LOCUS       NZ_CP066398             2055 bp    DNA     circular CON 20-FEB-2024
DEFINITION  Enterococcus faecium strain Dallas 51_4 plasmid p51_4_2kb, complete
            sequence.
ACCESSION   NZ_CP066398
VERSION     NZ_CP066398.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN17038075
            Assembly: GCF_016406465.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 2055)
  AUTHORS   Islam,M.J. and Palmer,K.
  TITLE     Molecular characterization of VREfm isolates from Dallas, Texas
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2055)
  AUTHORS   Islam,M.J. and Palmer,K.
  TITLE     Direct Submission
  JOURNAL   Submitted (20-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                   :: 146.0x
            Sequencing Technology :: Illumina NextSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/20/2024 02:56:45
            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)                     :: 3,320
            CDSs (total)                      :: 3,229
            Genes (coding)                    :: 3,102
            CDSs (with protein)               :: 3,102
            Genes (RNA)                       :: 91
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 69
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 127
            CDSs (without protein)            :: 127
            Pseudo Genes (ambiguous residues) :: 0 of 127
            Pseudo Genes (frameshifted)       :: 44 of 127
            Pseudo Genes (incomplete)         :: 77 of 127
            Pseudo Genes (internal stop)      :: 35 of 127
            Pseudo Genes (multiple problems)  :: 23 of 127
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP066398.1.
            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..2055
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="Dallas 51_4"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="p51_4_2kb"
                     /geo_loc_name="USA: Dallas"
                     /collection_date="2015"
     gene            complement(103..360)
                     /locus_tag="JCQ06_RS14080"
                     /old_locus_tag="JCQ06_14085"
     CDS             complement(103..360)
                     /locus_tag="JCQ06_RS14080"
                     /old_locus_tag="JCQ06_14085"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002377879.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002299941.1"
                     /translation="MPKETTINVEQLEKLLESYSNDFIELTGGKVEETTDLFDLLLTNI
                     LELNSEEQKEHKGKLIAPSYRKVAKSAVPTGFLTKQPYIF"
                     /name="hypothetical protein"
     gene            complement(361..582)
                     /locus_tag="JCQ06_RS14085"
                     /old_locus_tag="JCQ06_14090"
     CDS             complement(361..582)
                     /locus_tag="JCQ06_RS14085"
                     /old_locus_tag="JCQ06_14090"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002299940.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002299940.1"
                     /translation="MRVIKSEKFTLAEIMTTSELAQELDYNQAYVLRLAKEHLTEGKEY
                     RSAGRRNYLFSPEALKKLEKVITTKEGE"
                     /name="hypothetical protein"
     gene            1199..1354
                     /locus_tag="JCQ06_RS14090"
                     /old_locus_tag="JCQ06_14095"
     CDS             1199..1354
                     /locus_tag="JCQ06_RS14090"
                     /old_locus_tag="JCQ06_14095"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002299939.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="CopG family transcriptional regulator"
                     /protein_id="WP_002299939.1"
                     /translation="MISNEKKRVVVTLTKEVADNLDKIAKQMGLSKSGLITIWVNANGK
                     ENEQKK"
                     /name="CopG family transcriptional regulator"
