LOCUS       NZ_LR135263             6525 bp    DNA     linear   CON 13-FEB-2024
DEFINITION  Enterococcus faecium isolate E4457 plasmid 6.
ACCESSION   NZ_LR135263
VERSION     NZ_LR135263.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA4884735
            Assembly: GCF_900639405.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 6525)
  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 03:06:36
            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)                     :: 2,952
            CDSs (total)                      :: 2,862
            Genes (coding)                    :: 2,745
            CDSs (with protein)               :: 2,745
            Genes (RNA)                       :: 90
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 68
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 117
            CDSs (without protein)            :: 117
            Pseudo Genes (ambiguous residues) :: 0 of 117
            Pseudo Genes (frameshifted)       :: 63 of 117
            Pseudo Genes (incomplete)         :: 51 of 117
            Pseudo Genes (internal stop)      :: 27 of 117
            Pseudo Genes (multiple problems)  :: 20 of 117
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            LR135263.1.
            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..6525
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /isolate="E4457"
                     /db_xref="taxon:1352"
                     /plasmid="6"
     gene            793..1512
                     /locus_tag="EQB59_RS15330"
     CDS             793..1512
                     /locus_tag="EQB59_RS15330"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002311815.1"
                     /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_002311815.1"
                     /translation="MDEKTELTVKYQNELNLVPLKNFNAKQMDLFFALCARMKDRGLKK
                     VRFSFEELKELSDYKMTATKAFVGDLEKLYKDMLNLTYRTEDEDSIRYFVLFTGFEINK
                     TKKFVEVSVNPDLEYIINGLTAEFSRFELSAFTSLRSTYAKTLFRLLMQYRSTGYYVVR
                     IEEFRSLMDIPEYYQMGNIDQKVLNPALRELKKYFNDLKVTKIKAKKGNKIAKLEFTFS
                     SLTSDLPKISLRNWLEE"
                     /name="replication initiation protein"
     gene            complement(1649..2065)
                     /locus_tag="EQB59_RS15335"
     CDS             complement(1649..2065)
                     /locus_tag="EQB59_RS15335"
                     /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_001232859.1"
                     /translation="MRKTSVQKHVTLYPSHVDVLDSIIEKNPDINNYSEAIRFLCMSYE
                     PDTNTTTTSNQAKLNAMGKEISIMTEIIAEFADLYLKDTGVLIGTNSKVYQEVKEKIEA
                     KLNPSNRNRPKNHQKETSQTVTSRNFDPTNFLKR"
                     /name="hypothetical protein"
     gene            complement(2068..2352)
                     /locus_tag="EQB59_RS15340"
     CDS             complement(2068..2352)
                     /locus_tag="EQB59_RS15340"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002337999.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000353844.1"
                     /translation="MDILVRNIDPKFVATIDKRCQELTNKTGEKWSRNKYLKVLIESDF
