LOCUS       NZ_OU016043             4374 bp    DNA     circular CON 30-MAY-2024
DEFINITION  Enterococcus faecium isolate USZ_VRE53_P46 plasmid pl6, complete
            sequence.
ACCESSION   NZ_OU016043
VERSION     NZ_OU016043.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA8659977
            Assembly: GCF_907177285.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1
  AUTHORS   Boumasmoud,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (11-MAY-2021) UZH, Raemistrasse 100, Switzerland
COMMENT     ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_907177285.1-RS_2024_05_30
            Annotation Date                   :: 05/30/2024 04:03:05
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 3,267
            CDSs (total)                      :: 3,172
            Genes (coding)                    :: 3,045
            CDSs (with protein)               :: 3,045
            Genes (RNA)                       :: 95
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 73
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 127
            CDSs (without protein)            :: 127
            Pseudo Genes (ambiguous residues) :: 0 of 127
            Pseudo Genes (frameshifted)       :: 38 of 127
            Pseudo Genes (incomplete)         :: 84 of 127
            Pseudo Genes (internal stop)      :: 23 of 127
            Pseudo Genes (multiple problems)  :: 14 of 127
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            OU016043.1.
            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..4374
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /isolate="USZ_VRE53_P46"
                     /isolation_source="Superficial wound"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pl6"
                     /geo_loc_name="Switzerland"
                     /lat_lon="47.4 N 8.5 E"
                     /collection_date="2018"
     gene            complement(join(4365..4374,1..353))
                     /locus_tag="KKQ98_RS16145"
     CDS             complement(join(4365..4374,1..353))
                     /locus_tag="KKQ98_RS16145"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016173819.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002298418.1"
                     /translation="MGMTLADIKAQEEKLKKEQAKLRQQKKRLIEKENAAMGKALRKRF
                     GFETFADFERWLSSISDDQQHEKSVDNEWLADEKSAPSERDYPDESDGLFGVIPNKKSQ
                     MSESKFTSIFNDVNLR"
                     /name="hypothetical protein"
     gene            complement(357..665)
                     /locus_tag="KKQ98_RS16150"
     CDS             complement(357..665)
                     /locus_tag="KKQ98_RS16150"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002292673.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002298419.1"
                     /translation="MDKIDLREETVDRIELMYERLADYLNLPDEDNYSEMLERMMDVLN
                     SVINADLAKSSVLTNEFVHKHLAQTTDESEKEFWLKLMSHVMQLNQISVINSKEKEM"
                     /name="hypothetical protein"
     gene            complement(674..1093)
                     /locus_tag="KKQ98_RS16155"
     CDS             complement(674..1093)
                     /locus_tag="KKQ98_RS16155"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002351943.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002298420.1"
                     /translation="MTDLPEKMTIKNLADELGISKNTVRNQLVNAGYDLARYKDNGVIM
                     LDKELIGVVRSIYRSKGGQLTGDLPVNDAGNDFPLEKENEFLREQLAEKDRHISELTEM
                     IRDQQKLTLLQQQKNDQLLLENQELKNRKWWQFWK"
                     /name="hypothetical protein"
     gene            complement(1086..1319)
                     /locus_tag="KKQ98_RS16160"
     CDS             complement(1086..1319)
                     /locus_tag="KKQ98_RS16160"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002298421.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002298421.1"
                     /translation="MAEKQKHFGKKNWLVNLTGDNVVVVFLDSKKMSGKLLDVTQYELI
                     LKNNKIDSPIIIPKHAVKYVYGVAESNGEDND"
