LOCUS       NZ_LR135485             4787 bp    DNA     linear   CON 13-FEB-2024
DEFINITION  Enterococcus faecium isolate E4456 plasmid 4.
ACCESSION   NZ_LR135485
VERSION     NZ_LR135485.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA4884734
            Assembly: GCF_900639745.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 4787)
  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 03:08:15
            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)                     :: 2,915
            CDSs (total)                      :: 2,824
            Genes (coding)                    :: 2,690
            CDSs (with protein)               :: 2,690
            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)              :: 134
            CDSs (without protein)            :: 134
            Pseudo Genes (ambiguous residues) :: 0 of 134
            Pseudo Genes (frameshifted)       :: 54 of 134
            Pseudo Genes (incomplete)         :: 81 of 134
            Pseudo Genes (internal stop)      :: 23 of 134
            Pseudo Genes (multiple problems)  :: 21 of 134
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            LR135485.1.
            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..4787
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /isolate="E4456"
                     /db_xref="taxon:1352"
                     /plasmid="4"
     gene            165..329
                     /locus_tag="EQB55_RS15495"
     CDS             165..329
                     /locus_tag="EQB55_RS15495"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002334262.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002337996.1"
                     /translation="MKLTKIAVILAVIAGIILYFVLPANQFFLYFGIPAILIVNGVRIF
                     EQRKKCSST"
                     /name="hypothetical protein"
     gene            1287..2264
                     /locus_tag="EQB55_RS15265"
     CDS             1287..2264
                     /locus_tag="EQB55_RS15265"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002338009.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     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 protein"
                     /protein_id="WP_002338009.1"
                     /translation="MANEIVKYHHELNTIPLRKFTSVEMNLFFSIVSRMRDVGDKKVQF
                     TFEQLKDLSNYKATANVRFIDDLETTYDKLMDLRFGRRSADGLQRERFVLFNQFKIDGK
                     ADIPFAEIQVHEKALPLLNNLEEWVRYSLQQFNELESSYSKTMFRLLKQYRTKGIAYFS
                     KEDFHELLDIPKSYRESDINKKIIKPIRQELTAIFKGLTIKKKYGKGRGKPVIGYQFTF
                     KPEIKKADDFNKHAPTKEEQNKALELVNQQIYSEKDPTSLQEKIKEQKRKLELLQQLEE
                     LERKQNNLNKENKEINEQIPDNNSDIPPELKKGLLDNLQNLFKE"
                     /name="replication initiation protein"
     gene            2274..2771
                     /locus_tag="EQB55_RS15270"
     CDS             2274..2771
                     /locus_tag="EQB55_RS15270"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002347002.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF536 domain-containing protein"
                     /protein_id="WP_002347002.1"
                     /translation="MTDKTIKELADILGVSKDKVKYQLRKLPSNFTYKKGNIIYLKKEA
                     VTTITKVLSGNEPGNLPSELPDSLPTDYLLKEIETKNNHIEEKDRQIEKLQLALETQQK
                     LLDQQQQLTLQANQQIEKLQEQLQLTYTEESSENKSTTLSEETESIEKQSKTEKKWWQF
                     WQ"
                     /name="DUF536 domain-containing protein"
     gene            3147..3428
                     /locus_tag="EQB55_RS15275"
     CDS             3147..3428
                     /locus_tag="EQB55_RS15275"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000353845.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000353845.1"