     gene            1421..2023
                     /locus_tag="JCQ06_RS14095"
                     /old_locus_tag="JCQ06_14100"
     CDS             1421..2023
                     /locus_tag="JCQ06_RS14095"
                     /old_locus_tag="JCQ06_14100"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002323513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication protein"
                     /protein_id="WP_002323513.1"
                     /translation="MTSRKTKDERTRNWTFVVYPESAPENWREFLDELHVPWVESPLHD
                     KDVNPDGELKKPHWHVLIMFSGKKTYDQIREITQKLRSPNPQKCANAKGMVRYFAHMDN
                     PEKFQYAKSDIIAHGGAEIASYLSVTSAERYELIREMMSFVDSKNITEIKDLIDYAMSE
                     RFDDWFPLLCDNSAYIIGQYIKSNRHGGSVNSKINKG"
                     /name="replication protein"
     Typing          complement(27..201)
                     /name="MOBV"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.435"
                     /coverage="100.0"
                     /evalue="3.36e-85"
     Typing          1422..1951
                     /name="rep_cluster_2351"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="96.0"
                     /evalue="0.0"
ORIGIN
        1 gaaagtctta gtcactatga ccaaaactac ggacgaaact atgaccaaaa gtaggtacta
       61 tattatgacc gaaaataggt ccaaaatgga ttttttgtga tatcaaaaaa tataaggttg
      121 ttttgtaaga aaaccagttg gcacagccga cttagccacc ttcctgtagg aaggtgctat
      181 cagttttccc ttatgctctt tttgttcttc agagtttaat tccagaatat ttgtgagaag
      241 taggtcaaag aggtcggtgg tttcttcgac ttttccgccg gtcaattcga taaaatcatt
      301 ggaatatgat tctagcaatt tttctagttg ttcaacgttg atagttgttt ctttaggcat
      361 ttactcacct tctttggtgg ttatgacttt ttctagtttt ttaagggctt ctgggctgaa
      421 aagatagttt cttctaccgg cagagcgata ttcttttcct tcagtcagat gttctttcgc
      481 taagcgcaaa acgtaagctt ggttgtaatc aagttcttgt gcaagttcgc tggtcgtcat
      541 aatttcggcc aaagtgaatt tttctgattt tatcactctc atttatgctc cttccattta
      601 acgtccgtct atattacgtg agtacgtcgg acttacgaca taagcttata atataagttt
      661 tctgtgttgt ggtcaatttt atattatcga aatgactagt agaaaaaatc aatgctctaa
      721 aaagggtcta ttttgcgttt taagcgattt agcgtctatt tcgtttagtt atcggcgcaa
      781 tcgttaaaac acgtaagaga agcgagaatg gagcctgtaa ggcgactggt agcgaaacgg
      841 tcgtgttaga ttgcaaaagc cgatagctga acgaaatagt aagcgtggcg cctgcatata
      901 tttcggtaga aggaggtcgg ggttcggggc ggagccctga ggtttgtttt ttggttttgg
      961 tgtttatgaa ttgggcggag gaggggggga ctacgacacc ccccttattg gtcattggtc
     1021 attggtcgat agctgtttag ccttactctc ccaagggttt cagcgttttt ttttgacaaa
     1081 atcagtaatg ccaagggttt aaggcctatt attcgctaat tagtatctaa actgttgcac
     1141 cttagttact tttttgttac tatggttttt aagaaaaagt cgttggagga tacgaattat
     1201 gatcagtaat gaaaaaaaga gagtcgttgt aacgcttact aaggaagtgg cagataatct
     1261 tgataaaatt gcgaaacaaa tgggtcttag taagtctggt cttattacaa tttgggttaa
     1321 tgctaacgga aaggaaaatg agcaaaaaaa atagcaaaag cattagtgtt ggcgcactgc
     1381 ttttgctgtt agactgttgt tcaattaagg taattatagc atgacgagta gaaaaactaa
     1441 agatgaacgc acaaggaatt ggacgtttgt agtctatcct gaatcggctc ctgaaaattg
     1501 gagggagttt ttagatgagt tacatgttcc ttgggttgag agtccacttc atgataaaga
     1561 tgtgaatcct gacggtgaat tgaaaaagcc tcattggcat gttttgataa tgtttagcgg
     1621 taaaaagacg tatgatcaaa tacgtgagat aactcaaaag cttcggtctc caaacccgca
     1681 aaaatgtgct aatgcaaaag gtatggtgcg atattttgct catatggata atccagaaaa
     1741 atttcaatat gctaaaagtg atattatcgc tcatggtggt gcagaaattg ctagttattt
     1801 gtcagtaacg agtgcagaac gatatgagtt gattagagag atgatgtcgt ttgttgattc
     1861 taagaatatc actgaaatca aagatttaat tgactatgca atgtcagaaa gatttgatga
     1921 ttggtttccg cttctttgtg ataattcagc ttatattatc gggcaatata taaaatcgaa
     1981 tcgtcatggt ggaagtgtaa attcaaaaat aaataaagga taagagctgt taatttcagc
     2041 tctttttttg tgcgt
//
