LOCUS       NZ_CP066420             1980 bp    DNA     circular CON 19-FEB-2024
DEFINITION  Enterococcus faecium strain Dallas 53_1 plasmid p53_1_1.9kb,
            complete sequence.
ACCESSION   NZ_CP066420
VERSION     NZ_CP066420.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN17038078
            Assembly: GCF_016406365.1
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  JOURNAL   Unpublished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 (20-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                   :: 256.0x
            Sequencing Technology :: Illumina NextSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/19/2024 03:59:44
            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)                     :: 3,131
            CDSs (total)                      :: 3,040
            Genes (coding)                    :: 2,918
            CDSs (with protein)               :: 2,918
            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)              :: 122
            CDSs (without protein)            :: 122
            Pseudo Genes (ambiguous residues) :: 0 of 122
            Pseudo Genes (frameshifted)       :: 44 of 122
            Pseudo Genes (incomplete)         :: 72 of 122
            Pseudo Genes (internal stop)      :: 30 of 122
            Pseudo Genes (multiple problems)  :: 20 of 122
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP066420.1.
            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 53_1"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="p53_1_1.9kb"
                     /geo_loc_name="USA: Dallas"
                     /collection_date="2015"
     gene            825..1841
                     /locus_tag="JCP73_RS15555"
                     /old_locus_tag="JCP73_15545"
     CDS             825..1841
                     /locus_tag="JCP73_RS15555"
                     /old_locus_tag="JCP73_15545"
                     /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          826..1835
                     /name="rep_cluster_935"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.292"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 tttttcgttg tcacttgtga cagcgaatac cctcggagag catttggaat tgtgacagcc
       61 atgtcacaat taggaaaatt tttactcttt gtcaaagagt aacagaaagg tttacactct
      121 ttttattagc gacagcgtga aggaggggtt caccttaggg tttagtattt cgttcaaaaa
      181 gggaacaaag aatacaagca tttctcataa taatcgtgag ttaactgata gccaaaaaat
      241 caatggtttg tctggtagaa aataattagc agatttacaa gtgggaaata aaaagctgaa
      301 agaagaaaat tgcatttcaa actacatttt ctacaatagc tctaaaatgg catattttgc
      361 gttctgagcg gttttagcgt ttatttcgtt tagttatcgg cacaatcgtt aaaacacgtt
      421 agaggagcga aaatggagcc tgtaaggcga ctggtagcgg aacgatcgtg ttagattgtg
      481 aaaaccgata gctgaatgaa ataaacagcg ggtgcgccct ttccatttcg gcaggaggag
      541 gctcaagggg ttcggggaat gaaattccct gaggtctttt tattttttta ggaggagtgc
      601 tataatcaaa gaaaacgaga aaaaagagca aaataaaagc cgagcagtgc gctaacactc
      661 tcgactattt acggaaacta cttcacctag ctccgtaact caggttcatt atacgaatat
      721 ttttaggttt cttcaagcta gagatttttg gatatgaatt tttagggtta cgtgaactct
      781 ggaaattctt tccaaaagtc tcttttttcg tttggaggac gaaaatggca aatgaaaatc
      841 agttgagtga aattcaatca aaaattgaag gtcgaggggc agaaaaaaga acaacgataa
      901 atcagctcga aaaacttaac cgtatttcta acaggcggtt aagtgtgcaa ggtacgacca
      961 cccccctaaa attaaattgg tcgattgatc gaattacaat tgtcggaaaa ctgaatgata
     1021 ccatagctta ttggacgaaa aatggagttg tttttgtcga tttcgagcaa ttaatgcgtt
     1081 tgaacgaaaa tcagggatat ttgaaatcag ttgggataaa cggctggcaa ttattcgatc
     1141 aatatggaga agatattgcg tatatcgaaa tacttaaatt tcatgaagga aaaggtcgta
     1201 ttgattttaa tccgaataag ataggccagt ttttagctag ttccatgaaa ggattcattc
     1261 atgacctatt tttagatccg catttttccc gggcggatat tgcctgcgat attgtagatg
     1321 tgccggatga ctttattact cagtatcgta ttgtagaccc gatttctttt aagccaatct
     1381 acggccgttc tggcaagcta gaaacagcgt actggggcag tcgtgccagt gagcgccaag
     1441 tgcgactgta caacaaaaag ctagagcagg aacgaaaaaa agtaatcgtg ccaaaagaaa
     1501 tcgatacgtg gtggcggtta gaaatgcagc taagacgtgg caaagcaacg gattggcatg
     1561 cgatggttca ggaaagctta gatagttttg caagcccgca ttttttgccg attgatataa
     1621 aacctattga taaaatagtt attgatggtt tgatagctga gccttctaat tggtcgataa
     1681 ttgctagaca tacaaaatat aaatatcgga atttgctgaa gcaagaaagt caaaatgatg
     1741 agttaacgaa tcatttacga gagacgttta aggaatctgc agacgaatta aaaaaagaat
     1801 tggatacgtg gcttttgggg ttggatgtga cagagaagtg ataccgaata agaaaagtca
     1861 gatgagtgag agtggatttg cgtcaatgtt tagtgacgta aattcacgat aagcgaatat
     1921 tttgcatgaa gcaaaataaa gcgtaaaagg agttgagagc gtgacacgct ttcggctcct
//
