LOCUS       NZ_LR135286             4073 bp    DNA     linear   CON 13-FEB-2024
DEFINITION  Enterococcus faecium isolate E6975 plasmid 9.
ACCESSION   NZ_LR135286
VERSION     NZ_LR135286.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA4884860
            Assembly: GCF_900639395.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 4073)
  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 03:06:26
            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)                     :: 3,323
            CDSs (total)                      :: 3,230
            Genes (coding)                    :: 3,091
            CDSs (with protein)               :: 3,091
            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)              :: 139
            CDSs (without protein)            :: 139
            Pseudo Genes (ambiguous residues) :: 0 of 139
            Pseudo Genes (frameshifted)       :: 54 of 139
            Pseudo Genes (incomplete)         :: 84 of 139
            Pseudo Genes (internal stop)      :: 31 of 139
            Pseudo Genes (multiple problems)  :: 25 of 139
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            LR135286.1.
            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..4073
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /isolate="E6975"
                     /db_xref="taxon:1352"
                     /plasmid="9"
     gene            complement(<1..1117)
                     /locus_tag="EQB65_RS17375"
     CDS             complement(<1..1117)
                     /locus_tag="EQB65_RS17375"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002303405.1"
                     /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_127840801.1"
                     /translation="MGFSISFKKGTKNTSISHNNRELTDSQKTNDWHKHIDFTKSDENI
                     YLEQTNLADKYEELFGEVVEKYNAKQKRADRKIEDYLAKVRKDKKLEPQREFIVQIGIL
                     DDFQTNRADGSSTGISKQQAEQNRVIANKILVQYYKEFQERNPNLAVYNAVIHNDEISP
                     HLHLNIVPVAEGYKRGVQKQPSFNKALVQQGIHADKDNGRVLFNNFRNQEVDSIERLMN
                     DYGWKRDIVGTNKIKDIHEYKEIMSEISELRQTAVKERESISAEMRYISKQREKNEREK
                     ALVASEKAKIEEEKKSIIDLEKELAVVFQKDPVPLNSFEKLSDGSYRLSSADFVDLYQK
                     ASNATNSKKYADMANESLGNTLDKNIALFDKN"
                     /name="plasmid recombination protein"
     gene            complement(1339..1700)
                     /locus_tag="EQB65_RS17380"
                     /pseudo=""
     CDS             complement(1339..1700)
                     /locus_tag="EQB65_RS17380"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016173819.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /name="hypothetical protein"
     gene            complement(1704..2051)
                     /locus_tag="EQB65_RS17385"
     CDS             complement(1704..2051)
                     /locus_tag="EQB65_RS17385"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002321903.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_171346404.1"
                     /translation="MVAVLEMRCNMDKIDLREETVDRIELMYERLADYLNLPDEDNYSE
                     MLERMMDVLNSTINVGLANSSLITDKFVYGKIAETEDESEKEFWLNILTYVMQLNQIGV
                     IYRNKSKGKEL"
                     /name="hypothetical protein"
     gene            complement(2122..2355)
                     /locus_tag="EQB65_RS17390"
     CDS             complement(2122..2355)
                     /locus_tag="EQB65_RS17390"
                     /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_002303408.1"
