LOCUS       NZ_CP066582             1980 bp    DNA     circular CON 20-FEB-2024
DEFINITION  Enterococcus faecium strain Dallas 100_1 plasmid p100_1_1.9kb,
            complete sequence.
ACCESSION   NZ_CP066582
VERSION     NZ_CP066582.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN17038091
            Assembly: GCF_016415285.1
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  JOURNAL   Unpublished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                   :: 68.0x
            Sequencing Technology :: Illumina NextSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/20/2024 02:42:11
            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)                     :: 3,233
            CDSs (total)                      :: 3,141
            Genes (coding)                    :: 3,000
            CDSs (with protein)               :: 3,000
            Genes (RNA)                       :: 92
            rRNAs                             :: 6, 5, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 5, 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)       :: 51 of 141
            Pseudo Genes (incomplete)         :: 84 of 141
            Pseudo Genes (internal stop)      :: 34 of 141
            Pseudo Genes (multiple problems)  :: 23 of 141
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP066582.1.
            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 100_1"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="p100_1_1.9kb"
                     /geo_loc_name="USA: Dallas"
                     /collection_date="2015"
     gene            26..1042
                     /locus_tag="JCP75_RS16040"
                     /old_locus_tag="JCP75_16040"
     CDS             26..1042
                     /locus_tag="JCP75_RS16040"
                     /old_locus_tag="JCP75_16040"
                     /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          27..1036
                     /name="rep_cluster_935"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.292"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 ctcttttttc gtttggagga cgaaaatggc aaatgaaaat cagttgagtg aaattcaatc
       61 aaaaattgaa ggtcgagggg cagaaaaaag aacaacgata aatcagctcg aaaaacttaa
      121 ccgtatttct aacaggcggt taagtgtgca aggtacgacc acccccctaa aattaaattg
      181 gtcgattgat cgaattacaa ttgtcggaaa actgaatgat accatagctt attggacgaa
      241 aaatggagtt gtttttgtcg atttcgagca attaatgcgt ttgaacgaaa atcagggata
      301 tttgaaatca gttgggataa acggctggca attattcgat caatatggag aagatattgc
      361 gtatatcgaa atacttaaat ttcatgaagg aaaaggtcgt attgatttta atccgaataa
      421 gataggccag tttttagcta gttccatgaa aggattcatt catgacctat ttttagatcc
      481 gcatttttcc cgggcggata ttgcctgcga tattgtagat gtgccggatg actttattac
      541 tcagtatcgt attgtagacc cgatttcttt taagccaatc tacggccgtt ctggcaagct
      601 agaaacagcg tactggggca gtcgtgccag tgagcgccaa gtgcgactgt acaacaaaaa
      661 gctagagcag gaacgaaaaa aagtaatcgt gccaaaagaa atcgatacgt ggtggcggtt
      721 agaaatgcag ctaagacgtg gcaaagcaac ggattggcat gcgatggttc aggaaagctt
      781 agatagtttt gcaagcccgc attttttgcc gattgatata aaacctattg ataaaatagt
      841 tattgatggt ttgatagctg agccttctaa ttggtcgata attgctagac atacaaaata
      901 taaatatcgg aatttgctga agcaagaaag tcaaaatgat gagttaacga atcatttacg
      961 agagacgttt aaggaatctg cagacgaatt aaaaaaagaa ttggatacgt ggcttttggg
     1021 gttggatgtg acagagaagt gataccgaat aagaaaagtc agatgagtga gagtggattt
     1081 gcgtcaatgt ttagtgacgt aaattcacga taagcgaata ttttgcatga agcaaaataa
     1141 agcgtaaaag gagttgagag cgtgacacgc tttcggctcc ttttttcgtt gtcacttgtg
     1201 acagcgaata ccctcggaga gcatttggaa ttgtgacagc catgtcacaa ttaggaaaat
     1261 ttttactctt tgtcaaagag taacagaaag gtttacactc tttttattag cgacagcgtg
     1321 aaggaggggt tcaccttagg gtttagtatt tcgttcaaaa agggaacaaa gaatacaagc
     1381 atttctcata ataatcgtga gttaactgat agccaaaaaa tcaatggttt gtctggtaga
     1441 aaataattag cagatttaca agtgggaaat aaaaagctga aagaagaaaa ttgcatttca
     1501 aactacattt tctacaatag ctctaaaatg gcatattttg cgttctgagc ggttttagcg
     1561 tttatttcgt ttagttatcg gcacaatcgt taaaacacgt tagaggagcg aaaatggagc
     1621 ctgtaaggcg actggtagcg gaacgatcgt gttagattgt gaaaaccgat agctgaatga
     1681 aataaacagc gggtgcgccc tttccatttc ggcaggagga ggctcaaggg gttcggggaa
     1741 tgaaattccc tgaggtcttt ttattttttt aggaggagtg ctataatcaa agaaaacgag
     1801 aaaaaagagc aaaataaaag ccgagcagtg cgctaacact ctcgactatt tacggaaact
     1861 acttcaccta gctccgtaac tcaggttcat tatacgaata tttttaggtt tcttcaagct
     1921 agagattttt ggatatgaat ttttagggtt acgtgaactc tggaaattct ttccaaaagt
//
