LOCUS       NZ_CP066621             1980 bp    DNA     circular CON 20-FEB-2024
DEFINITION  Enterococcus faecium strain Dallas 124_3 plasmid p124_3_1.9kb,
            complete sequence.
ACCESSION   NZ_CP066621
VERSION     NZ_CP066621.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN17038100
            Assembly: GCF_016415365.1
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  JOURNAL   Unpublished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                   :: 299.0x
            Sequencing Technology :: Illumina NextSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/20/2024 02:58:57
            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)                     :: 3,103
            CDSs (total)                      :: 3,012
            Genes (coding)                    :: 2,889
            CDSs (with protein)               :: 2,889
            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)              :: 123
            CDSs (without protein)            :: 123
            Pseudo Genes (ambiguous residues) :: 0 of 123
            Pseudo Genes (frameshifted)       :: 41 of 123
            Pseudo Genes (incomplete)         :: 74 of 123
            Pseudo Genes (internal stop)      :: 32 of 123
            Pseudo Genes (multiple problems)  :: 20 of 123
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP066621.1.
            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 124_3"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="p124_3_1.9kb"
                     /geo_loc_name="USA: Dallas"
                     /collection_date="2015"
     gene            904..1920
                     /locus_tag="JCP92_RS15410"
                     /old_locus_tag="JCP92_15410"
     CDS             904..1920
                     /locus_tag="JCP92_RS15410"
                     /old_locus_tag="JCP92_15410"
                     /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          905..1914
                     /name="rep_cluster_935"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.292"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 attcacgata agcgaatatt ttgcatgaag caaaataaag cgtaaaagga gttgagagcg
       61 tgacacgctt tcggctcctt ttttcgttgt cacttgtgac agcgaatacc ctcggagagc
      121 atttggaatt gtgacagcca tgtcacaatt aggaaaattt ttactctttg tcaaagagta
      181 acagaaaggt ttacactctt tttattagcg acagcgtgaa ggaggggttc accttagggt
      241 ttagtatttc gttcaaaaag ggaacaaaga atacaagcat ttctcataat aatcgtgagt
      301 taactgatag ccaaaaaatc aatggtttgt ctggtagaaa ataattagca gatttacaag
      361 tgggaaataa aaagctgaaa gaagaaaatt gcatttcaaa ctacattttc tacaatagct
      421 ctaaaatggc atattttgcg ttctgagcgg ttttagcgtt tatttcgttt agttatcggc
      481 acaatcgtta aaacacgtta gaggagcgaa aatggagcct gtaaggcgac tggtagcgga
      541 acgatcgtgt tagattgtga aaaccgatag ctgaatgaaa taaacagcgg gtgcgccctt
      601 tccatttcgg caggaggagg ctcaaggggt tcggggaatg aaattccctg aggtcttttt
      661 atttttttag gaggagtgct ataatcaaag aaaacgagaa aaaagagcaa aataaaagcc
      721 gagcagtgcg ctaacactct cgactattta cggaaactac ttcacctagc tccgtaactc
      781 aggttcatta tacgaatatt tttaggtttc ttcaagctag agatttttgg atatgaattt
      841 ttagggttac gtgaactctg gaaattcttt ccaaaagtct cttttttcgt ttggaggacg
      901 aaaatggcaa atgaaaatca gttgagtgaa attcaatcaa aaattgaagg tcgaggggca
      961 gaaaaaagaa caacgataaa tcagctcgaa aaacttaacc gtatttctaa caggcggtta
     1021 agtgtgcaag gtacgaccac ccccctaaaa ttaaattggt cgattgatcg aattacaatt
     1081 gtcggaaaac tgaatgatac catagcttat tggacgaaaa atggagttgt ttttgtcgat
     1141 ttcgagcaat taatgcgttt gaacgaaaat cagggatatt tgaaatcagt tgggataaac
     1201 ggctggcaat tattcgatca atatggagaa gatattgcgt atatcgaaat acttaaattt
     1261 catgaaggaa aaggtcgtat tgattttaat ccgaataaga taggccagtt tttagctagt
     1321 tccatgaaag gattcattca tgacctattt ttagatccgc atttttcccg ggcggatatt
     1381 gcctgcgata ttgtagatgt gccggatgac tttattactc agtatcgtat tgtagacccg
     1441 atttctttta agccaatcta cggccgttct ggcaagctag aaacagcgta ctggggcagt
     1501 cgtgccagtg agcgccaagt gcgactgtac aacaaaaagc tagagcagga acgaaaaaaa
     1561 gtaatcgtgc caaaagaaat cgatacgtgg tggcggttag aaatgcagct aagacgtggc
     1621 aaagcaacgg attggcatgc gatggttcag gaaagcttag atagttttgc aagcccgcat
     1681 tttttgccga ttgatataaa acctattgat aaaatagtta ttgatggttt gatagctgag
     1741 ccttctaatt ggtcgataat tgctagacat acaaaatata aatatcggaa tttgctgaag
     1801 caagaaagtc aaaatgatga gttaacgaat catttacgag agacgtttaa ggaatctgca
     1861 gacgaattaa aaaaagaatt ggatacgtgg cttttggggt tggatgtgac agagaagtga
     1921 taccgaataa gaaaagtcag atgagtgaga gtggatttgc gtcaatgttt agtgacgtaa
//
