LOCUS       NZ_CP066636             3007 bp    DNA     circular CON 20-FEB-2024
DEFINITION  Enterococcus faecium strain Dallas 137 plasmid p7, complete
            sequence.
ACCESSION   NZ_CP066636
VERSION     NZ_CP066636.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN17038102
            Assembly: GCF_016415445.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 3007)
  AUTHORS   Islam,M.J. and Palmer,K.
  TITLE     Molecular characterization of VREfm isolates from Dallas, Texas
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3007)
  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                   :: 258.0x
            Sequencing Technology :: Illumina NextSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/20/2024 02:51:53
            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)                     :: 3,085
            CDSs (total)                      :: 2,992
            Genes (coding)                    :: 2,879
            CDSs (with protein)               :: 2,879
            Genes (RNA)                       :: 93
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 71
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 113
            CDSs (without protein)            :: 113
            Pseudo Genes (ambiguous residues) :: 0 of 113
            Pseudo Genes (frameshifted)       :: 40 of 113
            Pseudo Genes (incomplete)         :: 69 of 113
            Pseudo Genes (internal stop)      :: 24 of 113
            Pseudo Genes (multiple problems)  :: 17 of 113
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP066636.1.
            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..3007
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="Dallas 137"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="p7"
                     /geo_loc_name="USA: Dallas"
                     /collection_date="2015"
     gene            206..337
                     /locus_tag="JCP61_RS15500"
     CDS             206..337
                     /locus_tag="JCP61_RS15500"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_264298242.1"
                     /translation="MEYKNMTPERKRSLEKLMQLVNEDGGISDAAFDAWSEFHGEYN"
                     /name="hypothetical protein"
     gene            1387..2106
                     /locus_tag="JCP61_RS15310"
                     /old_locus_tag="JCP61_15310"
     CDS             1387..2106
                     /locus_tag="JCP61_RS15310"
                     /old_locus_tag="JCP61_15310"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002311815.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     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 protein"
                     /protein_id="WP_002311815.1"
                     /translation="MDEKTELTVKYQNELNLVPLKNFNAKQMDLFFALCARMKDRGLKK
                     VRFSFEELKELSDYKMTATKAFVGDLEKLYKDMLNLTYRTEDEDSIRYFVLFTGFEINK
                     TKKFVEVSVNPDLEYIINGLTAEFSRFELSAFTSLRSTYAKTLFRLLMQYRSTGYYVVR
                     IEEFRSLMDIPEYYQMGNIDQKVLNPALRELKKYFNDLKVTKIKAKKGNKIAKLEFTFS
                     SLTSDLPKISLRNWLEE"
                     /name="replication initiation protein"
     gene            complement(2243..2659)
                     /locus_tag="JCP61_RS15315"
                     /old_locus_tag="JCP61_15315"
     CDS             complement(2243..2659)
                     /locus_tag="JCP61_RS15315"
                     /old_locus_tag="JCP61_15315"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001232859.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001232859.1"
                     /translation="MRKTSVQKHVTLYPSHVDVLDSIIEKNPDINNYSEAIRFLCMSYE
                     PDTNTTTTSNQAKLNAMGKEISIMTEIIAEFADLYLKDTGVLIGTNSKVYQEVKEKIEA
                     KLNPSNRNRPKNHQKETSQTVTSRNFDPTNFLKR"
                     /name="hypothetical protein"
     gene            complement(2662..2946)
                     /locus_tag="JCP61_RS15320"
                     /old_locus_tag="JCP61_15320"
     CDS             complement(2662..2946)
                     /locus_tag="JCP61_RS15320"
                     /old_locus_tag="JCP61_15320"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002337999.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000353844.1"
