LOCUS       NZ_LR135329             4374 bp    DNA     linear   CON 13-FEB-2024
DEFINITION  Enterococcus faecium isolate E7654 plasmid 6.
ACCESSION   NZ_LR135329
VERSION     NZ_LR135329.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA4885352
            Assembly: GCF_900639515.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 4374)
  AUTHORS   Arredondo-Alonso,S.
  TITLE     Direct Submission
  JOURNAL   Submitted (21-DEC-2018) UNIVERSITY MEDICAL CENTER UTRECHT,
            Heidelberglaan 100, 3584 CX Utrecht, Netherlands
COMMENT     ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/13/2024 02:50:23
            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)                     :: 3,080
            CDSs (total)                      :: 2,986
            Genes (coding)                    :: 2,874
            CDSs (with protein)               :: 2,874
            Genes (RNA)                       :: 94
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 72
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 112
            CDSs (without protein)            :: 112
            Pseudo Genes (ambiguous residues) :: 0 of 112
            Pseudo Genes (frameshifted)       :: 42 of 112
            Pseudo Genes (incomplete)         :: 67 of 112
            Pseudo Genes (internal stop)      :: 21 of 112
            Pseudo Genes (multiple problems)  :: 14 of 112
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            LR135329.1.
            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/
FEATURES             Location/Qualifiers
     source          1..4374
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /isolate="E7654"
                     /db_xref="taxon:1352"
                     /plasmid="6"
     gene            <1..547
                     /locus_tag="EQB39_RS16005"
     CDS             <1..547
                     /locus_tag="EQB39_RS16005"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002364959.1"
                     /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=2
                     /transl_table=11
                     /product="replication initiation factor domain-containing
                     protein"
                     /protein_id="WP_164852472.1"
                     /translation="IACDIIDVPDEFITQYRVVDPVSFKPIYGRSGKLETAYWGSRASE
                     RQIRLYNKKLEQETKRKIVPPEIETWWRLELQLRRGKATDWHAMVHESLNSFASPHFLP
                     LDVKTNDKVMIFGLIANPEMWGFLERRMKYKLRDILKRESQNDELTNHLRETFSESADV
                     LKKELDTWLQGLDVTEEE"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            550..783
                     /locus_tag="EQB39_RS16010"
     CDS             550..783
                     /locus_tag="EQB39_RS16010"
                     /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            776..1195
                     /locus_tag="EQB39_RS16015"
     CDS             776..1195
                     /locus_tag="EQB39_RS16015"
                     /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            1204..1512
                     /locus_tag="EQB39_RS16020"
     CDS             1204..1512
                     /locus_tag="EQB39_RS16020"
                     /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            1516..1878
                     /locus_tag="EQB39_RS16025"
     CDS             1516..1878
                     /locus_tag="EQB39_RS16025"
                     /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            2100..3506
                     /locus_tag="EQB39_RS16030"
     CDS             2100..3506
