LOCUS       NZ_CP065553             1980 bp    DNA     circular CON 14-FEB-2024
DEFINITION  Enterococcus faecium strain Dallas 1 plasmid p1_1.9kb, complete
            sequence.
ACCESSION   NZ_CP065553
VERSION     NZ_CP065553.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN17012772
            Assembly: GCF_015999605.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 1980)
  AUTHORS   Islam,M.J.
  TITLE     Molecular characterization of VREfm isolates from Dallas, Texas
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1980)
  AUTHORS   Islam,M.J.
  TITLE     Direct Submission
  JOURNAL   Submitted (06-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                   :: 30.0x
            Sequencing Technology :: Oxford Nanopore MinION; Illumina NextSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/14/2024 02:49:01
            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)                     :: 3,130
            CDSs (total)                      :: 3,039
            Genes (coding)                    :: 2,927
            CDSs (with protein)               :: 2,927
            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)              :: 112
            CDSs (without protein)            :: 112
            Pseudo Genes (ambiguous residues) :: 0 of 112
            Pseudo Genes (frameshifted)       :: 40 of 112
            Pseudo Genes (incomplete)         :: 66 of 112
            Pseudo Genes (internal stop)      :: 30 of 112
            Pseudo Genes (multiple problems)  :: 20 of 112
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP065553.1.
            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 1"
                     /isolation_source="Rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="p1_1.9kb"
                     /geo_loc_name="USA: Dallas"
                     /collection_date="2015"
     gene            join(1150..1980,1..186)
                     /locus_tag="I7089_RS15550"
                     /old_locus_tag="I7089_15555"
     CDS             join(1150..1980,1..186)
                     /locus_tag="I7089_RS15550"
                     /old_locus_tag="I7089_15555"
                     /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          1151..1934
                     /name="rep_cluster_935"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.943"
                     /coverage="91.0"
                     /evalue="0.0"
ORIGIN
        1 gctgagcctt ctaattggtc gataattgct agacatacaa aatataaata tcggaatttg
       61 ctgaagcaag aaagtcaaaa tgatgagtta acgaatcatt tacgagagac gtttaaggaa
      121 tctgcagacg aattaaaaaa agaattggat acgtggcttt tggggttgga tgtgacagag
      181 aagtgatacc gaataagaaa agtcagatga gtgagagtgg atttgcgtca atgtttagtg
      241 acgtaaattc acgataagcg aatattttgc atgaagcaaa ataaagcgta aaaggagttg
      301 agagcgtgac acgctttcgg ctcctttttt cgttgtcact tgtgacagcg aataccctcg
      361 gagagcattt ggaattgtga cagccatgtc acaattagga aaatttttac tctttgtcaa
      421 agagtaacag aaaggtttac actcttttta ttagcgacag cgtgaaggag gggttcacct
      481 tagggtttag tatttcgttc aaaaagggaa caaagaatac aagcatttct cataataatc
      541 gtgagttaac tgatagccaa aaaatcaatg gtttgtctgg tagaaaataa ttagcagatt
      601 tacaagtggg aaataaaaag ctgaaagaag aaaattgcat ttcaaactac attttctaca
      661 atagctctaa aatggcatat tttgcgttct gagcggtttt agcgtttatt tcgtttagtt
      721 atcggcacaa tcgttaaaac acgttagagg agcgaaaatg gagcctgtaa ggcgactggt
      781 agcggaacga tcgtgttaga ttgtgaaaac cgatagctga atgaaataaa cagcgggtgc
      841 gccctttcca tttcggcagg aggaggctca aggggttcgg ggaatgaaat tccctgaggt
      901 ctttttattt ttttaggagg agtgctataa tcaaagaaaa cgagaaaaaa gagcaaaata
      961 aaagccgagc agtgcgctaa cactctcgac tatttacgga aactacttca cctagctccg
     1021 taactcaggt tcattatacg aatattttta ggtttcttca agctagagat ttttggatat
     1081 gaatttttag ggttacgtga actctggaaa ttctttccaa aagtctcttt tttcgtttgg
     1141 aggacgaaaa tggcaaatga aaatcagttg agtgaaattc aatcaaaaat tgaaggtcga
     1201 ggggcagaaa aaagaacaac gataaatcag ctcgaaaaac ttaaccgtat ttctaacagg
     1261 cggttaagtg tgcaaggtac gaccaccccc ctaaaattaa attggtcgat tgatcgaatt
     1321 acaattgtcg gaaaactgaa tgataccata gcttattgga cgaaaaatgg agttgttttt
     1381 gtcgatttcg agcaattaat gcgtttgaac gaaaatcagg gatatttgaa atcagttggg
     1441 ataaacggct ggcaattatt cgatcaatat ggagaagata ttgcgtatat cgaaatactt
     1501 aaatttcatg aaggaaaagg tcgtattgat tttaatccga ataagatagg ccagttttta
     1561 gctagttcca tgaaaggatt cattcatgac ctatttttag atccgcattt ttcccgggcg
     1621 gatattgcct gcgatattgt agatgtgccg gatgacttta ttactcagta tcgtattgta
     1681 gacccgattt cttttaagcc aatctacggc cgttctggca agctagaaac agcgtactgg
     1741 ggcagtcgtg ccagtgagcg ccaagtgcga ctgtacaaca aaaagctaga gcaggaacga
     1801 aaaaaagtaa tcgtgccaaa agaaatcgat acgtggtggc ggttagaaat gcagctaaga
     1861 cgtggcaaag caacggattg gcatgcgatg gttcaggaaa gcttagatag ttttgcaagc
     1921 ccgcattttt tgccgattga tataaaacct attgataaaa tagttattga tggtttgata
//
