LOCUS       NZ_CP066584             1980 bp    DNA     circular CON 20-FEB-2024
DEFINITION  Enterococcus faecium strain Dallas 103 plasmid p103_1.9kb, complete
            sequence.
ACCESSION   NZ_CP066584
VERSION     NZ_CP066584.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN17038093
            Assembly: GCF_016415105.1
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  JOURNAL   Unpublished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                   :: 74.0x
            Sequencing Technology :: Illumina NextSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/20/2024 02:58:44
            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)                     :: 3,147
            CDSs (total)                      :: 3,056
            Genes (coding)                    :: 2,881
            CDSs (with protein)               :: 2,881
            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)              :: 175
            CDSs (without protein)            :: 175
            Pseudo Genes (ambiguous residues) :: 0 of 175
            Pseudo Genes (frameshifted)       :: 101 of 175
            Pseudo Genes (incomplete)         :: 73 of 175
            Pseudo Genes (internal stop)      :: 35 of 175
            Pseudo Genes (multiple problems)  :: 30 of 175
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP066584.1.
            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 103"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="p103_1.9kb"
                     /geo_loc_name="USA: Dallas"
                     /collection_date="2015"
     gene            324..1340
                     /locus_tag="JCP83_RS13900"
                     /old_locus_tag="JCP83_13900"
     CDS             324..1340
                     /locus_tag="JCP83_RS13900"
                     /old_locus_tag="JCP83_13900"
                     /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          325..1334
                     /name="rep_cluster_935"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.292"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 taaacagcgg gtgcgccctt tccatttcgg caggaggagg ctcaaggggt tcggggaatg
       61 aaattccctg aggtcttttt atttttttag gaggagtgct ataatcaaag aaaacgagaa
      121 aaaagagcaa aataaaagcc gagcagtgcg ctaacactct cgactattta cggaaactac
      181 ttcacctagc tccgtaactc aggttcatta tacgaatatt tttaggtttc ttcaagctag
      241 agatttttgg atatgaattt ttagggttac gtgaactctg gaaattcttt ccaaaagtct
      301 cttttttcgt ttggaggacg aaaatggcaa atgaaaatca gttgagtgaa attcaatcaa
      361 aaattgaagg tcgaggggca gaaaaaagaa caacgataaa tcagctcgaa aaacttaacc
      421 gtatttctaa caggcggtta agtgtgcaag gtacgaccac ccccctaaaa ttaaattggt
      481 cgattgatcg aattacaatt gtcggaaaac tgaatgatac catagcttat tggacgaaaa
      541 atggagttgt ttttgtcgat ttcgagcaat taatgcgttt gaacgaaaat cagggatatt
      601 tgaaatcagt tgggataaac ggctggcaat tattcgatca atatggagaa gatattgcgt
      661 atatcgaaat acttaaattt catgaaggaa aaggtcgtat tgattttaat ccgaataaga
      721 taggccagtt tttagctagt tccatgaaag gattcattca tgacctattt ttagatccgc
      781 atttttcccg ggcggatatt gcctgcgata ttgtagatgt gccggatgac tttattactc
      841 agtatcgtat tgtagacccg atttctttta agccaatcta cggccgttct ggcaagctag
      901 aaacagcgta ctggggcagt cgtgccagtg agcgccaagt gcgactgtac aacaaaaagc
      961 tagagcagga acgaaaaaaa gtaatcgtgc caaaagaaat cgatacgtgg tggcggttag
     1021 aaatgcagct aagacgtggc aaagcaacgg attggcatgc gatggttcag gaaagcttag
     1081 atagttttgc aagcccgcat tttttgccga ttgatataaa acctattgat aaaatagtta
     1141 ttgatggttt gatagctgag ccttctaatt ggtcgataat tgctagacat acaaaatata
     1201 aatatcggaa tttgctgaag caagaaagtc aaaatgatga gttaacgaat catttacgag
     1261 agacgtttaa ggaatctgca gacgaattaa aaaaagaatt ggatacgtgg cttttggggt
     1321 tggatgtgac agagaagtga taccgaataa gaaaagtcag atgagtgaga gtggatttgc
     1381 gtcaatgttt agtgacgtaa attcacgata agcgaatatt ttgcatgaag caaaataaag
     1441 cgtaaaagga gttgagagcg tgacacgctt tcggctcctt ttttcgttgt cacttgtgac
     1501 agcgaatacc ctcggagagc atttggaatt gtgacagcca tgtcacaatt aggaaaattt
     1561 ttactctttg tcaaagagta acagaaaggt ttacactctt tttattagcg acagcgtgaa
     1621 ggaggggttc accttagggt ttagtatttc gttcaaaaag ggaacaaaga atacaagcat
     1681 ttctcataat aatcgtgagt taactgatag ccaaaaaatc aatggtttgt ctggtagaaa
     1741 ataattagca gatttacaag tgggaaataa aaagctgaaa gaagaaaatt gcatttcaaa
     1801 ctacattttc tacaatagct ctaaaatggc atattttgcg ttctgagcgg ttttagcgtt
     1861 tatttcgttt agttatcggc acaatcgtta aaacacgtta gaggagcgaa aatggagcct
     1921 gtaaggcgac tggtagcgga acgatcgtgt tagattgtga aaaccgatag ctgaatgaaa
//
