LOCUS       NZ_CP066400             1933 bp    DNA     circular CON 20-FEB-2024
DEFINITION  Enterococcus faecium strain Dallas 51_4 plasmid p51_4_1.93kb,
            complete sequence.
ACCESSION   NZ_CP066400
VERSION     NZ_CP066400.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN17038075
            Assembly: GCF_016406465.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 1933)
  AUTHORS   Islam,M.J. and Palmer,K.
  TITLE     Molecular characterization of VREfm isolates from Dallas, Texas
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1933)
  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                   :: 146.0x
            Sequencing Technology :: Illumina NextSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/20/2024 02:56:45
            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)                     :: 3,320
            CDSs (total)                      :: 3,229
            Genes (coding)                    :: 3,102
            CDSs (with protein)               :: 3,102
            Genes (RNA)                       :: 91
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 69
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 127
            CDSs (without protein)            :: 127
            Pseudo Genes (ambiguous residues) :: 0 of 127
            Pseudo Genes (frameshifted)       :: 44 of 127
            Pseudo Genes (incomplete)         :: 77 of 127
            Pseudo Genes (internal stop)      :: 35 of 127
            Pseudo Genes (multiple problems)  :: 23 of 127
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP066400.1.
            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..1933
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="Dallas 51_4"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="p51_4_1.93kb"
                     /geo_loc_name="USA: Dallas"
                     /collection_date="2015"
     gene            complement(join(988..1933,1..20))
                     /locus_tag="JCQ06_RS14110"
                     /old_locus_tag="JCQ06_14115"
     CDS             complement(join(988..1933,1..20))
                     /locus_tag="JCQ06_RS14110"
                     /old_locus_tag="JCQ06_14115"
                     /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_044384225.1"
                     /translation="MSKKGTIINEWEKLTAPSNRRLSVDDKVHPLKLSWSIDRITIVGK
                     LKENIYYHTPNDVLILDFEQLMRLNEGNGYLRSVSNNGWQLLDQHEENIAYIEILKWQE
                     GKGRIDFNPNKISQFLASSMKNFIHDLFIEPHFSRADIACDIIDVPDEFITQYRVVDPV
                     SFKPIYGRNGKLETAYWGSRSSERQIRMYNKKLEQEKKRKIVPKEIVSWWRLEMQLRRG
                     KATDWHAMVRESLDSFASPHYLPGDVKPVDRIMIKGLNQDHSEWAYISRNLKYRLRKLL
                     KEESQNDELTNHLRETFAESADDLKKELDTWLLGLDVTEE"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            complement(<606..788)
                     /locus_tag="JCQ06_RS14115"
                     /old_locus_tag="JCQ06_14120"
                     /pseudo=""
     CDS             complement(<606..788)
                     /locus_tag="JCQ06_RS14115"
                     /old_locus_tag="JCQ06_14120"
                     /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          complement(992..1870)
                     /name="rep_cluster_2146"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.206"
                     /coverage="98.0"
                     /evalue="0.0"
ORIGIN
        1 atcgtgcctt ttttactcaa atttagttcc tcctcaaaga aaaaagagac ttctggaaag
       61 aattttcaaa agttcacgta actcttaaaa attcattacc aaaaaatctc tagtcttgaa
      121 gaaacctaaa aatattcgta taatgattaa gaagttacgg agctagtgtg attagtttcc
      181 gtaaaggtcg agagtgcgtc aacactgctc gactattttt ttactctttt ttctcatttt
      241 ctttgattat agcactcctc tagaaaaaat aaaaagacct cagggaattt cattccccga
      301 accccttgag cctcctcctg ccgaaataga atggcgctgc cagcatttat ttcgttcagc
      361 tatcggctac acaatctaac acgaccgttc cgctaccagt cgccttacag gctccatttt
      421 cgctcctcta acgtgtttca ccgattgtgc cgataactaa acgaaataaa cgctaaaacc
      481 gctcagaacg caaaatatgc cattttagag ctattgtaga aaatgtagtt tgaaatgcaa
      541 ttttcttctt tcagcttttt atttcccact tgtaaatctg ctaattattt tctaccagac
      601 aaaccattga ttttttggct atcagttaac tcacgattat tatgagaaat gcttgtattt
      661 tttgttccct ttttgaacga aatactaaac cccaagttaa acccctcctt cgcgctgtcg
      721 ccaataaaaa gagtgtaaac ctttctgtta ctctttgaca aagagtaaca ttttcctaat
      781 tgtgacatgg ctgtcacaat tccaaatgct ctccgagggt attcgctgtc acaagtgaca
      841 acgaaaaaag gagccgaaag cgtgtcacgc tctcaactcc ttttacgctt tattttgctt
      901 cacgcaaaat aatcgcttat cgtaaactca cgtcattaaa cattgacgta aatttactct
      961 cactcatctg acttttctta ttcggtatca ctcctctgtt acgtctagcc ctagaagcca
     1021 tgtgtctaat tcttttttta aatcgtctgc cgattctgca aaggtttctc gcaaatgatt
     1081 cgtcaattca tcattttggc tttcttcttt caacaatttg cgcaatctat atttcaaatt
     1141 tctgctaata tacgcccact ctgaatgatc ttgattcagc ccttttatca taattctatc
     1201 aacaggtttt acatctccag gcaagtaatg aggacttgca aagctatcta aactttcccg
     1261 aaccatcgca tgccaatctg ttgctttgcc acgtcttagc tgcatttcta accgccacca
     1321 actcacgatt tcttttggca caatttttct tttcttctct tgttccagtt ttttattata
     1381 catccgaatt tgacgttcag aagagcgaga tccccaatat gccgtctcta attttccatt
     1441 ccgtccataa ataggcttaa aagaaactgg atcaactacc cgatattgtg taataaactc
     1501 atcaggtaca tcgataatgt cgcaagcaat atctgcacgt gaaaagtgag gttcgataaa
     1561 caaatcatga ataaaatttt tcatggaact agctaagaat tgactaatct tattcggatt
     1621 gaagtctata cgccctttcc cctcttgcca ttttaaaatt tcaatataag caatattctc
     1681 ttcatgttgg tctaacaact gccaaccatt attactaaca gatcttaaat aaccgttacc
     1741 ttcatttagg cgcataagct gttcaaaatc taaaatcaac acatcatttg gagtgtgata
     1801 ataaatattt tctttcagtt ttccgacgat tgtaattcga tcgattgacc aacttaattt
     1861 tagggggtgt accttatcgt caacacttaa ccgcctgtta gagggggctg ttaatttttc
     1921 ccactcattt atg
//