                     DRQLTTYKKDQFDLLLDKFIAIQTENTQILSEYVYTNNQIIEMLIGGMI"
                     /name="hypothetical protein"
     gene            2718..2942
                     /locus_tag="EQB59_RS15345"
     CDS             2718..2942
                     /locus_tag="EQB59_RS15345"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000410576.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000410576.1"
                     /translation="MEKFPYEYFQNLEKLEQAIQAIKFDLTDEKLLEYKNMTPERKRSL
                     EKLMQLVNEDGGISDAAFDAWSEFHGEYN"
                     /name="hypothetical protein"
     gene            3066..3245
                     /locus_tag="EQB59_RS15350"
     CDS             3066..3245
                     /locus_tag="EQB59_RS15350"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002322661.1"
                     /translation="MEKDIYKQLTRQIQKEKEKGLLDHLDELELKADEINKNRMSAKEK
                     GIKLKDSSLQSDKS"
                     /name="hypothetical protein"
     gene            3737..3910
                     /locus_tag="EQB59_RS15355"
     CDS             3737..3910
                     /locus_tag="EQB59_RS15355"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010625631.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002322660.1"
                     /translation="MEEKKEMQSVTIRIPKKLYADYKQALLEQGKIVTYDLRRYMSDVV
                     EESARKETEQKK"
                     /name="hypothetical protein"
     gene            3982..4704
                     /locus_tag="EQB59_RS15360"
     CDS             3982..4704
                     /locus_tag="EQB59_RS15360"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002415118.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication protein"
                     /protein_id="WP_002322659.1"
                     /translation="MSKEKARYFTFLLYPESIPDDWEEKLELIGVPIAISPLHDMDEKT
                     NKAKWTSDDVVRNGKHYKKPHYHVIYVAGNPVTTESVRLKIKRALGSKSVNKVQIITTS
                     IQNTYLYLTHESKDAIAKNKHKYKSSDIKLFNNFDIDRYNTLDVEEKDELFEVICEIVE
                     KYQIANILELGKFVRKYGAAYGLISMRVVNKVIASKTGLMRIYFDGAYQARKNGIREIE
                     LDIDLETGEIKEDENGNI"
                     /name="replication protein"
     gene            4691..4897
                     /locus_tag="EQB59_RS15365"
     CDS             4691..4897
                     /locus_tag="EQB59_RS15365"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010010243.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002322658.1"
                     /translation="MEIFDEYYDSHNLNENSQYSDFSKKHLVIEAEYMHSALCKVLKYL
                     NEGGTDLDIIRAEVMDGIYESRI"
                     /name="hypothetical protein"
     gene            complement(4953..5369)
                     /locus_tag="EQB59_RS15370"
     CDS             complement(4953..5369)
                     /locus_tag="EQB59_RS15370"
                     /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_060811589.1"
                     /translation="MRKTSVQKHVTLYPSHVDVLDSIIEKNPDINNYSEAIRFLCMSYE
                     PDTNTTTTSNQAKLNAMGKEISIMTEIIAEFADLYLKDTGVLIGTNSKVYQEVKEKIEA
                     KLNPSNRNRPKNHQKGTNKTVTSSNFDPTKFLKR"
                     /name="hypothetical protein"