                     /translation="MDILVRNINPKIITRIDKRCQELTTKTGKKWSRNQYLKILIENDF
                     DHELMNYKKDQFDLLFEKFIAIQAENTNILNDYVHTNNQLIETLIGGI"
                     /name="hypothetical protein"
     gene            3430..3846
                     /locus_tag="EQB55_RS15280"
     CDS             3430..3846
                     /locus_tag="EQB55_RS15280"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001232859.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001232860.1"
                     /translation="MRKTSVQKHVTLYPSHVDVLDSIIEKNPDVNNYSEAIRFLCMSYE
                     PATNTTTTSNQAKLNAMGKEISIMTEIMAEFADLYLKDTGVLIGTNSKVYQEVKEKIEN
                     QLNPSRRNQPKNRQKETNQTFTSGNFDPTNFLKR"
                     /name="hypothetical protein"
     gene            4497..>4787
                     /locus_tag="EQB55_RS15285"
     CDS             4497..>4787
                     /locus_tag="EQB55_RS15285"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002337995.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_127824081.1"
                     /translation="MICKNKKKIIAIIASFSLIFSTACTVLLTNNANVEAASSSYKHNH
                     AGYRCYKMSYYVSPSKCKQLARQTNKLNTVSAIANFIGLSGLTPGIISLVFG"
                     /name="hypothetical protein"
     Typing          1288..2264
                     /name="rep_cluster_1093"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tcagcagtta gtgctaataa tgtatttgtt acagccgcta gaagaggaaa aggcgttcaa
       61 ttaaattata ttgcccattt tagtaatacc actacctata attatagttc taaccaaaat
      121 tatgttataa aataattaaa actttaaact aggaggaatg ctttatgaaa ttaacaaaaa
      181 ttgctgtaat tttagctgtt attgctggca ttattttata ttttgtattg cctgctaatc
      241 aattcttcct ttactttgga atacctgcga ttttaatagt aaatggcgta agaatctttg
      301 aacaacgaaa aaaatgtagc tctacctaat cgttacaaaa caacaatttc accttcggtg
      361 aaataagcga aactttacaa aaagtggcta gcaaatgcta gccttttttg tattgtagag
      421 cgtgaatttt gagggggatt caagggggag cttgcgcccc tttgacaagc ggttatttgc
      481 accaaatacc tccgtatttg gctagcaatc cttctaaaaa atacacctat cgatcagagt
      541 caaaacaaat caattttcga gtgagcgaat ccgaatttgc aaagctgaag ctttgcaaat
      601 gagtgtgccg gcttccgtaa aaatacatat ggctataatt tgcgttttaa ggcgttttaa
      661 acgttctggt atataattat accaaaacaa ctttaaaacg ccttagatct aattttagag
      721 gtcttataga acattttagg gttgttaggg cttgccctga ccgcctgtaa ggcgctttga
      781 gaacaagata agggttttat actaagactg tcttaaaacg gcttaaacaa acgctcagaa
      841 cttttcaaag gagttcttta tgaactgttt ttaagcaaag gagcctttag gcgactgcgc
      901 agtataatgt gagagcgtag cgatcacaca tttttagtga ccgtagggag cgagtttccc
      961 agtttagaaa aattcgcgaa cttgtttgag gaaaaaagca ggagtttttt aggcgggaaa
     1021 ttttgcctcc tcttttataa tctcttttta aacctctttt taaacctctt taccgtcggc
     1081 tgtatgctta ctctcccaag gtgtgcagaa tcttttgggg gtctttttgt ctgtttttag
     1141 gggtcttttt gtctgttttt aggggtcttt ttgtctgttt ttgggggtct ttttgtctgt
     1201 ttttaggggt ctttaattag gggcttgacc cctattagaa agctctttat aattttgtta
     1261 agtagttaat cttgaaggag gattttatgg caaatgaaat tgtgaaatac caccatgaat
     1321 taaatacgat tcctttacgc aaatttacgt cagtagaaat gaatttattc ttctctatag
     1381 tatctagaat gcgtgacgta ggcgataaaa aagtacaatt tacattcgaa caattaaaag
     1441 atttaagcaa ttataaagca actgcaaatg ttcgattcat agatgattta gaaacaacgt
     1501 atgacaaatt aatggattta cgttttggta gaagaagtgc tgacggtttg caacgtgaac
     1561 gatttgtttt atttaatcaa tttaaaatcg atggaaaagc tgatattcct tttgctgaaa
     1621 tacaagtcca tgagaaagcc ttacccttac ttaataatct tgaagaatgg gttcgatatt
     1681 ctctccaaca attcaatgaa ttagaaagca gttattccaa aaccatgttt agattattaa
     1741 aacaatacag aaccaaagga attgcctatt tttcaaaaga agactttcat gaattacttg
     1801 atatccctaa aagttataga gaaagtgata taaataaaaa aattataaag cctattcgcc