                     /name="hypothetical protein"
     gene            complement(1322..2290)
                     /locus_tag="KKQ98_RS16165"
     CDS             complement(1322..2290)
                     /locus_tag="KKQ98_RS16165"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002298422.1"
                     /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_002298422.1"
                     /translation="MSKNGIIVNEWENLTALSNRRLNVQNMYTPLKMQWSIDRITIVGK
                     LKENIYYHTQNDVLILDFEQLMRVNEGNGYLKAVGNNGWQLLDQYEENIAYIEILKWQD
                     GKGRIDFNPNKIGHFLASSMKNFIHDLFLEPHFSRADIACDIIDVPDEFITQYRVVDPV
                     SFKPIYGRSGKLETAYWGSRASERQIRLYNKKLEQETKRKIVPPEIETWWRLELQLRRG
                     KATDWHAMVHESLNSFASPHFLPLDVKTNDKVMIFGLIANPEMWGFLERRMKYKLRDIL
                     KRESQNDELTNHLRETFSESADVLKKELDTWLQGLDVTEEE"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            complement(2737..4143)
                     /locus_tag="KKQ98_RS16170"
     CDS             complement(2737..4143)
                     /locus_tag="KKQ98_RS16170"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016173818.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006310 - DNA recombination [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid recombination protein"
                     /protein_id="WP_213313540.1"
                     /translation="MGFSISFKKGTKNTSISHNNRELTDRQKTNDWHKHIDFTKSDENI
                     YLEQTNLADKYEELFGEVVEKYNAKQKRADRKIEDYLAKVRKDKKLEPQREFIVQIGIL
                     DDFQTNRADGSSTGISKQQAEQNRVIANKILVQYYKEFQERNPNLAVYNAVIHNDEISP
                     HLHLNIVPVAEGYKRGVQKQPSFNKALVQQGIHADKDNGRVLFNNFRNQEVDSIERLMN
                     DYGWKRDIVGTNKIKDIHEYKEIMSEISELRQTAVKERESVSDELRYIYRQREENERDK
                     ALMASERAKIEEEKKNMLNVKKEMAVIFQKDMVPLESFKRLPDGSYHLSGNDFVDLYQR
                     ATRATNAKRNADNMSEQYLQMLEQNTELNEYVATLEEKRHLSGRKQLADLQVENKKLKE
                     ENRSLRQRLERLKNAFQKSITRLSIRFGLAEKDMGLSEELEVLEQEKTLFYRQNVSQRK
                     LERSEDEIEW"
                     /name="plasmid recombination protein"
     Typing          complement(1330..2207)
                     /name="rep_cluster_943"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="83.973"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          complement(2741..4143)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.88"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ttcacgtcat taaatattga cgtaaattta ctctcactca tctgactttt cttattcggt
       61 atcactccga ataagccgtc agattcatcg ggataatctc gttcgcttgg cgctgatttt
      121 tcatcagcaa gccactcatt atccactgat ttttcgtgtt gctgatcgtc agaaatcgac
      181 gatagccacc gctcaaaatc agcaaaagtt tcaaacccaa aacgcttgcg aagagccttg
      241 cccattgcag cattttcttt ctcaatcaag cgttttttct gttggcgaag tttcgcttgt
      301 tcttttttta atttttcttc ttgcgcttta atatctgcta aagtcattcc cataaactac
      361 atctcctttt ctttggaatt aataacggaa atttggttta actgcataac atgactcatt
      421 aatttcaacc aaaattcttt ttctgattca tcagttgttt gcgctaaatg cttatgaaca
      481 aattcattag tcaaaactga agattttgct agatcagcat tgataaccga gttgagaaca
      541 tccatcattc gttcaagcat ttcactataa ttatcttcat ccggcaaatt caaataatca
      601 gctaaccgtt catacatcaa ttcaattcta tcgactgttt cttctctcaa atcaatttta
      661 tccatgtcac acctcacttc cagaattgcc accattttcg attttttaat tcttgatttt
      721 ctagtaacaa ctgatcgttt ttttgttgct gaagcaaagt caatttttgt tggtcacgaa
      781 tcatttccgt taattcagaa atatgcctat ctttttccgc taattgttca cgcaaaaatt
      841 cattttcttt ttctaacggg aaatcattgc ctgcatcatt gaccggtaaa tcaccagtca
      901 attgaccacc ttttgaccga taaattgacc gcacaacacc aatcaattcc ttgtctaaca
      961 tgataacccc attatcttta taccgagcaa ggtcataacc tgcattgacc agttgattgc
     1021 gcactgtatt tttagatata cccaactcat cagcaaggtt ttttatggtc attttttctg
     1081 gcaaatcagt cattatcttc tccgttactt tcagctaccc cataaacata tttaacagca
     1141 tgcttaggga taatgattgg ggaatcaatt ttattatttt tcaaaatcaa ctcatactgc