                     /translation="MTEKQKYFGKKNWLVNLTGDYVVVVFLDSKKMSGKLLDVTQYELI
                     LKNNKIDSPIIIPKHAVKYIYAVAESSGEAND"
                     /name="hypothetical protein"
     gene            complement(2352..3326)
                     /locus_tag="EQB65_RS17395"
     CDS             complement(2352..3326)
                     /locus_tag="EQB65_RS17395"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002303407.1"
                     /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_002303407.1"
                     /translation="MSKKGTIINEWEKLTAPSNRRLSVPFMDTPLKIQWSIDRITIVGN
                     LKENIYYHTTHDVLILDFEQLMRLNEGNGYLRSVSNNGWQLLDQHEENIAYIEILKWQE
                     GKGRIDFNPNKISQFLASSMKNFIHDLFIEPHFSRADIACDIIDVPDEFITQYRVVDPV
                     SFKPIYGRNGKLETAYWGSRSSERQIRMYNKKLEQEKKRKIVPKEIVSWWRLELQLRRG
                     KATDWHAMVYESLDSFASPHYLPADTSVADKMMITALTTEHDYWGQINRKTKYKYRNLL
                     KQESQNDELTNHLRETFAESADDLKKELDTWLLGLDVTEEEEK"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            complement(3775..>4073)
                     /locus_tag="EQB65_RS17400"
                     /pseudo=""
     CDS             complement(3775..>4073)
                     /locus_tag="EQB65_RS17400"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002303405.1"
                     /note="incomplete; too short partial abutting assembly gap;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=3
                     /transl_table=11
                     /product="recombinase"
                     /name="recombinase"
     Typing          complement(2353..3248)
                     /name="rep_cluster_2146"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(3..1210)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.015"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 tgtttttatc aaataaagcg atatttttat ctaatgtatt tccaagcgat tcattcgcca
       61 tatcagcata ttttttgctg ttcgtagcat tagacgcttt ttgatacaaa tctacaaaat
      121 cagcactaga taagcgataa gaaccatctg ataatttttc aaaactattg agtggcacag
      181 gatctttttg aaatacaaca gccagctctt tttccaaatc gataatcgat tttttctctt
      241 cttcaatttt cgccttctca gaagccacca gagccttctc acgctcgttt ttttctcttt
      301 gcttagaaat atacctcatt tccgcagaaa tgctctcacg ctcttttaca gccgtttggc
      361 gcaattcaga aatttcactc atgatttctt tgtattcgtg aatatcttta attttgttgg
      421 taccgacaat atcccttttc caaccgtaat cattcattaa tcgttctata gagtcaactt
      481 cttgatttct aaaattattg aaaagcactc gaccattatc tttatcagcg tgtatccctt
      541 gttgaaccag tgctttatta aagctcggct gcttttgaac accccgttta taaccttcag
      601 caaccggcac aatattcaag tgcaggtgcg gacttatttc gtcattatga ataacagcat
      661 tataaacagc caaattaggg tttctctctt gaaactcctt gtaatactga accaaaattt
      721 tattggcaat cactcgattt tgttcagctt gttgtttcga tatgccagta gaagaaccat
      781 ctgctcgatt tgtctggaaa tcatctaaaa tgcctatttg cacaataaat tctcgttgag
      841 gttccaactt tttatccttg cgcactttcg ctaaatagtc ctcgattttt ctatcggctc
      901 ttttttgttt cgcattatat ttttctacca cttcgccaaa caattcctca tatttatctg
      961 ctagattcgt ctgctctaaa taaatatttt catccgattt cgtgaagtca atatgcttat
     1021 gccaatcatt ggttttctgg ctatcagtta actcacgatt attatgagaa atacttgtat
     1081 tcttcgttcc ttttttaaat gaaatactaa accccaagtt aaaaccctcc ttcgcgctgt
     1141 cgctaataaa aagagtgtaa acctttctgt tactctttgt caaagagtaa cattttccta
     1201 attgtgacat ggctgtcaca attccaaatg ctctccgagg gtattcgctg tcacaagtga
     1261 caacgaaaaa aggagccgaa agcgtgtcac gctctcaact ccttttacgc tttattttgc