                     /locus_tag="EQB39_RS16030"
                     /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_002317172.1"
                     /translation="MGFSISFKKGTKNTSISHNNRELTDRQKTNDWHKHIDFTKSDENI
                     YLEQTNLADKYEELFGEVVEKYNAKQKRADRKIEDYLAKVRKDKKLEPQREFIVQIGIL
                     DDFQTNRADGSSTGISKQQAEQNRVIANKILVQYYKEFQERNPNLAVYNAVIHNDEISP
                     HLHLNIVPVAEGYKRGVQKQPSFNKALVQQGIHADKDNGRVLFNNFRNQEVDSIERLMN
                     DYGWKRDIVGTNKIKDIHEYKEIMSEISELRQTAVKERESVSDELRYISRQREENERDK
                     ALMASERAKIEEEKKNMLNVKKEMAVIFQKDMVPLESFKRLPDGSYHLSGNDFVDLYQR
                     ATRATNAKRNADNMSEQYLQMLEQNTELNEYVATLEEERHLSGRKQLADLQVENKKLKE
                     ENRSLRQRLERLKNAFQKSITRLSIRFGLAEKDMGLSEELEVLEQEKTLFYRQNVSQRK
                     LERSEDEIEW"
                     /name="plasmid recombination protein"
     gene            3953..>4374
                     /locus_tag="EQB39_RS16035"
                     /pseudo=""
     CDS             3953..>4374
                     /locus_tag="EQB39_RS16035"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002342725.1"
                     /note="incomplete; too short partial abutting assembly gap;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="replication protein"
                     /name="replication protein"
     Typing          4037..4374
                     /name="rep_cluster_943"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.201"
                     /coverage="97.0"
                     /evalue="5.33e-110"
     Typing          2101..3503
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.88"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tattgcttgc gatattatcg atgtgcctga tgagtttatt acacaatatc gagtggttga
       61 tcctgtttct ttcaagccaa tttatgggcg gtctgggaag ctggaaacag cttattgggg
      121 cagtcgtgcc agcgaacgcc agattcggct atacaacaaa aaattggaac aggaaaccaa
      181 gcgtaaaatt gtgccaccag aaatagaaac ttggtggcga ctggaattgc agttaaggcg
      241 tgggaaagca acagattggc atgcaatggt tcatgaaagt ttaaatagtt ttgctagccc
      301 tcattttcta ccacttgatg taaaaacaaa tgataaggtg atgatttttg gactgattgc
      361 taaccctgaa atgtgggggt ttttagagcg tagaatgaaa tacaaattga gagatatttt
      421 gaaaagagaa agtcaaaatg atgagttgac gaatcattta cgagaaacat tttcggaatc
      481 agcagatgtt ttgaaaaaag aattagacac ttggcttcaa gggttagatg taacggagga
      541 ggaataagaa tggcagaaaa acaaaagcat tttggtaaga aaaattggtt ggtgaattta
      601 acaggtgata acgttgtcgt tgtttttttg gatagcaaaa aaatgtccgg taagttactt
      661 gatgtaacgc agtatgagtt gattttgaaa aataataaaa ttgattcccc aatcattatc
      721 cctaagcatg ctgttaaata tgtttatggg gtagctgaaa gtaacggaga agataatgac
      781 tgatttgcca gaaaaaatga ccataaaaaa ccttgctgat gagttgggta tatctaaaaa
      841 tacagtgcgc aatcaactgg tcaatgcagg ttatgacctt gctcggtata aagataatgg
      901 ggttatcatg ttagacaagg aattgattgg tgttgtgcgg tcaatttatc ggtcaaaagg
      961 tggtcaattg actggtgatt taccggtcaa tgatgcaggc aatgatttcc cgttagaaaa
     1021 agaaaatgaa tttttgcgtg aacaattagc ggaaaaagat aggcatattt ctgaattaac
     1081 ggaaatgatt cgtgaccaac aaaaattgac tttgcttcag caacaaaaaa acgatcagtt
     1141 gttactagaa aatcaagaat taaaaaatcg aaaatggtgg caattctgga agtgaggtgt
     1201 gacatggata aaattgattt gagagaagaa acagtcgata gaattgaatt gatgtatgaa
     1261 cggttagctg attatttgaa tttgccggat gaagataatt atagtgaaat gcttgaacga
     1321 atgatggatg ttctcaactc ggttatcaat gctgatctag caaaatcttc agttttgact
     1381 aatgaatttg ttcataagca tttagcgcaa acaactgatg aatcagaaaa agaattttgg
     1441 ttgaaattaa tgagtcatgt tatgcagtta aaccaaattt ccgttattaa ttccaaagaa
     1501 aaggagatgt agtttatggg aatgacttta gcagatatta aagcgcaaga agaaaaatta
