LOCUS       NZ_OU016033             4374 bp    DNA     circular CON 30-MAY-2024
DEFINITION  Enterococcus faecium isolate USZ_VRE67_P60 plasmid pl6, complete
            sequence.
ACCESSION   NZ_OU016033
VERSION     NZ_OU016033.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA8659991
            Assembly: GCF_907176815.1
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_907176815.1-RS_2024_05_30
            Annotation Date                   :: 05/30/2024 03:57:49
            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)                     :: 3,143
            CDSs (total)                      :: 3,050
            Genes (coding)                    :: 2,920
            CDSs (with protein)               :: 2,920
            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)              :: 130
            CDSs (without protein)            :: 130
            Pseudo Genes (ambiguous residues) :: 0 of 130
            Pseudo Genes (frameshifted)       :: 40 of 130
            Pseudo Genes (incomplete)         :: 84 of 130
            Pseudo Genes (internal stop)      :: 25 of 130
            Pseudo Genes (multiple problems)  :: 15 of 130
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            OU016033.1.
            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_VRE67_P60"
                     /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(3491..4374,1..523))
                     /locus_tag="KKQ96_RS15530"
     CDS             complement(join(3491..4374,1..523))
                     /locus_tag="KKQ96_RS15530"
                     /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"
     gene            complement(745..1107)
                     /locus_tag="KKQ96_RS15535"
     CDS             complement(745..1107)
                     /locus_tag="KKQ96_RS15535"
                     /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(1111..1419)
                     /locus_tag="KKQ96_RS15540"
     CDS             complement(1111..1419)
                     /locus_tag="KKQ96_RS15540"
                     /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(1428..1847)
                     /locus_tag="KKQ96_RS15545"
     CDS             complement(1428..1847)
                     /locus_tag="KKQ96_RS15545"
                     /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(1840..2073)
                     /locus_tag="KKQ96_RS15550"
     CDS             complement(1840..2073)
                     /locus_tag="KKQ96_RS15550"
                     /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(2076..3044)
                     /locus_tag="KKQ96_RS15555"
     CDS             complement(2076..3044)
                     /locus_tag="KKQ96_RS15555"
                     /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"
     Typing          complement(2084..2961)
                     /name="rep_cluster_943"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="83.973"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          complement(3..616)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="99.0"
                     /evalue="5.32e-134"
     Typing          complement(3495..4372)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.857"
                     /coverage="99.0"
                     /evalue="8.790000000000001e-173"
ORIGIN
        1 cttcagcaac cggcacaata ttcaagtgca ggtgcggact tatttcgtca ttatgaataa
       61 cagcattata aacagccaaa ttagggtttc tctcttgaaa ctccttgtaa tactgaacca
      121 aaattttatt ggcaatcact cgattttgtt cagcttgttg tttcgatatg ccagtagaag
      181 aaccatctgc tcgatttgtc tggaaatcat ctaaaatgcc tatttgcaca ataaattctc
      241 gttgaggttc caacttttta tccttgcgca ctttcgctaa atagtcctcg atttttctat
      301 cggctctttt ttgtttcgca ttatattttt ctaccacttc gccaaacaat tcctcatatt
      361 tatctgctag attcgtctgc tctaaataaa tattttcatc cgatttcgtg aagtcaatat
      421 gcttatgcca atcattggtt ttctggcgat cagttaactc acgattatta tgagaaatac
      481 ttgtattctt cgttcctttt ttaaatgaaa tactaaaccc caagttaaaa ccctccttcg
      541 cgctgtcgct aataaaaaga ttgtaaacct ttctgttact ctttgtcaaa gagtaacatt
      601 ttcctaattg tgacatggct gtcacaattc caaatgctct ccgagggtat tcgctgtcac
      661 aagtgacaac gaaaaaagga gccgaaagcg tgtcacgctc tcaactcctt ttacgcttta
      721 ttttgcttca cgcaaaataa tcgcttatcg taaattcacg tcattaaata ttgacgtaaa
      781 tttactctca ctcatctgac ttttcttatt cggtatcact ccgaataagc cgtcagattc