                     /translation="MDILVRNIDPKFVATIDKRCQELTNKTGEKWSRNKYLKVLIESDF
                     DRQLTTYKKDQFDLLLDKFIAIQTENTQILSEYVYTNNQIIEMLIGGMI"
                     /name="hypothetical protein"
     Typing          1388..2106
                     /name="rep_cluster_1763"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tagctgtttt ttgccaaaat gctatacata agctacccac gatggcgaaa aagtgatatc
       61 aaattttttt ctgagaaacg tgataggcac agcctatcta cccacttttt ttagaaagtg
      121 ggtacacgtt tccttatgct ctttaaaatt cgggggggag tgctgcacgt gtaatcgata
      181 accaaattta acagacgaaa aattgttgga atataaaaat atgacacccg aaagaaaacg
      241 atcgttggaa aaattaatgc aactagtgaa cgaagacggc ggaatttcag acgcagcttt
      301 tgacgcatgg agcgaatttc atggagaata taattaagtg ggtttaaatg gctctaaaat
      361 cgcttctaag agttttttag cttggaccaa tgaaatacac caaaaactaa ataaaacgtc
      421 ttaaatcgaa aaatacgagc tctcagagcg actttatttg taaatgttgc atataagaaa
      481 taattacgga ttttagactt ttgtaggata tttttgaaat aaatatttat ttctgttata
      541 atttgattgc aaataagtga acacgaaaca cacgaaatcc ccagagaggt cggattctct
      601 ggggcttttt ttgtgggctg agtcgcctta attaagtttt acttcttgtt tcggttattc
      661 aaccagtaac tgaacaaagc gcttaaaagc ccaacaagaa gggagcaaat aaagttagtg
      721 aacacgaaac acacctcctt ccagtcgcaa gactgtcgga taggcgacaa tcaattatac
      781 aataaaaaag caaaaataag cctaagtttt ttattgcctt ggggttgtta gggcttgccc
      841 tgaccgcctg taaggcgctt tagaacgaag gacatagttt ttatcgaatc ttgtcttaga
      901 acggcttaga cgagctctca ggacgccaca aaggagtccc taatgaatta tttttggcga
      961 aggagcctaa aggcgactgc tgcaagtaaa atgtgagagc gtagcgatca ctccttctta
     1021 cagcgaccat agggagctag attggcagtt taatatcatg cgcgaacctg tttattttaa
     1081 aaagtgggtg attttttggc gggaaatttt gctcgcgcgc gcgcgtttat tttatttatt
     1141 ttttaaagat tttttagaac cctttttagg gggcagttga gccttactct cccaacggat
     1201 acagaagggt actaacaact ttttatctga gtactaacaa ctttttatct gagtactaac
     1261 aactttttat ctgagtacta acaacttttt atctgagtac taatatcctt ttgtataata
     1321 acaaccaacc tatttacgag ttggttgtta aaggttatta tttatttgta aggggggaag
     1381 aaaggaatgg atgaaaaaac ggaattaaca gtcaaatatc aaaatgaatt gaatttagta
     1441 ccgctgaaaa atttcaatgc taagcagatg gatttatttt ttgcattatg cgctcgtatg
     1501 aaagatcgtg gtttgaaaaa agttagattt tctttcgagg aattaaaaga gttaagtgat
     1561 tataagatga ctgctacaaa agcctttgtc ggtgatttag aaaagctcta taaagatatg
     1621 cttaatctta cttaccgtac tgaagatgag gattctattc gctactttgt tttgtttact
     1681 ggttttgaaa tcaataaaac aaaaaagttt gttgaagtca gtgttaatcc ggacctagaa
     1741 tatattatta atggtttaac agctgaattt agtagatttg aattatctgc tttcacgtcg
     1801 ttgcgttcta cgtatgcaaa aactctattc cgactgctta tgcagtaccg ttctactggt
     1861 tattatgtag ttcgtattga agagtttagg agcttaatgg atatcccaga atactatcaa
     1921 atgggtaaca ttgatcaaaa agtattaaat cctgcattac gagaactaaa aaaatacttc
     1981 aatgatctta aagtcacaaa aataaaagca aaaaagggca ataaaatcgc caaattagaa
     2041 tttacttttt caagcctaac gtcagatttg ccaaagattt ctctgcgtaa ctggttagaa
     2101 gaataaataa aaaagaactc gcccccctta cattaagcaa gtagacaagt cccttacaac
     2161 cgactaagat tgctagtaca ttctagcata ttgtatgggg cttctaaata aaaaacagat
     2221 aggaataact cctatctgtt ttttatcgtt ttagaaaatt tgttgggtcg aaatttctag
     2281 aagtgactgt ttgactggtt tctttttgat gattctttgg tcgatttcga tttgatggat
     2341 ttagtttagc ttcgattttt tctttcactt cttgatatac tttagaattt gtgccaataa
     2401 gaacgcctgt atcttttaga tataaatcag caaattctgc gatgatttca gtcatgatgg
     2461 aaatttcttt tcccatagca tttagttttg cctgattgct ggtagtggtc gtgttggtat
     2521 cgggttcata actcatacat aaaaagcgaa tggcttccga gtagttattg atatctggat
     2581 ttttttcgat gatggaatct aaaacgtcaa catgactagg gtacaaagta acatgttttt
     2641 ggacagaagt ttttctcatg gttatatcat tcctccgata agcatttcaa tgatttgatt
     2701 atttgtgtag acatactcgc ttaatatttg agtattttct gtttggatag caataaattt
     2761 atcgagcaat aaatcgaatt ggtctttttt gtaagtcgta agttgacggt caaaatcact
     2821 ttcgattaaa acttttagat atttatttcg actccatttt tctcctgttt tattcgtgag
     2881 ttcttggcaa cgtttgtcta ttgttgcaac aaactttgga tcaatattcc gaactaaaat
     2941 gtccataaaa aatctccttt tgcaattatg tataatttat gtataccata caaatactat
     3001 atttgta
//
