria and source DNA available from Dr. Kelli Palmer, UTDallas.
            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..1980
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="Dallas 97_1"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="p97_1_1.9kb"
                     /geo_loc_name="USA: Dallas"
                     /collection_date="2015"
     gene            746..1762
                     /locus_tag="JCP88_RS15855"
                     /old_locus_tag="JCP88_15855"
     CDS             746..1762
                     /locus_tag="JCP88_RS15855"
                     /old_locus_tag="JCP88_15855"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002299382.1"
                     /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_002299382.1"
                     /translation="MANENQLSEIQSKIEGRGAEKRTTINQLEKLNRISNRRLSVQGTT
                     TPLKLNWSIDRITIVGKLNDTIAYWTKNGVVFVDFEQLMRLNENQGYLKSVGINGWQLF
                     DQYGEDIAYIEILKFHEGKGRIDFNPNKIGQFLASSMKGFIHDLFLDPHFSRADIACDI
                     VDVPDDFITQYRIVDPISFKPIYGRSGKLETAYWGSRASERQVRLYNKKLEQERKKVIV
                     PKEIDTWWRLEMQLRRGKATDWHAMVQESLDSFASPHFLPIDIKPIDKIVIDGLIAEPS
                     NWSIIARHTKYKYRNLLKQESQNDELTNHLRETFKESADELKKELDTWLLGLDVTEK"
                     /name="replication initiation factor domain-containing
                     protein"
     Typing          747..1756
                     /name="rep_cluster_935"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.292"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 ttttactctt tgtcaaagag taacagaaag gtttacactc tttttattag cgacagcgtg
       61 aaggaggggt tcaccttagg gtttagtatt tcgttcaaaa agggaacaaa gaatacaagc
      121 atttctcata ataatcgtga gttaactgat agccaaaaaa tcaatggttt gtctggtaga
      181 aaataattag cagatttaca agtgggaaat aaaaagctga aagaagaaaa ttgcatttca
      241 aactacattt tctacaatag ctctaaaatg gcatattttg cgttctgagc ggttttagcg
      301 tttatttcgt ttagttatcg gcacaatcgt taaaacacgt tagaggagcg aaaatggagc
      361 ctgtaaggcg actggtagcg gaacgatcgt gttagattgt gaaaaccgat agctgaatga
      421 aataaacagc gggtgcgccc tttccatttc ggcaggagga ggctcaaggg gttcggggaa
      481 tgaaattccc tgaggtcttt ttattttttt aggaggagtg ctataatcaa agaaaacgag
      541 aaaaaagagc aaaataaaag ccgagcagtg cgctaacact ctcgactatt tacggaaact
      601 acttcaccta gctccgtaac tcaggttcat tatacgaata tttttaggtt tcttcaagct
      661 agagattttt ggatatgaat ttttagggtt acgtgaactc tggaaattct ttccaaaagt
      721 ctcttttttc gtttggagga cgaaaatggc aaatgaaaat cagttgagtg aaattcaatc
      781 aaaaattgaa ggtcgagggg cagaaaaaag aacaacgata aatcagctcg aaaaacttaa
      841 ccgtatttct aacaggcggt taagtgtgca aggtacgacc acccccctaa aattaaattg
      901 gtcgattgat cgaattacaa ttgtcggaaa actgaatgat accatagctt attggacgaa
      961 aaatggagtt gtttttgtcg atttcgagca attaatgcgt ttgaacgaaa atcagggata
     1021 tttgaaatca gttgggataa acggctggca attattcgat caatatggag aagatattgc
     1081 gtatatcgaa atacttaaat ttcatgaagg aaaaggtcgt attgatttta atccgaataa
     1141 gataggccag tttttagcta gttccatgaa aggattcatt catgacctat ttttagatcc
     1201 gcatttttcc cgggcggata ttgcctgcga tattgtagat gtgccggatg actttattac
     1261 tcagtatcgt attgtagacc cgatttcttt taagccaatc tacggccgtt ctggcaagct
     1321 agaaacagcg tactggggca gtcgtgccag tgagcgccaa gtgcgactgt acaacaaaaa
     1381 gctagagcag gaacgaaaaa aagtaatcgt gccaaaagaa atcgatacgt ggtggcggtt
     1441 agaaatgcag ctaagacgtg gcaaagcaac ggattggcat gcgatggttc aggaaagctt
     1501 agatagtttt gcaagcccgc attttttgcc gattgatata aaacctattg ataaaatagt
     1561 tattgatggt ttgatagctg agccttctaa ttggtcgata attgctagac atacaaaata
     1621 taaatatcgg aatttgctga agcaagaaag tcaaaatgat gagttaacga atcatttacg
     1681 agagacgttt aaggaatctg cagacgaatt aaaaaaagaa ttggatacgt ggcttttggg
     1741 gttggatgtg acagagaagt gataccgaat aagaaaagtc agatgagtga gagtggattt
     1801 gcgtcaatgt ttagtgacgt aaattcacga taagcgaata ttttgcatga agcaaaataa
     1861 agcgtaaaag gagttgagag cgtgacacgc tttcggctcc ttttttcgtt gtcacttgtg
     1921 acagcgaata ccctcggaga gcatttggaa ttgtgacagc catgtcacaa ttaggaaaat
//