     gene            complement(5372..5656)
                     /locus_tag="EQB59_RS15375"
     CDS             complement(5372..5656)
                     /locus_tag="EQB59_RS15375"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002337999.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000353844.1"
                     /translation="MDILVRNIDPKFVATIDKRCQELTNKTGEKWSRNKYLKVLIESDF
                     DRQLTTYKKDQFDLLLDKFIAIQTENTQILSEYVYTNNQIIEMLIGGMI"
                     /name="hypothetical protein"
     gene            6022..6246
                     /locus_tag="EQB59_RS15380"
     CDS             6022..6246
                     /locus_tag="EQB59_RS15380"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000410576.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000410576.1"
                     /translation="MEKFPYEYFQNLEKLEQAIQAIKFDLTDEKLLEYKNMTPERKRSL
                     EKLMQLVNEDGGISDAAFDAWSEFHGEYN"
                     /name="hypothetical protein"
     Typing          794..1512
                     /name="rep_cluster_1763"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          3983..4704
                     /name="rep_cluster_2300"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="86.74"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gctgagtcgc cttaattaag ttttacttct tgtttcggtt attcaaccag taactgaaca
       61 aagcgcttaa aagcccaaca agaagggagc aaataaagtt agtgaacacg aaacacacct
      121 ccttccagtc gcaagactgt cggataggcg acaatcaatt atacaataaa aaagcaaaaa
      181 taagcctaag ttttttattg ccttggggtt gttagggctt gccctgaccg cctgtaaggc
      241 gctttagaac gaaggacata gtttttatcg aatcttgtct tagaacggct tagacgagct
      301 ctcaggacgc cacaaaggag tccctaatga attatttttg gcgaaggagc ctaaaggcga
      361 ctgctgcaag taaaatgtga gagcgtagcg atcactcctt cttacagcga ccatagggag
      421 ctagattggc agtttaatat catgcgcgaa cctgtttatt ttaaaaagtg ggtgattttt
      481 tggcgggaaa ttttgctcgc gcgcgcgcgt ttattttatt tattttttaa agatttttta
      541 gaaccctttt tagggggcag ttgagcctta ctctcccaac ggatacagaa gggtactaac
      601 aactttttat ctgagtacta acaacttttt atctgagtac taacaacttt ttatctgagt
      661 actaacaact ttttatctga gtactaacaa ctttttatct gagtactaat atccttttgt
      721 ataataacaa ccaacctatt tacgagttgg ttgttaaagg ttattattta tttgtaaggg
      781 gggaagaaag gaatggatga aaaaacggaa ttaacagtca aatatcaaaa tgaattgaat
      841 ttagtaccgc tgaaaaattt caatgctaag cagatggatt tattttttgc attatgcgct
      901 cgtatgaaag atcgtggttt gaaaaaagtt agattttctt tcgaggaatt aaaagagtta
      961 agtgattata agatgactgc tacaaaagcc tttgtcggtg atttagaaaa gctctataaa
     1021 gatatgctta atcttactta ccgtactgaa gatgaggatt ctattcgcta ctttgttttg
     1081 tttactggtt ttgaaatcaa taaaacaaaa aagtttgttg aagtcagtgt taatccggac
     1141 ctagaatata ttattaatgg tttaacagct gaatttagta gatttgaatt atctgctttc
     1201 acgtcgttgc gttctacgta tgcaaaaact ctattccgac tgcttatgca gtaccgttct
     1261 actggttatt atgtagttcg tattgaagag tttaggagct taatggatat cccagaatac
     1321 tatcaaatgg gtaacattga tcaaaaagta ttaaatcctg cattacgaga actaaaaaaa
     1381 tacttcaatg atcttaaagt cacaaaaata aaagcaaaaa agggcaataa aatcgccaaa
     1441 ttagaattta ctttttcaag cctaacgtca gatttgccaa agatttctct gcgtaactgg