      841 atcgggataa tctcgttcgc ttggcgctga tttttcatca gcaagccact cattatccac
      901 tgatttttcg tgttgctgat cgtcagaaat cgacgatagc caccgctcaa aatcagcaaa
      961 agtttcaaac ccaaaacgct tgcgaagagc cttgcccatt gcagcatttt ctttctcaat
     1021 caagcgtttt ttctgttggc gaagtttcgc ttgttctttt tttaattttt cttcttgcgc
     1081 tttaatatct gctaaagtca ttcccataaa ctacatctcc ttttctttgg aattaataac
     1141 ggaaatttgg tttaactgca taacatgact cattaatttc aaccaaaatt ctttttctga
     1201 ttcatcagtt gtttgcgcta aatgcttatg aacaaattca ttagtcaaaa ctgaagattt
     1261 tgctagatca gcattgataa ccgagttgag aacatccatc attcgttcaa gcatttcact
     1321 ataattatct tcatccggca aattcaaata atcagctaac cgttcataca tcaattcaat
     1381 tctatcgact gtttcttctc tcaaatcaat tttatccatg tcacacctca cttccagaat
     1441 tgccaccatt ttcgattttt taattcttga ttttctagta acaactgatc gtttttttgt
     1501 tgctgaagca aagtcaattt ttgttggtca cgaatcattt ccgttaattc agaaatatgc
     1561 ctatcttttt ccgctaattg ttcacgcaaa aattcatttt ctttttctaa cgggaaatca
     1621 ttgcctgcat cattgaccgg taaatcacca gtcaattgac caccttttga ccgataaatt
     1681 gaccgcacaa caccaatcaa ttccttgtct aacatgataa ccccattatc tttataccga
     1741 gcaaggtcat aacctgcatt gaccagttga ttgcgcactg tatttttaga tatacccaac
     1801 tcatcagcaa ggttttttat ggtcattttt tctggcaaat cagtcattat cttctccgtt
     1861 actttcagct accccataaa catatttaac agcatgctta gggataatga ttggggaatc
     1921 aattttatta tttttcaaaa tcaactcata ctgcgttaca tcaagtaact taccggacat
     1981 ttttttgcta tccaaaaaaa caacgacaac gttatcacct gttaaattca ccaaccaatt
     2041 tttcttacca aaatgctttt gtttttctgc cattcttatt cctcctccgt tacatctaac
     2101 ccttgaagcc aagtgtctaa ttcttttttc aaaacatctg ctgattccga aaatgtttct
     2161 cgtaaatgat tcgtcaactc atcattttga ctttctcttt tcaaaatatc tctcaatttg
     2221 tatttcattc tacgctctaa aaacccccac atttcagggt tagcaatcag tccaaaaatc
     2281 atcaccttat catttgtttt tacatcaagt ggtagaaaat gagggctagc aaaactattt
     2341 aaactttcat gaaccattgc atgccaatct gttgctttcc cacgccttaa ctgcaattcc
     2401 agtcgccacc aagtttctat ttctggtggc acaattttac gcttggtttc ctgttccaat
     2461 tttttgttgt atagccgaat ctggcgttcg ctggcacgac tgccccaata agctgtttcc
     2521 agcttcccag accgcccata aattggcttg aaagaaacag gatcaaccac tcgatattgt
     2581 gtaataaact catcaggcac atcgataata tcgcaagcaa tatccgcacg tgagaaatgt
     2641 ggttctagaa ataaatcatg aatgaaattt ttcattgaac tagctaaaaa atgaccaatc
     2701 ttattcgggt taaaatcaat ccgccctttg ccatcttgcc atttcaaaat ctcaatataa
     2761 gcaatatttt cttcgtattg gtctaataat tgccagccgt tattcccaac cgcttttaaa
     2821 tagccattgc cttcattcac ccgcattaat tgctcaaaat ctaaaatcaa cacatcattt
     2881 tgagtgtgat aataaatatt ttccttcagt tttccaacga tagtaattcg gtcaattgac
     2941 cactgcattt ttaagggggt gtacatattt tgtacattta accgcctgtt agatagggct
     3001 gttaaatttt cccactcatt tacgattatg ccatttttac tcaaattttg ttcctcctca
     3061 aagaaaaaga gacttctgga aagaattttc aaaagttcac gtaactctta aaaattcatt
     3121 accaaaaaat ctctagtctt gaagaaatct aaaaatattc gtataatgat taagaagtta
     3181 cggagctagt gcgattagtt tccgtaaagg tcgagaacgt tggtagcgtt gctcgactat
     3241 ttttttactc ttttttcagt tcatttgttt gctaactcaa taatagcact tctctttagc
     3301 tatgcaaata tccaaaaaat aaaaccgcac cctttgaaaa gggcgccccc aaacttcgct
     3361 aacgctaggt tggccaaaaa atggactggc cattttttag caaatgtcag cttaataggc
     3421 tagtggttta gccgtcaact ccttatcctc ggcacaaacc gcctccggta ccgttgactg
     3481 cacatcgtaa ctaccactcg atctcatctt cagaacgctc taatttacgc tgtgagacgt
     3541 tttgacgata aaataaggtt ttctcctgct ctaacacttc taattcctca gaaagcccca
     3601 tatccttttc tgcaagacca aaacggatag acaaacgagt gatcgatttt tgaaatgcgt
     3661 tttttaatcg ctctaaacgc tggcgtaaag agcgattttc ttctttcagc tttttatttt
     3721 ccacttgtaa atctgctaat tgttttctac cagacaaatg acgcttttct tccaatgtag
     3781 ctacatactc atttaattct gtattttgct caagcatctg taaatattgc tcactcatgt
     3841 tatcagcatt tctcttggca tttgttgctc tcgtagctcg ttgatacaaa tcaacaaaat
     3901 cattcccaga taaatgatac gaaccatcag gaagcctctt gaaactttct aaaggaacca
     3961 tatctttttg gaaaatgacc gccatctctt tttttacatt cagcatattt ttcttctctt
     4021 cttcaatctt cgctctctca gaagccatca gagccttatc acgctcgttt tcttctcttt
     4081 gcctataaat atacctcaac tcatcagaaa cgctctcacg ctcttttaca gccgtttggc
     4141 gcaattcaga aatttcactc atgatttctt tgtattcgtg aatatcttta attttgttgg
     4201 taccgacaat atcccttttc caaccgtaat cattcattaa tcgttctata gagtcaactt
     4261 cttgatttct aaaattattg aaaagcactc gaccattatc tttatcagcg tgtatccctt
     4321 gttgaaccag tgctttatta aagctcggct gcttttgaac accccgttta taac
//
