LOCUS       NZ_LR135362             4461 bp    DNA     linear   CON 13-FEB-2024
DEFINITION  Enterococcus faecium isolate E7948 plasmid 6.
ACCESSION   NZ_LR135362
VERSION     NZ_LR135362.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA4885488
            Assembly: GCF_900639585.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 4461)
  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 02:54:30
            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)                     :: 2,980
            CDSs (total)                      :: 2,889
            Genes (coding)                    :: 2,768
            CDSs (with protein)               :: 2,768
            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)              :: 121
            CDSs (without protein)            :: 121
            Pseudo Genes (ambiguous residues) :: 0 of 121
            Pseudo Genes (frameshifted)       :: 53 of 121
            Pseudo Genes (incomplete)         :: 66 of 121
            Pseudo Genes (internal stop)      :: 32 of 121
            Pseudo Genes (multiple problems)  :: 24 of 121
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            LR135362.1.
            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..4461
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /isolate="E7948"
                     /db_xref="taxon:1352"
                     /plasmid="6"
     gene            <1..320
                     /locus_tag="EQB40_RS15595"
                     /pseudo=""
     CDS             <1..320
                     /locus_tag="EQB40_RS15595"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002296860.1"
                     /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="replication initiation protein"
                     /name="replication initiation protein"
     gene            336..875
                     /locus_tag="EQB40_RS15600"
     CDS             336..875
                     /locus_tag="EQB40_RS15600"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016616811.1"
                     /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_002351084.1"
                     /translation="MADKTIKELAEELGVSKTAINKKVSDKNRKLWFAKNGNKFVINET
                     GQKAIKSMFLVDNANLNRKLVGEKSKTKNHKNTNQVSELKLLSFLEKQLNRKDIQLQEK
                     DNQIKQMQKLLDQQQQLTLQANQQIENLQEQLHLTYTEETPTTESTAFSEKKADNTQPL
                     IEKKWWQIWKSNRTNL"
                     /name="DUF536 domain-containing protein"
     gene            1556..1729
                     /locus_tag="EQB40_RS15815"
     CDS             1556..1729
                     /locus_tag="EQB40_RS15815"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002341717.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002318189.1"
                     /translation="MLKKTVLVLGSISLGILGFSPMLLSVIGKNNSNRELKLNSNYYNS
                     PNEELFVKETDK"
                     /name="hypothetical protein"
     gene            2134..2568
                     /gene="bacA"
                     /locus_tag="EQB40_RS15610"
     CDS             2134..2568
                     /gene="bacA"
                     /locus_tag="EQB40_RS15610"
                     /inference="COORDINATES: protein motif:HMM:NF041453.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="bacteriocin 51 precursor BacA"
                     /protein_id="WP_002351079.1"
