LOCUS       NZ_CP066644             1980 bp    DNA     circular CON 20-FEB-2024
DEFINITION  Enterococcus faecium strain Dallas 144_1 plasmid p144_1_1.9kb,
            complete sequence.
ACCESSION   NZ_CP066644
VERSION     NZ_CP066644.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN17038103
            Assembly: GCF_016415405.1
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  JOURNAL   Unpublished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                   :: 266.0x
            Sequencing Technology :: Illumina NextSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/20/2024 02:43:36
            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)                     :: 3,211
            CDSs (total)                      :: 3,120
            Genes (coding)                    :: 3,025
            CDSs (with protein)               :: 3,025
            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)              :: 95
            CDSs (without protein)            :: 95
            Pseudo Genes (ambiguous residues) :: 0 of 95
            Pseudo Genes (frameshifted)       :: 33 of 95
            Pseudo Genes (incomplete)         :: 51 of 95
            Pseudo Genes (internal stop)      :: 27 of 95
            Pseudo Genes (multiple problems)  :: 13 of 95
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP066644.1.
            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 144_1"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="p144_1_1.9kb"
                     /geo_loc_name="USA: Dallas"
                     /collection_date="2015"
     gene            494..1510
                     /locus_tag="JCP95_RS15920"
                     /old_locus_tag="JCP95_15920"
     CDS             494..1510
                     /locus_tag="JCP95_RS15920"
                     /old_locus_tag="JCP95_15920"
                     /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          495..1504
                     /name="rep_cluster_935"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.292"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 tacaatagct ctaaaatggc atattttgcg ttctgagcgg ttttagcgtt tatttcgttt
       61 agttatcggc acaatcgtta aaacacgtta gaggagcgaa aatggagcct gtaaggcgac
      121 tggtagcgga acgatcgtgt tagattgtga aaaccgatag ctgaatgaaa taaacagcgg
      181 gtgcgccctt tccatttcgg caggaggagg ctcaaggggt tcggggaatg aaattccctg
      241 aggtcttttt atttttttag gaggagtgct ataatcaaag aaaacgagaa aaaagagcaa
      301 aataaaagcc gagcagtgcg ctaacactct cgactattta cggaaactac ttcacctagc
      361 tccgtaactc aggttcatta tacgaatatt tttaggtttc ttcaagctag agatttttgg
      421 atatgaattt ttagggttac gtgaactctg gaaattcttt ccaaaagtct cttttttcgt
      481 ttggaggacg aaaatggcaa atgaaaatca gttgagtgaa attcaatcaa aaattgaagg
      541 tcgaggggca gaaaaaagaa caacgataaa tcagctcgaa aaacttaacc gtatttctaa
      601 caggcggtta agtgtgcaag gtacgaccac ccccctaaaa ttaaattggt cgattgatcg
      661 aattacaatt gtcggaaaac tgaatgatac catagcttat tggacgaaaa atggagttgt
      721 ttttgtcgat ttcgagcaat taatgcgttt gaacgaaaat cagggatatt tgaaatcagt
      781 tgggataaac ggctggcaat tattcgatca atatggagaa gatattgcgt atatcgaaat
      841 acttaaattt catgaaggaa aaggtcgtat tgattttaat ccgaataaga taggccagtt
      901 tttagctagt tccatgaaag gattcattca tgacctattt ttagatccgc atttttcccg
      961 ggcggatatt gcctgcgata ttgtagatgt gccggatgac tttattactc agtatcgtat
     1021 tgtagacccg atttctttta agccaatcta cggccgttct ggcaagctag aaacagcgta
     1081 ctggggcagt cgtgccagtg agcgccaagt gcgactgtac aacaaaaagc tagagcagga
     1141 acgaaaaaaa gtaatcgtgc caaaagaaat cgatacgtgg tggcggttag aaatgcagct
     1201 aagacgtggc aaagcaacgg attggcatgc gatggttcag gaaagcttag atagttttgc
     1261 aagcccgcat tttttgccga ttgatataaa acctattgat aaaatagtta ttgatggttt
     1321 gatagctgag ccttctaatt ggtcgataat tgctagacat acaaaatata aatatcggaa
     1381 tttgctgaag caagaaagtc aaaatgatga gttaacgaat catttacgag agacgtttaa
     1441 ggaatctgca gacgaattaa aaaaagaatt ggatacgtgg cttttggggt tggatgtgac
     1501 agagaagtga taccgaataa gaaaagtcag atgagtgaga gtggatttgc gtcaatgttt
     1561 agtgacgtaa attcacgata agcgaatatt ttgcatgaag caaaataaag cgtaaaagga
     1621 gttgagagcg tgacacgctt tcggctcctt ttttcgttgt cacttgtgac agcgaatacc
     1681 ctcggagagc atttggaatt gtgacagcca tgtcacaatt aggaaaattt ttactctttg
     1741 tcaaagagta acagaaaggt ttacactctt tttattagcg acagcgtgaa ggaggggttc
     1801 accttagggt ttagtatttc gttcaaaaag ggaacaaaga atacaagcat ttctcataat
     1861 aatcgtgagt taactgatag ccaaaaaatc aatggtttgt ctggtagaaa ataattagca
     1921 gatttacaag tgggaaataa aaagctgaaa gaagaaaatt gcatttcaaa ctacattttc
//
