LOCUS       NZ_CP040744             2056 bp    DNA     circular CON 25-JUL-2023
DEFINITION  Enterococcus faecium strain VRE1 plasmid pVRE1-4, complete sequence.
ACCESSION   NZ_CP040744
VERSION     NZ_CP040744.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN11890391
            Assembly: GCF_006007925.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 2056)
  AUTHORS   He,F.
  TITLE     Whole genome sequence of Enterococcus faecium VRE1
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2056)
  AUTHORS   He,F.
  TITLE     Direct Submission
  JOURNAL   Submitted (29-MAY-2019) Department of Clinical Laboratory, Zhejiang
            Provincial People's Hospital, 158 Shangtang Road, Hangzhou, Zhejiang
            310014, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v. 0.4.7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology :: Oxford Nanopore GridION; Illumina NextSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/25/2023 04:38:32
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 3,053
            CDSs (total)                      :: 2,962
            Genes (coding)                    :: 2,860
            CDSs (with protein)               :: 2,860
            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)              :: 102
            CDSs (without protein)            :: 102
            Pseudo Genes (ambiguous residues) :: 0 of 102
            Pseudo Genes (frameshifted)       :: 32 of 102
            Pseudo Genes (incomplete)         :: 63 of 102
            Pseudo Genes (internal stop)      :: 26 of 102
            Pseudo Genes (multiple problems)  :: 15 of 102
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP040744.1.
            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..2056
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="VRE1"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pVRE1-4"
                     /geo_loc_name="China:Hangzhou"
                     /collection_date="2018-12-03"
                     /collected_by="Fang He"
     gene            193..414
                     /locus_tag="FGY81_RS16080"
                     /old_locus_tag="FGY81_16085"
     CDS             193..414
                     /locus_tag="FGY81_RS16080"
                     /old_locus_tag="FGY81_16085"
                     /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            415..672
                     /locus_tag="FGY81_RS16085"
                     /old_locus_tag="FGY81_16090"
     CDS             415..672
                     /locus_tag="FGY81_RS16085"
                     /old_locus_tag="FGY81_16090"
                     /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_002377879.1"
                     /translation="MPKETTINVEQLEKLLESYSNDFIELTGGKVEETTDLFDLLLTNI
                     LELNSEEQKEHKGKLIAPSYRKAAKSAVPTGFLTKQPYIF"
                     /name="hypothetical protein"
     gene            complement(808..1410)
                     /locus_tag="FGY81_RS16090"
                     /old_locus_tag="FGY81_16095"
     CDS             complement(808..1410)
                     /locus_tag="FGY81_RS16090"
                     /old_locus_tag="FGY81_16095"
                     /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_010729575.1"
                     /translation="MTSRKTKDERTRNWTFVVYPESAPENWREFLDELHVPWVESPLHD
                     KDVNPDGELKKPHWHVLIMFSGKKTYDQIREITQKIRSPNPQKCANAKGMVRYFAHMDN
                     PEKFQYAKSDIIAHGGAEIASYLSVTSAERYELIREMMSFVDSKNITEIKDLIDYAMSE
                     RFDDWFPLLCDNSAYIIGQYIKSNRHGGSVNSKINKG"
                     /name="replication protein"
     gene            complement(1477..1632)
                     /locus_tag="FGY81_RS16095"
                     /old_locus_tag="FGY81_16100"
     CDS             complement(1477..1632)
                     /locus_tag="FGY81_RS16095"
                     /old_locus_tag="FGY81_16100"
                     /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"
     Typing          575..750
                     /name="MOBV"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.01e-87"
     Typing          complement(881..1410)
                     /name="rep_cluster_2351"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.812"
                     /coverage="96.0"
                     /evalue="0.0"
ORIGIN
        1 cgataactaa acgaaataga cgctaaatcg cttaaaacgc aaaatagacc ctttttagag
       61 cattgatttt ttctactagt catttcgata atataaaatt gaccacaaca cagaaaactt
      121 atattataag cttatgtcgt aagtccgacg tactcacgta atatagacgg acgttaaatg
      181 gaaggagcat aaatgagagt gataaaatca gaaaaattca ctttggccga aattatgacg
      241 accagcgaac ttgcacaaga acttgattac aaccaagctt acgttttgcg cttagcgaaa
      301 gaacatctga ctgaaggaaa agaatatcgc tctgccggta gaagaaacta tcttttcagc
      361 ccagaagccc ttaaaaaact agaaaaagtc ataaccacca aagaaggtga gtaaatgcct
      421 aaagaaacaa ctatcaacgt tgaacaacta gaaaaattgc tagaatcata ttccaatgat
      481 tttatcgaat tgaccggcgg aaaagtcgaa gaaaccaccg acctctttga cctacttctc
      541 acaaatattc tggaattaaa ctctgaagaa caaaaagagc ataagggaaa actgatagca
      601 ccttcctaca ggaaggcggc taagtcggct gtgccaactg gttttcttac aaaacaacct
      661 tatatttttt gatatcacaa aaaaatccat tttggaccta ttttcggtca taatatagta
      721 cctacttttg gtcatagttt cgtccgtagt tttggtcata gtgactaaga ctttcacgca
      781 caaaaaaaga gctgaaatta acagctctta tcctttattt atttttgaat ttacacttcc
      841 accatgacga ttcgatttta tatattgccc gataatataa gctgaattat cacaaagaag
      901 cggaaaccaa tcatcaaatc tttctgacat tgcatagtca attaaatctt tgatttcagt
      961 gatattctta gaatcaacaa acgacatcat ctctctaatc aactcatatc gttctgcact
     1021 cgttactgac aaataactag caatttctgc accaccatga gcgataatat cacttttagc
     1081 atattgaaat ttttctggat tatccatatg agcaaaatat cgcaccatac cttttgcatt
     1141 agcacatttt tgcgggtttg gagaccgaat cttttgagtt atctcacgta tttgatcata
     1201 cgtcttttta ccgctaaaca ttatcaaaac atgccaatga ggctttttca attcaccgtc
     1261 aggattcaca tctttatcat gaagtggact ctcaacccaa ggaacatgta actcatctaa
     1321 aaactccctc caattttcag gagccgattc aggatagact acaaacgtcc aattccttgt
     1381 gcgttcatct ttagtttttc tactcgtcat gctataatca ccttaattga acaacagtct
     1441 aacagcaaaa gcagtgcgcc aacactaatg cttttgctat tttttttgct cattttcctt
     1501 tccgttagca ttaacccaaa ttgtaataag accagactta ctaagaccca tttgtttcgc
     1561 aattttatca agattatctg ccacttcctt agtaagcgtt acaacgactc tctttttttc
     1621 attactgatc ataattcgta tcctccaacg actttttctt aaaaaccata gtaacaaaaa
     1681 agtaactaag gtgcaacagt ttagatacta attagcgaat aataggcctt aaacccttgg
     1741 cattactgat tttgtcaaaa aaaaacgctg aaacccttgg gagagtaagg ctaaacagct
     1801 atcgaccaat gaccaatgac caataagggg ggtgtcgtag tccccccctc ctccgcccaa
     1861 ttcataaaca ccaaaaccaa aaaacaaacc tcagggctcc gccccgaacc ccgacctcct
     1921 tctaccgaaa tatatgcagg cgccacgctt actatttcgt tcagctatcg gcttttgcaa
     1981 tctaacacga ccgtttcgct accagtcgcc ttacaggctc cattctcgct tctcttacgt
     2041 gttttaacga ttgcgc
//