                     /translation="MKNKIIKIITCLFLFGMIVGASTPLNLFPFSARGIKVEAASSRYN
                     HNHRGFTCYKMNYYVTNKMCRDLKKNYNKLKTPAQIASFIPIGGVGTWVITNAFSSAVD
                     AMNVFVRAANQGKGVQLTYNAHFSNTTSYQYNDYARYVIK"
                     /name="bacA"
     gene            3858..>4461
                     /locus_tag="EQB40_RS15615"
     CDS             3858..>4461
                     /locus_tag="EQB40_RS15615"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016373328.1"
                     /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_164853353.1"
                     /translation="MANEIVKYENRLNHIPLRKFNSREMNLFFSIASRVREKGVDEIIF
                     SFHDLKKLSGYTERGEQFIKDLSSTYDKLLSINAWNDDGNTLTKFVAFTKYSIIRDKQL
                     VIISVNPEFKGLFNQLKNWTRFNLEQFTNLDSTYSKTMFRLLKQYRTQGWTEFSKEKFF
                     DLLDIPKSYWNSPSNIDKFILRPIKEELTPLFKGLTIR"
                     /name="replication initiation protein"
     Typing          2..320
                     /name="rep_cluster_1291"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.89e-166"
ORIGIN
        1 aaaaatatgg taaaggtcga ggtaaacctg ttatcggtta tcgttttact tggaaagctg
       61 aaattaacca tgctgacgat ttttccaaag ggaaacaaga agatttacgt ataaaattat
      121 ttaatattga tcacaatgga gaattaacac gagaagaaaa atggcgcgct aaagatcgaa
      181 tactaaatct tcccttaggc actcatgaag ctgattttaa acaacaacaa caaactgaag
      241 aaaaacaggc agaaaaacga gaactttcaa acaaactcaa acaagattta ctaggaaatt
      301 tacaaaactt attcgattaa gcttaaggag tatttatggc agataaaaca atcaaagaac
      361 ttgcggaaga attaggagtt agtaaaacag caattaacaa aaaagtttct gacaaaaatc
      421 gaaaactttg gtttgcaaaa aacggaaaca agtttgtgat taacgaaacc ggtcaaaaag
      481 ctataaaatc aatgttttta gtcgataacg caaacttaaa tcgaaaacta gttggcgaaa
      541 aatcaaaaac caaaaaccat aaaaacacca accaagtttc cgaattaaaa ctcctttctt
      601 tcctagaaaa acagttaaat cgaaaagata tacagctaca agaaaaagat aatcaaataa
      661 aacaaatgca aaaattactc gaccagcaac aacaactcac tctacaagcg aaccaacaaa
      721 ttgagaacct acaagaacag ctccatttaa cttatacaga agaaactcca acaaccgaat
      781 caactgcctt ttctgaaaaa aaagcagaca atacacaacc acttattgaa aaaaagtggt
      841 ggcaaatttg gaaatctaat agaaccaatc tctaaaattt tctagaagtt agttcggata
      901 gtagaggaaa aagttgtact acctgatggg gagatcactc aaatttttat gagaaagaaa
      961 aaatagttta caactgtaaa caatcaatgt ttatagttgt aaactatcaa actatatggt
     1021 gacttattgc ttaaaatagg ttgaaatctc actcaatttt tggtggaaaa acaaaataaa
     1081 ttctaatcga ttttgttgaa aaagtcataa aaaaacaaat gtgattttaa caaaatttca
     1141 aaaaaatcgt ttgaaatttc gtttattttt tttgagaatt ttgatcatcg tagggtcatt
     1201 gtagaatcat tatgagatca tcgtgggatc atcgaataaa gtatgggaaa ggcttgcggt
     1261 gcttggtatt aagggcattc tccgcctccc aggttcttga ccattttctc ttataagtgg
     1321 gatttttacc acgttgagag aaaatggtca agaacctggg aggcggagaa aacataccaa
     1381 gcaccacaag caaaaaaagt tagagtaact tccaaaaaag aaaaattttt tagaacaact
     1441 tttgaaaatt taattttgat ttatatccgt tcaatttaaa catttgataa actgaaggct
     1501 agtatttaaa atgtgtatac aagtggtagc gttaaaaaaa gtggaggtat aacctatgtt
     1561 aaaaaaaact gtgttggtac tgggttctat ttctctagga atattaggtt ttagccccat
     1621 gctattatcc gtaattggaa aaaacaattc caacagagaa cttaaattga attcaaatta
     1681 ttacaacagt cctaacgaag aattgtttgt aaaagaaacg gataaataat aaaaaagact
     1741 gctcttccga gcagccagtt aaaaaataat gagtgtttat tcttgaaaaa gcaacgcgct
