LOCUS       NZ_CP066605             2189 bp    DNA     circular CON 20-FEB-2024
DEFINITION  Enterococcus faecium strain Dallas 111 plasmid p111_2kb, complete
            sequence.
ACCESSION   NZ_CP066605
VERSION     NZ_CP066605.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN17038095
            Assembly: GCF_016415345.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 2189)
  AUTHORS   Islam,M.J. and Palmer,K.
  TITLE     Molecular characterization of VREfm isolates from Dallas, Texas
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2189)
  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                   :: 60.0x
            Sequencing Technology :: Illumina NextSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/20/2024 02:48:21
            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)                     :: 3,043
            CDSs (total)                      :: 2,955
            Genes (coding)                    :: 2,822
            CDSs (with protein)               :: 2,822
            Genes (RNA)                       :: 88
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 66
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 133
            CDSs (without protein)            :: 133
            Pseudo Genes (ambiguous residues) :: 0 of 133
            Pseudo Genes (frameshifted)       :: 63 of 133
            Pseudo Genes (incomplete)         :: 74 of 133
            Pseudo Genes (internal stop)      :: 26 of 133
            Pseudo Genes (multiple problems)  :: 27 of 133
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP066605.1.
            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..2189
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="Dallas 111"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="p111_2kb"
                     /geo_loc_name="USA: Dallas"
                     /collection_date="2015"
     gene            complement(150..1115)
                     /locus_tag="JCP62_RS15105"
                     /old_locus_tag="JCP62_15110"
     CDS             complement(150..1115)
                     /locus_tag="JCP62_RS15105"
                     /old_locus_tag="JCP62_15110"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002305972.1"
                     /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_002305972.1"
                     /translation="MSKRGTIINEWENLTALSNRRLSVQTLTTPLKIQWSIDRITIVGK
                     LKENIYYHTQNDVLILDFEQLMRLNENNGYVKSVGLNGWQIVDKHDENIAYIEILKYQE
                     GQGRIDFNPNKISQFLAGSMKNFIHDLFLEPHFSRADIACDIIDVPDDFITQYRVVDPV
                     SFKPIYGRSGKLETAYWGSRASERQIRMYNKKLEQETKRKIVPPEIKTWWRLELQLRRG
                     KATDWYAMVHESLDSFASPHFLPTDTKHTDRIMIAGLISDQNLWAGLARHTKYKYRNLL
                     KKESQSDELVNHLRETFSESADVLKKELDTWLLGLDVTEE"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            complement(<1698..1880)
                     /locus_tag="JCP62_RS15110"
                     /old_locus_tag="JCP62_15115"
                     /pseudo=""
     CDS             complement(<1698..1880)
                     /locus_tag="JCP62_RS15110"
                     /old_locus_tag="JCP62_15115"
                     /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(154..1037)
                     /name="rep_cluster_943"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.588"
                     /coverage="98.0"
                     /evalue="0.0"
ORIGIN
        1 tattataaaa agccaagtct ctttgcgcaa ctgttttatc caagtcggca tttgcggatt
       61 cgttagcgtt ttttcgctct tgctgcaaac gcacgaccca ccatgccgac ttgtgctgaa
      121 aataaaaaag tggacaaaaa ttcatccact cattcttccg tcacgtccaa ccccaaaagc
      181 cacgtatcca attctttttt caaaacatct gccgattccg aaaatgtctc tcgtaaatga
      241 ttaactaact catcactttg gctttctttt ttcaacaaat ttcgatattt atattttgta
      301 tgacgagcca agccagccca taaattttga tctgaaatca atcctgcaat cataattcta
      361 tcagtatgct ttgtatcagt cggcaaaaaa tgaggacttg cgaaactgtc taaactttca
      421 tgaaccatcg cataccaatc agtagctttt ccacgccgta actgcaattc cagtcgccac
      481 caagttttta tttccggtgg tacaattttc cgtttggttt cttgttccaa ttttttgttg
      541 tacatcctta tttgtcgctc actggcacga ctaccccaat atgccgtttc cagcttccca
      601 gaccgcccat agattggttt gaatgaaaca gggtcaacca cacgatattg cgtaataaaa
      661 tcatcaggca catcgataat gtcgcaagca atatcagcac gtgagaaatg tggttctaaa
      721 aataaatcat ggataaagtt cttcatcgaa cccgccaaaa attggctaat tttatttggg
      781 ttaaagtcaa ttcgcccttg cccttcttga tatttcaaaa tttcaatgta agcaatattc
      841 tcatcatgct tatccacaat ttgccaacca tttagaccaa cagatttaac ataaccatta
      901 ttttcattca gtcgcattaa ctgttcaaag tctaaaatca atacatcatt ttgcgtgtga
      961 taataaatat tctctttgag ttttccaaca atggtaattc ggtcaattga ccactgtatt
     1021 ttaagggggg tggtcaaagt ttgcacactt aaccgcctgt tagatagggc tgttaaattt
     1081 tcccactcat ttatgatcgt gccacgttta ctcaaatttt gttcctcctc aaagaaaaag
     1141 agacttttgg aaagaatttc cagagttcac gtaaccctaa aaattcatat ccaaaaatct
     1201 ctagcttgaa gaaacctaaa aatattcgta taatgaacct gagttacgga gctaggtgaa
     1261 gtagtttccg taaatagtcg agagtgttag cgcactgctc ggcttttatt ttgctctttt
     1321 ttctcgtttt ctttgattat agcactcctc ctaaaaaaat aaaaagacct cagggaattt
     1381 cattccccga accccttgag cctcctcctg ccgaaatgga aagggcgcac ccgctgttta
     1441 tttcattcag ctatcggctt tcacaatcta acacgatcgt tccgctacca gtcgccttac
     1501 aggctccatt ttcgctcctc taacgtgttt taacgattgt gccgataact aaacgaaata
     1561 aacgctaaaa ccgctcagaa cgcaaaatat gccattttag agctattgta gaaaatgtag
     1621 tttgaaatgc aattttcttc tttcagcttt ttatttccca cttgtaaatc tgctaattat
     1681 tttctaccag acaaaccatt gattttttgg ctatcagtta actcacgatt attatgagaa
     1741 atgcttgtat tctttgttcc ctttttgaac gaaatactaa accctaaggt gaacccctcc
     1801 ttcgcgctgt cgctaataaa aagagtgtaa acctttctgt tactctttga caaagagtaa
     1861 cattttccta attgtgacat ggctgtcaca attccaaacg ctctccgagg gttttcgctg
     1921 tcacaagtga caacgaaaaa aggagccgaa agcgtgtcac gctctcaact ccttttacgc
     1981 tttattttgc ttcacgcaaa ataatcgctt atcttaaaca ttgacgtaaa tttactctca
     2041 cttatctgac ttttttactc ggtatcactc cgagtaagcc gtcatattca ttgggataat
     2101 ctcgtctgct tcgctctaat tttccagagt gaggggtaac tccttccccc gaattacccc
     2161 aaagagtgac actgggatat ccctaaatt
//
