LOCUS       NZ_CP085905             1979 bp    DNA     circular CON 23-DEC-2023
DEFINITION  Enterococcus faecium strain SC1762 plasmid p11, complete sequence.
ACCESSION   NZ_CP085905
VERSION     NZ_CP085905.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN22627481
            Assembly: GCF_020736585.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 1979)
  AUTHORS   Zeng,W.
  TITLE     Acquisition of daptomycin resistance by Enterococcus faecium confers
            collateral sensitivity to glycopeptides
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1979)
  AUTHORS   Zeng,W.
  TITLE     Direct Submission
  JOURNAL   Submitted (27-OCT-2021) Laboratory Medicine, College of Life
            Sciences, Wenzhou Medical University, Wenzhou Medical University,
            Wenzhou, Zhejiang 325000, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: unicycler v. v0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200.0x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 12/23/2023 20:51:41
            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)                     :: 3,307
            CDSs (total)                      :: 3,216
            Genes (coding)                    :: 3,059
            CDSs (with protein)               :: 3,059
            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)              :: 157
            CDSs (without protein)            :: 157
            Pseudo Genes (ambiguous residues) :: 0 of 157
            Pseudo Genes (frameshifted)       :: 63 of 157
            Pseudo Genes (incomplete)         :: 95 of 157
            Pseudo Genes (internal stop)      :: 38 of 157
            Pseudo Genes (multiple problems)  :: 30 of 157
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP085905.1.
            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..1979
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="SC1762"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="p11"
                     /geo_loc_name="China:wenzhou"
                     /collection_date="2018"
     gene            complement(join(1853..1979,1..890))
                     /locus_tag="LK894_RS16470"
                     /old_locus_tag="LK894_16485"
     CDS             complement(join(1853..1979,1..890))
                     /locus_tag="LK894_RS16470"
                     /old_locus_tag="LK894_16485"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /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: GeneMarkS-2+."
                     /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"
     gene            complement(<1471..1653)
                     /locus_tag="LK894_RS16475"
                     /old_locus_tag="LK894_16490"
                     /pseudo=""
     CDS             complement(<1471..1653)
                     /locus_tag="LK894_RS16475"
                     /old_locus_tag="LK894_16490"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002313295.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /name="hypothetical protein"
ORIGIN
        1 aaattccgat atttatattt tgtatgtcta gcaattatcg accaattaga aggctcagct
       61 atcaaaccat caataactat tttatcaata ggttttatat caatcggcaa aaaatgcggg
      121 cttgcaaaac tatctaagct ttcctgaacc atcgcatgcc aatccgttgc tttgccacgt
      181 cttagctgca tttctaaccg ccaccacgta tcgatttctt ttggcacgat tacttttttt
      241 cgttcctgct ctagcttttt gttgtacagt cgcacttggc gctcactggc acgactgccc
      301 cagtacgctg tttctagctt gccagaacgg ccgtagattg gcttaaaaga aatcgggtct
      361 acaatacgat actgagtaat aaagtcatcc ggcacatcta caatatcgca ggcaatatcc
      421 gcccgggaaa aatgcggatc taaaaatagg tcatgaatga atcctttcat ggaactagct
      481 aaaaactggc ctatcttatt cggattaaaa tcaatacgac cttttccttc atgaaattta
      541 agtatttcga tatacgcaat atcttctcca tattgatcga ataattgcca gccgtttatc
      601 ccaactgatt tcaaatatcc ctgattttcg ttcaaacgca ttaattgctc gaaatcgaca
      661 aaaacaactc catttttcgt ccaataagct atggtatcat tcagttttcc gacaattgta
      721 attcgatcaa tcgaccaatt taattttagg ggggtggtcg taccttgcac acttaaccgc
      781 ctgttagaaa tacggttaag tttttcgagc tgatttatcg ttgttctttt ttctgcccct
      841 cgaccttcaa tttttgattg aatttcactc aactgatttt catttgccat tttcgtcctc
      901 caaacgaaaa aagagacttt tggaaagaat ttccagagtt cacgtaaccc taaaaattca
      961 tatccaaaaa tctctagctt gaagaaacct aaaaatattc gtataatgaa cctgagttac
     1021 ggagctaggt gaagtagttt ccgtaaatag tcgagagtgt tagcgcactg ctcggctttt
     1081 attttgctct tttttctcgt tttctttgat tatagcactc ctcctaaaaa aataaaaaga
     1141 cctcagggaa tttcattccc cgaacccctt gagcctcctc ctgccgaaat ggaaagggcg
     1201 cacccgctgt ttatttcatt cagctatcgg ttttcacaat ctaacacgat cgttccgcta
     1261 ccagtcgcct tacaggctcc attttcgctc ctctaacgtg ttttaacgat tgtgccgata
     1321 actaaacgaa ataaacgcta aaaccgctca gaacgcaaaa tatgccattt tagagctatt
     1381 gtagaaaatg tagtttgaaa tgcaattttc ttctttcagc tttttatttc ccacttgtaa
     1441 atctgctaat tattttctac cagacaaacc attgattttt tggctatcag ttaactcacg
     1501 attattatga gaaatgcttg tattctttgt tccctttttg aacgaaatac taaaccctaa
     1561 ggtgaacccc tccttcacgc tgtcgctaat aaaaagagtg taaacctttc tgttactctt
     1621 tgacaaagag taacgttttc ctaattgtga catggctgtc acaattccaa acgctctccg
     1681 agggatttcg ctgtcacaag tgacaacgaa aaaaggagcc gaaagcgtgt cacgctctca
     1741 actcctttta cgctttattt tgcttcatgc aaaatattcg cttatcgtga atttacgtca
     1801 ctaaacattg acgcaaatcc actctcactc atctgacttt tcttattcgg tatcacttct
     1861 ctgtcacatc caaccccaaa agccacgtat ccaattcttt ttttaattcg tctgcagatt
     1921 ccttaaaagt ctctcgtaaa tgattcgtta actcatcatt ttgactttct tgcttcagc
//