     1201 gttacatcaa gtaacttacc ggacattttt ttgctatcca aaaaaacaac gacaacgtta
     1261 tcacctgtta aattcaccaa ccaatttttc ttaccaaaat gcttttgttt ttctgccatt
     1321 cttattcctc ctccgttaca tctaaccctt gaagccaagt gtctaattct tttttcaaaa
     1381 catctgctga ttccgaaaat gtttctcgta aatgattcgt caactcatca ttttgacttt
     1441 ctcttttcaa aatatctctc aatttgtatt tcattctacg ctctaaaaac ccccacattt
     1501 cagggttagc aatcagtcca aaaatcatca ccttatcatt tgtttttaca tcaagtggta
     1561 gaaaatgagg gctagcaaaa ctatttaaac tttcatgaac cattgcatgc caatctgttg
     1621 ctttcccacg ccttaactgc aattccagtc gccaccaagt ttctatttct ggtggcacaa
     1681 ttttacgctt ggtttcctgt tccaattttt tgttgtatag ccgaatctgg cgttcgctgg
     1741 cacgactgcc ccaataagct gtttccagct tcccagaccg cccataaatt ggcttgaaag
     1801 aaacaggatc aaccactcga tattgtgtaa taaactcatc aggcacatcg ataatatcgc
     1861 aagcaatatc cgcacgtgag aaatgtggtt ctagaaataa atcatgaatg aaatttttca
     1921 ttgaactagc taaaaaatga ccaatcttat tcgggttaaa atcaatccgc cctttgccat
     1981 cttgccattt caaaatctca atataagcaa tattttcttc gtattggtct aataattgcc
     2041 agccgttatt cccaaccgct tttaaatagc cattgccttc attcacccgc attaattgct
     2101 caaaatctaa aatcaacaca tcattttgag tgtgataata aatattttcc ttcagttttc
     2161 caacgatagt aattcggtca attgaccact gcatttttaa gggggtgtac atattttgta
     2221 catttaaccg cctgttagat agggctgtta aattttccca ctcatttacg attatgccat
     2281 ttttactcaa attttgttcc tcctcaaaga aaaagagact tctggaaaga attttcaaaa
     2341 gttcacgtaa ctcttaaaaa ttcattacca aaaaatctct agtcttgaag aaatctaaaa
     2401 atattcgtat aatgattaag aagttacgga gctagtgcga ttagtttccg taaaggtcga
     2461 gaacgttggt agcgttgctc gactattttt ttactctttt ttcagttcat ttgtttgcta
     2521 actcaataat agcacttctc tttagctatg caaatatcca aaaaataaaa ccgcaccctt
     2581 tgaaaagggc gcccccaaac ttcgctaacg ctaggttggc caaaaaatgg actggccatt
     2641 ttttagcaaa tgtcagctta ataggctagt ggtttagccg tcaactcctt atcctcggca
     2701 caaaccgcct ccggtaccgt tgactgcaca tcgtaactac cactcgatct catcttcaga
     2761 acgctctaat ttacgctgtg agacgttttg acgataaaat aaggttttct cctgctctaa
     2821 cacttctaat tcctcagaaa gccccatatc cttttctgca agaccaaaac ggatagacaa
     2881 acgagtgatc gatttttgaa atgcgttttt taatcgctct aaacgctggc gtaaagagcg
     2941 attttcttct ttcagctttt tattttccac ttgtaaatct gctaattgtt ttctaccaga
     3001 caaatgacgc ttttcttcca atgtagctac atactcattt aattctgtat tttgctcaag
     3061 catctgtaaa tattgctcac tcatgttatc agcatttctc ttggcatttg ttgctctcgt
     3121 agctcgttga tacaaatcaa caaaatcatt cccagataaa tgatacgaac catcaggaag
     3181 cctcttgaaa ctttctaaag gaaccatatc tttttggaaa atgaccgcca tctctttttt
     3241 tacattcagc atatttttct tctcttcttc aatcttcgct ctctcagaag ccatcagagc
     3301 cttatcacgc tcgttttctt ctctttgcct ataaatatac ctcaactcat cagaaacgct
     3361 ctcacgctct tttacagccg tttggcgcaa ttcagaaatt tcactcatga tttctttgta
     3421 ttcgtgaata tctttaattt tgttggtacc gacaatatcc cttttccaac cgtaatcatt
     3481 cattaatcgt tctatagagt caacttcttg atttctaaaa ttattgaaaa gcactcgacc
     3541 attatcttta tcagcgtgta tcccttgttg aaccagtgct ttattaaagc tcggctgctt
     3601 ttgaacaccc cgtttataac cttcagcaac cggcacaata ttcaagtgca ggtgcggact
     3661 tatttcgtca ttatgaataa cagcattata aacagccaaa ttagggtttc tctcttgaaa
     3721 ctccttgtaa tactgaacca aaattttatt ggcaatcact cgattttgtt cagcttgttg
     3781 tttcgatatg ccagtagaag aaccatctgc tcgatttgtc tggaaatcat ctaaaatgcc
     3841 tatttgcaca ataaattctc gttgaggttc caacttttta tccttgcgca ctttcgctaa
     3901 atagtcctcg atttttctat cggctctttt ttgtttcgca ttatattttt ctaccacttc
     3961 gccaaacaat tcctcatatt tatctgctag attcgtctgc tctaaataaa tattttcatc
     4021 cgatttcgtg aagtcaatat gcttatgcca atcattggtt ttctggcgat cagttaactc
     4081 acgattatta tgagaaatac ttgtattctt cgttcctttt ttaaatgaaa tactaaaccc
     4141 caagttaaaa ccctccttcg cgctgtcgct aataaaaaga ttgtaaacct ttctgttact
     4201 ctttgtcaaa gagtaacatt ttcctaattg tgacatggct gtcacaattc caaatgctct
     4261 ccgagggtat tcgctgtcac aagtgacaac gaaaaaagga gccgaaagcg tgtcacgctc
     4321 tcaactcctt ttacgcttta ttttgcttca cgcaaaataa tcgcttatcg taaa
//