     1501 ttagaagaat aaataaaaaa gaactcgccc cccttacatt aagcaagtag acaagtccct
     1561 tacaaccgac taagattgct agtacattct agcatattgt atggggcttc taaataaaaa
     1621 acagatagga ataactccta tctgtttttt atcgttttag aaaatttgtt gggtcgaaat
     1681 ttctagaagt gactgtttga ctggtttctt tttgatgatt ctttggtcga tttcgatttg
     1741 atggatttag tttagcttcg attttttctt tcacttcttg atatacttta gaatttgtgc
     1801 caataagaac gcctgtatct tttagatata aatcagcaaa ttctgcgatg atttcagtca
     1861 tgatggaaat ttcttttccc atagcattta gttttgcctg attgctggta gtggtcgtgt
     1921 tggtatcggg ttcataactc atacataaaa agcgaatggc ttccgagtag ttattgatat
     1981 ctggattttt ttcgatgatg gaatctaaaa cgtcaacatg actagggtac aaagtaacat
     2041 gtttttggac agaagttttt ctcatggtta tatcattcct ccgataagca tttcaatgat
     2101 ttgattattt gtgtagacat actcgcttaa tatttgagta ttttctgttt ggatagcaat
     2161 aaatttatcg agcaataaat cgaattggtc ttttttgtaa gtcgtaagtt gacggtcaaa
     2221 atcactttcg attaaaactt ttagatattt atttcgactc catttttctc ctgttttatt
     2281 cgtgagttct tggcaacgtt tgtctattgt tgcaacaaac tttggatcaa tattccgaac
     2341 taaaatgtcc ataaaaaatc tccttttgca attatgtata atttatgtat accatacaaa
     2401 tactatattt gtatagctgt tttttgccaa aatgctatac ataagctacc cacgatggcg
     2461 aaaaagtgat atcaaatttt tttctgagaa acgtgatagg cacagcctat ctacccactt
     2521 tttttagaaa gtgggtacac gtttccttat gctctttaaa attcgggggg gagtgctgca
     2581 cgtgtaatcg ataaccaaat ttaaaaatgc acgatcaaaa atttatttag tttttcaaac
     2641 gacatttttt ttgagagtat agacggcaaa gaagtgattt tatttctaga aaaattgtga
     2701 gactggagaa agaaaaaatg gaaaaatttc cttacgaata ttttcaaaac ttagaaaaat
     2761 tagagcaagc aattcaagca atcaagttcg atttaacaga cgaaaaattg ttggaatata
     2821 aaaatatgac acccgaaaga aaacgatcgt tggaaaaatt aatgcaacta gtgaacgaag
     2881 acggcggaat ttcagacgca gcttttgacg catggagcga atttcatgga gaatataatt
     2941 aagtgggttt aaatggctct aaaatcgctt ctaagagttt tttagcttgg accaatgaaa
     3001 tacaccaaaa actaaataaa acgtcttaaa tcgaataata atagctttta aggaggcgat
     3061 gggggatgga aaaagatatt tataaacaat tgacccgaca aattcaaaag gaaaaagaaa
     3121 aaggcttact agatcattta gatgaattag aactaaaagc tgatgaaatc aataaaaaca
     3181 gaatgtcagc aaaagaaaaa ggtataaaac ttaaagattc gtcgttgcaa agcgataaaa
     3241 gctagataac gtgcggtcaa cggtaaatcg aattagagac gcttagagag gctaataagc
     3301 cctcttagcg tctctttgag gctttaagga gttgacggct ataaacaaaa cccaaaagct
     3361 ggaaacacaa gaaggtgacc atagggaacg ttcttgacgc cttaacggcg agtggaaagt
     3421 ttttggggtg ccttttttca aaaaggtacg gtcttgattt gccgagcgat agcgctggaa
     3481 aatttttgga aaaaatttgg aatttggaaa atctgggggg gctactacga ccccccataa
     3541 agtgccgagt gccaatttta gaaaaaaacc tatttaagcc ttactctcgc aagggttaca
     3601 gcgatcaaaa aaaaatcaac aaacgccaac aaaattactg ttttgttgat aaaaatgtaa
     3661 ttctttgtaa tgcttgacta tgtatataga tttcattata attatataga attatatata
     3721 aggagggtgt ctggtgatgg aagaaaaaaa agaaatgcaa agtgtgacta tacgtattcc
     3781 taaaaagtta tatgctgatt ataaacaagc tttattagaa caaggaaaaa tcgtgactta
     3841 tgatttaaga agatatatga gtgatgttgt agaagaatct gcgagaaagg aaacagaaca
     3901 aaaaaaataa gcgaaaactc gcgttttttt gaaaggaaac gagttttcgc tatcggtttt
     3961 ctgtcgaggt gattatagca aatgagcaaa gaaaaggcta gatacttcac ttttttacta