     1321 ttcacgcaaa ataatcgctt atcgtaaact cacgtcatta aacattgacg taaatttact
     1381 ctcactcatc tgactttttt actcggtatc actccgagta agccgtcaga ttcattggga
     1441 taatctcgtt cgcttggcgc tgatttttca tcagcaagcc actcattatc cactgatttt
     1501 tcgtgttgct gatcgtcaga aattgacgat aaccaccgct caaaatcatc aaaagattca
     1561 aatccaaaat gcttccgaag tgccttaccc atttcagcat tttccttctc aatcaatcgt
     1621 tttttctgtt gacgaagttt tgcctgttct tttttcaatt tttcttcttg tgctttaata
     1681 tctgctaaag tcattcccaa gatttacagc tccttgcctt ttgatttatt tcgataaata
     1741 acaccaattt gatttaattg cataacataa gttaaaatat tcagccaaaa ttccttttca
     1801 gattcatctt ctgtttcggc tattttaccg taaacaaatt tatcagtaat caaagaagaa
     1861 tttgctaggc ctacattgat tgtagaattg agaacgtcca tcattctctc aagcatttca
     1921 ctataattat cttcatccgg caaattcaaa taatcagcta atcgttcata catcaattca
     1981 attctatcaa ctgtctcttc tcttaaatca attttatcca tgttacacct catttccaaa
     2041 actgccacca tttccgattc tttaattttc gatacaccta attcatcagc aagatttttt
     2101 atggtcatct tttctgacaa atcagtcatt agcttctcca ctactttcag ctaccgcata
     2161 aatatattta acggcgtgct tagggataat aatcggagag tcaattttat tatttttcaa
     2221 aatcaattca tattgcgtta catcaagtaa cttaccggac atttttttgc tatccaaaaa
     2281 aacaaccaca acgtaatcac ctgttaaatt taccaaccaa tttttcttac caaaatactt
     2341 ttgtttttct gtcatttttc ttcctcctct gttacgtcta gccctagaag ccatgtgtct
     2401 aattcttttt ttaaatcgtc tgccgattct gcaaaggttt ctcgtaaatg attcgtcaat
     2461 tcatcatttt gactttcttg cttcagcaaa tttcgatatt tatattttgt ctttcgatta
     2521 atttgccccc aataatcatg ttctgttgtt aaagcagtaa tcatcatttt gtcagctaca
     2581 cttgtatcag caggcaagta atgaggacta gcaaaactat ctaagctttc ataaaccata
     2641 gcatgccaat cagtcgcttt ccctcgtctt aattgtaatt ctaaccgcca ccaactcacg
     2701 atttcttttg gcacaatttt tcttttcttc tcttgttcca gttttttatt atacatccga
     2761 atttgacgtt cagaagagcg agatccccaa tatgccgtct ctaattttcc attccgtcca
     2821 taaataggct taaaagaaac tggatcaact acccgatatt gtgtaataaa ctcatcaggt
     2881 acatcgataa tgtcgcaagc aatatctgca cgtgaaaagt gaggttcgat aaacaaatca
     2941 tgaataaaat ttttcatgga actagctaag aattgactaa tcttattcgg attgaagtct
     3001 atacgccctt tcccctcttg ccattttaaa atttcaatat aagcaatatt ctcttcatgt
     3061 tggtctaaca actgccaacc attattacta acagatctta aataaccgtt accttcattt
     3121 aggcgcataa gctgttcaaa atctaaaatc aacacatcat gtgtagtgtg ataatagata
     3181 ttctctttaa gatttccaac aatggtaatt cggtcgattg accactgaat ttttaggggg
     3241 gtgtccataa aagggacact taaccgcctg ttagaggggg ctgttaattt ttcccactca
     3301 tttatgatcg tgcctttttt actcaaattt agttcctcct caaagaaaaa agagattggt
     3361 ggaaagaatt ttccagagtt cacgtaactc taaaaaattc ataaccagca atctctagtc
     3421 ttgaagaaac ctgaaattat tcgtataatg aatttgagtt acggagctag tgtgattagt
     3481 ttccgtaaag gtcgagaacg tgtccagcgt tgctcgactt tatttttttg ctcttttttc
     3541 agtttattta tttgataact caataatagc acttctcttt agctatgcaa atatccaaaa
     3601 acataaaacc gcaccctttg aaaagggcgc ccccaaactt cgctaacgct aagttggcca
     3661 aaaaatggac ttgccatttt ttagcaaatg tcagcttcag ggattagtgg tttagccgtc
     3721 aactccttat cctcggcaca gaccgcctcc ggtaccgttg actgcaccgt ataactacca
     3781 ctccatctca ttctcagaac gccctatatt acgttctggg gcattctgct gactagccaa
     3841 cgttttctct tgatctaata tttttagctc ttcagatatt cccatatctt tttctacaag
     3901 cccaaaacga attgataaac gagtgattga tttttgaaat gcgtttttca gttgagttaa
     3961 ccgccgacgc aaagaacgat tttcttcctt cagctttttg ttttcagcaa caaccgctga
     4021 cacatcaacc ttttgttgat ttttcaaaaa agaattttct tgttctaacg cca
//