     1861 aagaactaac cgcaatcttc aaaggtctga caatcaaaaa gaaatacgga aaaggaagag
     1921 gaaaacctgt cattggctat caattcacgt ttaaacctga aataaaaaaa gcagacgact
     1981 ttaataaaca cgcaccaaca aaagaagaac aaaataaagc tttagaacta gttaatcaac
     2041 aaatttactc tgaaaaagac cccacttcat tacaagaaaa aatcaaagaa cagaaacgaa
     2101 aattagaact tttacaacaa ttagaagagc tagaaagaaa acaaaataat ctgaataaag
     2161 aaaataagga gattaacgaa caaataccag ataacaattc cgatattccc ccagaattaa
     2221 aaaaaggctt actagataat cttcaaaact tatttaaaga ataaggggtt tttatgacag
     2281 ataaaactat caaagaatta gcagatattc taggtgtttc aaaagataaa gtgaagtatc
     2341 aactgaggaa attacctagt aattttacct acaaaaaagg aaatattatc tacctgaaaa
     2401 aagaagcagt aacaacaatt acaaaggttt tatcaggtaa tgagccgggt aacttaccta
     2461 gtgaattacc tgattcatta cctaccgatt acctactcaa ggagattgaa actaagaata
     2521 atcatattga agaaaaagat aggcaaattg aaaaacttca actagcttta gaaacacaac
     2581 aaaaattact cgaccagcaa caacaactca ccctgcaagc caaccaacaa atcgagaaac
     2641 tgcaggaaca actacagttg acttatacgg aagaatcttc ggaaaataaa tcaacgactc
     2701 tttctgaaga aacagaatcg atagaaaaac aatcaaagac ggagaaaaaa tggtggcaat
     2761 tctggcaata aaaccagcaa tttaaattaa taaaaattgc tggttttatt cttctttttg
     2821 cttttgcgag cagagcaaca tgggcccatg ttgcgatatt ttggtggcgc cccaatcccc
     2881 gttttttcgt tgaatcttac tcggactgca ctcgttttac agctgatttt tctgaatttt
     2941 gaaagagcat aaggaaacgt ggtatcactt tcttacgaaa ggtgctagat aagctgtgcc
     3001 tatcacgttt ctcagaaaaa aatttgctat cacttttttg ccattgtggc taggctatgt
     3061 atagtgtttt ggcgaaaaat agctatacaa atactatatt tgtatgatat acataaatta
     3121 tatactgata cgaaaggaaa atttccatgg acattttagt tcgaaatatc aatcccaaaa
     3181 ttattacaag aatagataaa cgttgtcagg aactaacaac caaaacgggc aaaaaatgga
     3241 gtcgaaatca atacctaaaa attttaatcg aaaacgattt tgaccacgaa cttatgaatt
     3301 acaaaaaaga tcaattcgat ttattattcg aaaaatttat tgccattcaa gcagaaaata
     3361 cgaacatact aaatgactat gttcacacaa acaaccaact cattgaaaca cttatcggag
     3421 gaatataaca tgagaaaaac ttctgttcaa aaacacgtaa ccctttatcc cagtcacgtt
     3481 gacgttttag attccatcat cgaaaaaaat ccagacgtca acaattattc agaagccatt
     3541 cgctttttat gtatgagtta tgaacctgct accaatacaa ccacaaccag taaccaagca
     3601 aaactcaatg ccatgggaaa agaaatttct atcatgacag aaatcatggc agaatttgct
     3661 gatttatatc taaaagatac tggtgttctt atcggtacaa attctaaagt atatcaagaa
     3721 gtgaaagaaa aaattgaaaa tcaactcaat ccttcccgac gaaatcaacc caaaaatcgt
     3781 caaaaagaaa ccaatcaaac ctttacttct ggaaattttg acccaacaaa ctttctaaaa
     3841 agataaaaaa agaaaccgaa aaataaaaaa attcctcgat ttctttttag ggatcggtct
     3901 tccagcaaga tttgcaagtt ggtaccaact tgcgaaaaaa aaaagaaaaa tccgcttctg
     3961 cgaattcttc ttttttcatt ttggggcgct gccctaatcc ctaagtcccg gttattcaat
     4021 agcatggaaa ctcaaagaat aagacgttcc ctggaataaa aaaaaggctg ctcgttcgag
     4081 cagtccatac ataggaaaat gaaaaaacga cgtcccttac tgagaaacgc tattaaactt
     4141 ttaacaaatc ctctaaaaaa taacaagtct ttaaaaagtg accggtaaaa atgcacaaag
     4201 aactaaaaaa gagaaattgc atcaaatcaa gcattagaag ctagtaacta gctagaccaa
     4261 ttgaaaatca caaagtgagc gcctgtatct attgctacag gcgctacttg gcatagtata
     4321 cattatgtca acaagaattt aatataacat atttttctag tttgttataa caatgccact
     4381 ctaacaaaaa tgtaagcatt atccttatta aaagctcctt gacaagacta taccttttat
     4441 tttatgattt ttacatagaa aacgttttct ctattttttg tttagaggtg atttttatga
     4501 tttgcaagaa caagaaaaaa atcattgcta ttattgctag tttctctttg atttttagta
     4561 ctgcatgtac tgtcttatta acaaataatg ctaatgttga agctgcaagc tcttcttaca
     4621 aacataatca tgctggttat agatgttaca aaatgagtta ttatgtaagt ccttctaaat
     4681 gcaaacaatt ggctcgccaa actaataaac ttaataccgt ctcagctatt gcaaacttta
     4741 ttggactatc tggattaaca ccggggatta tatcattagt tttcgga
//