     4021 tatccagaaa gtattcctga tgattgggaa gaaaaattgg aattaatagg cgtgcctatt
     4081 gcgattagtc ctttgcatga tatggacgaa aaaacaaata aagcaaaatg gacgagtgat
     4141 gatgtcgtta ggaatggtaa gcattataaa aaaccgcatt atcatgtaat ttatgtagca
     4201 ggaaatcctg tgactactga aagtgttcga ttgaaaatta aacgagcttt gggaagcaaa
     4261 agtgttaata aggttcagat tataactaca agtattcaaa atacgtactt gtatttaacg
     4321 catgaatcaa aagatgctat tgccaaaaat aaacacaaat acaaaagttc tgatataaaa
     4381 ctatttaaca attttgatat tgatcgttat aacacgcttg atgttgaaga aaaagatgaa
     4441 ctttttgaag tgatctgtga aattgttgag aaatatcaaa tagctaatat tttagagtta
     4501 ggtaaattcg tgaggaaata tggggctgcg tatggcttaa ttagcatgag agtagtcaac
     4561 aaggttattg cgtctaaaac aggtttgatg agaatttatt ttgatggagc atatcaagcg
     4621 cgcaaaaatg gtattcgaga gattgaatta gatattgatt tagaaactgg ggagataaag
     4681 gaggatgaaa atggaaatat ttgatgaata ttatgacagt cataatctaa atgaaaatag
     4741 tcagtatagt gatttcagta aaaagcattt agtgattgaa gctgaatata tgcatagtgc
     4801 tttgtgtaag gttttgaaat atcttaatga aggtggaaca gatttagata taattcgtgc
     4861 agaagtgatg gatggaatat atgaaagtag gatatgaaaa aatagaatat tgggaaataa
     4921 aaaacagata ggaataactc ctatctgttt ttttatcgtt ttagaaattt agttgggtcg
     4981 aaattgctag aagtgactgt tttgtttgtt cctttttgat gattctttgg tcgatttcga
     5041 tttgatggat ttagtttagc ttcgattttt tctttcactt cttgatatac tttagaattt
     5101 gtgccaataa gaacgcctgt atcttttaga tataaatcag caaattctgc gatgatttca
     5161 gtcatgatgg aaatttcttt tcccatagca tttagttttg cctgattgct ggtagtggtc
     5221 gtgttggtat cgggttcata actcatacat aaaaagcgaa tggcttccga gtagttattg
     5281 atatctggat ttttttcgat gatggaatct aaaacgtcaa catgactagg gtacaaagta
     5341 acatgttttt ggacagaagt ttttctcatg gttatatcat tcctccgata agcatttcaa
     5401 tgatttgatt atttgtgtag acatactcgc ttaatatttg agtattttct gtttggatag
     5461 caataaattt atcgagcaat aaatcgaatt ggtctttttt gtaagtcgta agttgacggt
     5521 caaaatcact ttcgattaaa acttttagat atttatttcg actccatttt tctcctgttt
     5581 tattcgtgag ttcttggcaa cgtttgtcta ttgttgcaac aaactttgga tcaatattcc
     5641 gaactaaaat gtccataaaa aatctccttt tgcaattatg tataatttat gtataccata
     5701 caaatactat atttgtatag ctgttttttg ccaaaatgct atacataagc tacccacgat
     5761 ggcgaaaaag tgatatcaaa tttttttctg agaaacgtga taggcacagc ctatctaccc
     5821 acttttttta gaaagtgggt acacgtttcc ttatgctctt taaaattcgg gggggagtgc
     5881 tgcacgtgta atcgataacc aaatttaaaa atgcacgatc aaaaatttat ttagtttttc
     5941 aaacgacatt ttttttgaga gtatagacgg caaagaagtg attttatttc tagaaaaatt
     6001 gtgagactgg agaaagaaaa aatggaaaaa tttccttacg aatattttca aaacttagaa
     6061 aaattagagc aagcaattca agcaatcaag ttcgatttaa cagacgaaaa attgttggaa
     6121 tataaaaata tgacacccga aagaaaacga tcgttggaaa aattaatgca actagtgaac
     6181 gaagacggcg gaatttcaga cgcagctttt gacgcatgga gcgaatttca tggagaatat
     6241 aattaagtgg gtttaaatgg ctctaaaatc gcttctaaga gttttttagc ttggaccaat
     6301 gaaatacacc aaaaactaaa taaaacgtct taaatcgaaa aatacgagct ctcagagcga
     6361 ctttatttgt aaatgttgca tataagaaat aattacggat tttagacttt tgtaggatat
     6421 ttttgaaata aatatttatt tctgttataa tttgattgca aataagtgaa cacgaaacac
     6481 acgaaagccc cagagaggtc ggattctctg gggctttttt tgtgg
//