     1561 aaaaaagaac aagcgaaact tcgccaacag aaaaaacgct tgattgagaa agaaaatgct
     1621 gcaatgggca aggctcttcg caagcgtttt gggtttgaaa cttttgctga ttttgagcgg
     1681 tggctatcgt cgatttctga cgatcagcaa cacgaaaaat cagtggataa tgagtggctt
     1741 gctgatgaaa aatcagcgcc aagcgaacga gattatcccg atgaatctga cggcttattc
     1801 ggagtgatac cgaataagaa aagtcagatg agtgagagta aatttacgtc aatatttaat
     1861 gacgtgaatt tacgataagc gattattttg cgtgaagcaa aataaagcgt aaaaggagtt
     1921 gagagcgtga cacgctttcg gctccttttt tcgttgtcac ttgtgacagc gaataccctc
     1981 ggagagcatt tggaattgtg acagccatgt cacaattagg aaaatgttac tctttgacaa
     2041 agagtaacag aaaggtttac aatcttttta ttagcgacag cgcgaaggag ggttttaact
     2101 tggggtttag tatttcattt aaaaaaggaa cgaagaatac aagtatttct cataataatc
     2161 gtgagttaac tgatcgccag aaaaccaatg attggcataa gcatattgac ttcacgaaat
     2221 cggatgaaaa tatttattta gagcagacga atctagcaga taaatatgag gaattgtttg
     2281 gcgaagtggt agaaaaatat aatgcgaaac aaaaaagagc cgatagaaaa atcgaggact
     2341 atttagcgaa agtgcgcaag gataaaaagt tggaacctca acgagaattt attgtgcaaa
     2401 taggcatttt agatgatttc cagacaaatc gagcagatgg ttcttctact ggcatatcga
     2461 aacaacaagc tgaacaaaat cgagtgattg ccaataaaat tttggttcag tattacaagg
     2521 agtttcaaga gagaaaccct aatttggctg tttataatgc tgttattcat aatgacgaaa
     2581 taagtccgca cctgcacttg aatattgtgc cggttgctga aggttataaa cggggtgttc
     2641 aaaagcagcc gagctttaat aaagcactgg ttcaacaagg gatacacgct gataaagata
     2701 atggtcgagt gcttttcaat aattttagaa atcaagaagt tgactctata gaacgattaa
     2761 tgaatgatta cggttggaaa agggatattg tcggtaccaa caaaattaaa gatattcacg
     2821 aatacaaaga aatcatgagt gaaatttctg aattgcgcca aacggctgta aaagagcgtg
     2881 agagcgtttc tgatgagttg aggtatattt ctaggcaaag agaagaaaac gagcgtgata
     2941 aggctctgat ggcttctgag agagcgaaga ttgaagaaga gaagaaaaat atgctgaatg
     3001 taaaaaaaga gatggcggtc attttccaaa aagatatggt tcctttagaa agtttcaaga
     3061 ggcttcctga tggttcgtat catttatctg ggaatgattt tgttgatttg tatcaacgag
     3121 ctacgagagc aacaaatgcc aagagaaatg ctgataacat gagtgagcaa tatttacaga
     3181 tgcttgagca aaatacagaa ttaaatgagt atgtagctac attggaagaa gagcgtcatt
     3241 tgtctggtag aaaacaatta gcagatttac aagtggaaaa taaaaagctg aaagaagaaa
     3301 atcgctcttt acgccagcgt ttagagcgat taaaaaacgc atttcaaaaa tcgatcactc
     3361 gtttgtctat ccgttttggt cttgcagaaa aggatatggg gctttctgag gaattagaag
     3421 tgttagagca ggagaaaacc ttattttatc gtcaaaacgt ctcacagcgt aaattagagc
     3481 gttctgaaga tgagatcgag tggtagttac gatgtgcagt caacggtacc ggaggcggtt
     3541 tgtgccgagg ataaggagtt gacggctaaa ccactagcct attaagctga catttgctaa
     3601 aaaatggcca gtccattttt tggccaacct agcgttagcg aagtttgggg gcgccctttt
     3661 caaagggtgc ggttttattt tttggatatt tgcatagcta aagagaagtg ctattattga
     3721 gttagcaaac aaatgaactg aaaaaagagt aaaaaaatag tcgagcaacg ctaccaacgt
     3781 tctcgacctt tacggaaact aatcgcacta gctccgtaac ttcttaatca ttatacgaat
     3841 atttttagat ttcttcaaga ctagagattt tttggtaatg aatttttaag agttacgtga
     3901 acttttgaaa attctttcca gaagtctctt tttctttgag gaggaacaaa atttgagtaa
     3961 aaatggcata atcgtaaatg agtgggaaaa tttaacagcc ctatctaaca ggcggttaaa
     4021 tgtacaaaat atgtacaccc ccttaaaaat gcagtggtca attgaccgaa ttactatcgt
     4081 tggaaaactg aaggaaaata tttattatca cactcaaaat gatgtgttga ttttagattt
     4141 tgagcaatta atgcgggtga atgaaggcaa tggctattta aaagcggttg ggaataacgg
     4201 ctggcaatta ttagaccaat acgaagaaaa tattgcttat attgagattt tgaaatggca
     4261 agatggcaaa gggcggattg attttaaccc gaataagatt ggtcattttt tagctagttc
     4321 aatgaaaaat ttcattcatg atttatttct agaaccacat ttctcacgtg cgga
//