     1801 tataaagcgc taccaaaaat ttatcatatt ttatgaaaaa taacaatcca gtaaaaaatg
     1861 actggtaaaa attcacaaag aaacggaaag aagcaactgc agaaaatcaa gccttaaaaa
     1921 gagcttttta cctagaccaa ttaaaaatca caaagtgagc ccctgtatcg gttgatacaa
     1981 gggctacttg gcatactgta cattatgtct actaaccttt aaaataacac gttttataaa
     2041 ataaaccctc ttgacaatat ttaattttct gattattcta aatatataca gaaagcgctt
     2101 tcctaggatt ttatatctaa ggaggaagta acaatgaaaa ataaaattat taaaattatt
     2161 acttgtctat ttttgttcgg tatgattgtt ggagcaagta ctccgttaaa tctgtttcct
     2221 tttagtgcta gaggtataaa agtggaagct gcaagttcac gatataatca taatcatcgt
     2281 ggatttactt gctataaaat gaactattat gttactaata aaatgtgtag agatttgaaa
     2341 aaaaattata ataagctaaa gactcctgct caaattgcat cttttattcc tattggtgga
     2401 gttggaacat gggttattac aaatgctttt agtagtgctg ttgatgcaat gaatgtcttt
     2461 gtaagagctg caaatcaagg aaaaggtgta caattaacat ataatgctca ctttagcaat
     2521 acaacatcat atcaatacaa tgattacgct cgttatgtaa taaaataatc agaaagtgaa
     2581 actatctcat gaataaaaag attttagctg taattatttc aataatagtt ttaatcacta
     2641 tgttcttcat atttaggcta attttcaata taagcttaca aaaaagtatt ctttatctaa
     2701 ttcctatagc atttatctta gcaattttta gaagtattta cggaaataaa aactctaaat
     2761 agctaaaaat aaatcatact aaattttaca aaaagtggct agcattttct agccactttt
     2821 tgtattgtgg agcgtgggtt ttgaggggga ttcaaggggg agcttgcgcc cctttgacaa
     2881 gcggttattt gcaccaaata cggaggtatt tggctagcaa atatagagct tgccaaaccc
     2941 ttttagtgag ttttgtagaa agtaccttta aaggtacttt cacattacga acgatacgtc
     3001 cgtaggacgt actgaaaggg tgggacttat gagcaaatta atgcaaaatt tggctagcaa
     3061 aaaagctaaa aaatatatgc taataatcga gcgaaataaa cactttttca agtgagcgaa
     3121 tccgccatga caaagctgaa gcagtttatt tcagctttgt catggcgtgt gccgactttt
     3181 ttaaaagtct aggcacacga gcaaatatct ttatcaagct ctaatttgcg ttttaagacg
     3241 tttgaaacgc ctaagtatat aaatatataa gaataggttt aagagtgctt aaatcgaatt
     3301 ttagagggca tttagacaat tttagggttg ttagggcttg ccctgaccgc ctgtaaggcg
     3361 ttttaagaac aagataaggg atttatacta ggactgtctt aaaatgtctt aaacgaacgc
     3421 tcagagcttc tcaaagggtt ccttatgaac ggcttttagc aaaggagccg gaggcgactg
     3481 cgcagtataa tgtgagagca gagcgatcac acctttttag cgaaccgtag ggagcaaggt
     3541 ttggaattgg cagttttgat aaattcgcga acctgtttag agaaaaaagg agtgattttt
     3601 taggcgggaa aattagcctc ccctcttttt atatctcttt ttatatctct ttttatatct
     3661 cttttatgtc ggctgtgtcc ttactctccc aagcaattca gagttttttc aagtaggttt
     3721 tctacgcttt tcaagtaggt tttctacgct tttcaagtag gttttctacg cttttcaagt
     3781 aggttttccg acattattga gtatttttat aaagtatgtt acttttattt catactttat
     3841 aaaagtagga gaagcttatg gcaaatgaaa ttgtaaaata tgaaaataga ttaaatcata
     3901 ttcctctgag aaaatttaat agtcgtgaaa tgaacttatt tttttcaatt gcttcacgtg
     3961 tacgtgaaaa aggtgtagat gagattattt tttcatttca cgatttgaaa aaactaagcg
     4021 gttatacaga acgtggggaa caatttataa aagatcttag tagcacgtat gacaaattat
     4081 taagtattaa tgcttggaat gatgatggaa atactttaac taaatttgtt gctttcacaa
     4141 aatatagcat tatacgagat aaacaacttg ttataatttc agttaatcca gaatttaaag
     4201 gactttttaa tcaattaaag aactggacaa gatttaatct agagcaattt actaatttgg
     4261 atagcacata ttcaaaaact atgtttcgat tattaaaaca atatcgaact caaggctgga
     4321 ctgaattttc caaagaaaaa ttttttgatt tactagatat tcctaaaagt tattggaata
     4381 gtccgtcaaa tattgacaaa tttatcttaa ggccaattaa agaagaactc actcccttat
     4441 ttaaaggatt aactattcgt a
//
