LOCUS       NZ_CP065935             1981 bp    DNA     circular CON 18-FEB-2024
DEFINITION  Enterococcus faecium strain Dallas 5 plasmid p5_1.9kb, complete
            sequence.
ACCESSION   NZ_CP065935
VERSION     NZ_CP065935.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN17038066
            Assembly: GCF_016126675.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 1981)
  AUTHORS   Islam,M.J. and Palmer,K.
  TITLE     Molecular characterization of VREfm isolates from Dallas, Texas
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1981)
  AUTHORS   Islam,M.J.
  TITLE     Direct Submission
  JOURNAL   Submitted (09-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                   :: 48.0x
            Sequencing Technology :: Oxford Nanopore MinION; Illumina NextSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/18/2024 03:26:52
            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)                     :: 3,144
            CDSs (total)                      :: 3,053
            Genes (coding)                    :: 2,938
            CDSs (with protein)               :: 2,938
            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)              :: 115
            CDSs (without protein)            :: 115
            Pseudo Genes (ambiguous residues) :: 0 of 115
            Pseudo Genes (frameshifted)       :: 42 of 115
            Pseudo Genes (incomplete)         :: 64 of 115
            Pseudo Genes (internal stop)      :: 31 of 115
            Pseudo Genes (multiple problems)  :: 18 of 115
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP065935.1.
            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..1981
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="Dallas 5"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="p5_1.9kb"
                     /geo_loc_name="USA: Dallas"
                     /collection_date="2015"
     gene            complement(join(1010..1981,1..45))
                     /locus_tag="JCP67_RS15580"
                     /old_locus_tag="JCP67_15580"
     CDS             complement(join(1010..1981,1..45))
                     /locus_tag="JCP67_RS15580"
                     /old_locus_tag="JCP67_15580"
                     /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(1014..1981)
                     /name="rep_cluster_935"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.856"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 ttcaattttt gattgaattt cactcaactg attttcattt gccattttcg tcctccaaac
       61 gaaaaaagag acttttggaa agaatttcca gagttcacgt aaccctaaaa attcatatcc
      121 aaaaatctct agcttgaaga aacctaaaaa tattcgtata atgaacctga gttacggagc
      181 taggtgaagt agtttccgta aatagtcgag agtgttagcg cactgctcgg cttttatttt
      241 gctctttttt ctcgttttct ttgattatag cactcctcct aaaaaaataa aaagacctca
      301 gggaatttca ttccccgaac cccttgagcc tcctcctgcc gaaatggaaa gggcgcaccc
      361 gctgtttatt tcattcagct atcggttttc acaatctaac acgatcgttc cgctaccagt
      421 cgccttacag gctccatttt cgctcctcta acgtgtttta acgattgtgc cgataaacta
      481 aacgaaataa acgctaaaac cgctcagaac gcaaaatatg ccattttaga gctattgtag
      541 aaaatgtagt ttgaaatgca attttcttct ttcagctttt tatttcccac ttgtaaatct
      601 gctaattatt ttctaccaga caaaccattg attttttggc tatcagttaa ctcacgatta
      661 ttatgagaaa tgcttgtatt ctttgttccc tttttgaacg aaatactaaa ccctaaggtg
      721 aacccctcct tcacgctgtc gctaataaaa agagtgtaaa cctttctgtt actctttgac
      781 aaagagtaaa aattttccta attgtgacat ggctgtcaca attccaaatg ctctccgagg
      841 gtattcgctg tcacaagtga caacgaaaaa aggagccgaa agcgtgtcac gctctcaact
      901 ccttttacgc tttattttgc ttcatgcaaa atattcgctt atcgtgaatt tacgtcacta
      961 aacattgacg caaatccact ctcactcatc tgacttttct tattcggtat cacttctctg
     1021 tcacatccaa ccccaaaagc cacgtatcca attctttttt taattcgtct gcagattcct
     1081 taaacgtctc tcgtaaatga ttcgttaact catcattttg actttcttgc ttcagcaaat
     1141 tccgatattt atattttgta tgtctagcaa ttatcgacca attagaaggc tcagctatca
     1201 aaccatcaat aactatttta tcaataggtt ttatatcaat cggcaaaaaa tgcgggcttg
     1261 caaaactatc taagctttcc tgaaccatcg catgccaatc cgttgctttg ccacgtctta
     1321 gctgcatttc taaccgccac cacgtatcga tttcttttgg cacgattact ttttttcgtt
     1381 cctgctctag ctttttgttg tacagtcgca cttggcgctc actggcacga ctgccccagt
     1441 acgctgtttc tagcttgcca gaacggccgt agattggctt aaaagaaatc gggtctacaa
     1501 tacgatactg agtaataaag tcatccggca catctacaat atcgcaggca atatccgccc
     1561 gggaaaaatg cggatctaaa aataggtcat gaatgaatcc tttcatggaa ctagctaaaa
     1621 actggcctat cttattcgga ttaaaatcaa tacgaccttt tccttcatga aatttaagta
     1681 tttcgatata cgcaatatct tctccatatt gatcgaataa ttgccagccg tttatcccaa
     1741 ctgatttcaa atatccctga ttttcgttca aacgcattaa ttgctcgaaa tcgacaaaaa
     1801 caactccatt tttcgtccaa taagctatgg tatcattcag ttttccgaca attgtaattc
     1861 gatcaatcga ccaatttaat tttagggggg tggtcgtacc ttgcacactt aaccgcctgt
     1921 tagaaatacg gttaagtttt tcgagctgat ttatcgttgt tcttttttct gcccctcgac
     1981 c
//
