LOCUS       NZ_CP066628             1980 bp    DNA     circular CON 20-FEB-2024
DEFINITION  Enterococcus faecium strain Dallas 131_2 plasmid p6, complete
            sequence.
ACCESSION   NZ_CP066628
VERSION     NZ_CP066628.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN17038101
            Assembly: GCF_016415465.1
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  JOURNAL   Unpublished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                   :: 134.0x
            Sequencing Technology :: Illumina NextSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/20/2024 02:58:25
            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)                     :: 3,128
            CDSs (total)                      :: 3,037
            Genes (coding)                    :: 2,917
            CDSs (with protein)               :: 2,917
            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)              :: 120
            CDSs (without protein)            :: 120
            Pseudo Genes (ambiguous residues) :: 0 of 120
            Pseudo Genes (frameshifted)       :: 42 of 120
            Pseudo Genes (incomplete)         :: 72 of 120
            Pseudo Genes (internal stop)      :: 30 of 120
            Pseudo Genes (multiple problems)  :: 20 of 120
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP066628.1.
            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 131_2"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="p6"
                     /geo_loc_name="USA: Dallas"
                     /collection_date="2015"
     gene            complement(112..1128)
                     /locus_tag="JCP79_RS15540"
                     /old_locus_tag="JCP79_15540"
     CDS             complement(112..1128)
                     /locus_tag="JCP79_RS15540"
                     /old_locus_tag="JCP79_15540"
                     /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          complement(116..1128)
                     /name="rep_cluster_935"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.217"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 ctccttttac gctttatttt gcttcatgca aaatattcgc ttatcgtgaa tttacgtcac
       61 taaacattga cgcaaatcca ctctcactca tctgactttt cttattcggt atcacttctc
      121 tgtcacatcc aaccccaaaa gccacgtatc caattctttt tttaattcgt ctgcagattc
      181 cttaaacgtc tctcgtaaat gattcgttaa ctcatcattt tgactttctt gcttcagcaa
      241 attccgatat ttatattttg tatgtctagc aattatcgac caattagaag gctcagctat
      301 caaaccatca ataactattt tatcaatagg ttttatatca atcggcaaaa aatgcgggct
      361 tgcaaaacta tctaagcttt cctgaaccat cgcatgccaa tccgttgctt tgccacgtct
      421 tagctgcatt tctaaccgcc accacgtatc gatttctttt ggcacgatta ctttttttcg
      481 ttcctgctct agctttttgt tgtacagtcg cacttggcgc tcactggcac gactgcccca
      541 gtacgctgtt tctagcttgc cagaacggcc gtagattggc ttaaaagaaa tcgggtctac
      601 aatacgatac tgagtaataa agtcatccgg cacatctaca atatcgcagg caatatccgc
      661 ccgggaaaaa tgcggatcta aaaataggtc atgaatgaat cctttcatgg aactagctaa
      721 aaactggcct atcttattcg gattaaaatc aatacgacct tttccttcat gaaatttaag
      781 tatttcgata tacgcaatat cttctccata ttgatcgaat aattgccagc cgtttatccc
      841 aactgatttc aaatatccct gattttcgtt caaacgcatt aattgctcga aatcgacaaa
      901 aacaactcca tttttcgtcc aataagctat ggtatcattc agttttccga caattgtaat
      961 tcgatcaatc gaccaattta attttagggg ggtggtcgta ccttgcacac ttaaccgcct
     1021 gttagaaata cggttaagtt tttcgagctg atttatcgtt gttctttttt ctgcccctcg
     1081 accttcaatt tttgattgaa tttcactcaa ctgattttca tttgccattt tcgtcctcca
     1141 aacgaaaaaa gagacttttg gaaagaattt ccagagttca cgtaacccta aaaattcata
     1201 tccaaaaatc tctagcttga agaaacctaa aaatattcgt ataatgaacc tgagttacgg
     1261 agctaggtga agtagtttcc gtaaatagtc gagagtgtta gcgcactgct cggcttttat
     1321 tttgctcttt tttctcgttt tctttgatta tagcactcct cctaaaaaaa taaaaagacc
     1381 tcagggaatt tcattccccg aaccccttga gcctcctcct gccgaaatgg aaagggcgca
     1441 cccgctgttt atttcattca gctatcggtt ttcacaatct aacacgatcg ttccgctacc
     1501 agtcgcctta caggctccat tttcgctcct ctaacgtgtt ttaacgattg tgccgataac
     1561 taaacgaaat aaacgctaaa accgctcaga acgcaaaata tgccatttta gagctattgt
     1621 agaaaatgta gtttgaaatg caattttctt ctttcagctt tttatttccc acttgtaaat
     1681 ctgctaatta ttttctacca gacaaaccat tgattttttg gctatcagtt aactcacgat
     1741 tattatgaga aatgcttgta ttctttgttc cctttttgaa cgaaatacta aaccctaagg
     1801 tgaacccctc cttcacgctg tcgctaataa aaagagtgta aacctttctg ttactctttg
     1861 acaaagagta aaaattttcc taattgtgac atggctgtca caattccaaa tgctctccga
     1921 gggtattcgc tgtcacaagt gacaacgaaa aaaggagccg aaagcgtgtc acgctctcaa
//
