LOCUS       NZ_CP131806             4461 bp    DNA     circular CON 25-APR-2024
DEFINITION  Enterococcus faecium strain 2016N21-233 plasmid p2016N21-233-5,
            complete sequence.
ACCESSION   NZ_CP131806
VERSION     NZ_CP131806.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN36766204
            Assembly: GCF_038437885.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 4461)
  AUTHORS   Chen,F.-J., Liao,Y.-C. and Chiu,Y.-T.
  TITLE     Rapid Diagnostics and Real-time Genomic Surveillance System for
            Pathogens from Culture
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4461)
  AUTHORS   Chen,F.-J., Liao,Y.-C. and Chiu,Y.-T.
  TITLE     Direct Submission
  JOURNAL   Submitted (31-JUL-2023) National Institute of Infectious Diseases
            and Vaccinology, National Health Research Institutes, No. 35, Keyan
            Road, Zhunan Town, Miaoli County 350, Taiwan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 28-SEP-2022
            Assembly Method                   :: CCBGpipe v. 1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 80x
            Sequencing Technology :: Oxford Nanopore MinION and Illumina iSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_038437885.1-RS_2024_04_24
            Annotation Date                   :: 04/24/2024 14:04:14
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 3,196
            CDSs (total)                      :: 3,103
            Genes (coding)                    :: 2,933
            CDSs (with protein)               :: 2,933
            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)              :: 170
            CDSs (without protein)            :: 170
            Pseudo Genes (ambiguous residues) :: 0 of 170
            Pseudo Genes (frameshifted)       :: 63 of 170
            Pseudo Genes (incomplete)         :: 101 of 170
            Pseudo Genes (internal stop)      :: 39 of 170
            Pseudo Genes (multiple problems)  :: 31 of 170
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP131806.1.
            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/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..4461
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="2016N21-233"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="p2016N21-233-5"
                     /geo_loc_name="Taiwan"
                     /collection_date="2016"
                     /collected_by="NHRI"
     gene            364..798
                     /gene="bacA"
                     /locus_tag="Q7583_RS15915"
                     /old_locus_tag="Q7583_15840"
     CDS             364..798
                     /gene="bacA"
                     /locus_tag="Q7583_RS15915"
                     /old_locus_tag="Q7583_15840"
                     /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            2088..3011
                     /locus_tag="Q7583_RS15920"
                     /old_locus_tag="Q7583_15845"
     CDS             2088..3011
                     /locus_tag="Q7583_RS15920"
                     /old_locus_tag="Q7583_15845"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002296860.1"
                     /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_002351085.1"
                     /translation="MANEIVKYENRLNHIPLRKFNSREMNLFFSIASRVREKGVDEIIF
                     SFHDLKKLSGYTERGEQFIKDLSSTYDKLLSINAWNDDGNTLTKFVAFTKYSIIRDKQL
                     VIISVNPEFKGLFNQLKNWTRFNLEQFTNLDSTYSKTMFRLLKQYRTQGWTEFSKEKFF
                     DLLDIPKSYWNSPSNIDKFILRPIKEELTPLFKGLTIRKKYGKGRGKPVIGYRFTWKAE
                     INHADDFSKGKQEDLRIKLFNIDHNGELTREEKWRAKDRILNLPLGTHEADFKQQQQTE
                     EKQAEKRELSNKLKQDLLGNLQNLFD"
                     /name="replication initiation protein"
     gene            3027..3566
                     /locus_tag="Q7583_RS15925"
                     /old_locus_tag="Q7583_15850"
     CDS             3027..3566
                     /locus_tag="Q7583_RS15925"
                     /old_locus_tag="Q7583_15850"
                     /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            4247..4420
                     /locus_tag="Q7583_RS15930"
                     /old_locus_tag="Q7583_15855"
     CDS             4247..4420
                     /locus_tag="Q7583_RS15930"
                     /old_locus_tag="Q7583_15855"
                     /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"
     Typing          2089..3011
                     /name="rep_cluster_1291"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gagtgtttat tcttgaaaaa gcaacgcgct tataaagcgc taccaaaaat ttatcatatt
       61 ttatgaaaaa taacaatcca gtaaaaaatg actggtaaaa attcacaaag aaacggaaag
      121 aagcaactgc agaaaatcaa gccttaaaaa gagcttttta cctagaccaa ttaaaaatca
      181 caaagtgagc ccctgtatcg gttgatacaa gggctacttg gcatactgta cattatgtct
      241 actaaccttt aaaataacac gttttataaa ataaaccctc ttgacaatat ttaattttct
      301 gattattcta aatatataca gaaagcgctt tcctaggatt ttatatctaa ggaggaagta
      361 acaatgaaaa ataaaattat taaaattatt acttgtctat ttttgttcgg tatgattgtt
      421 ggagcaagta ctccgttaaa tctgtttcct tttagtgcta gaggtataaa agtggaagct
      481 gcaagttcac gatataatca taatcatcgt ggatttactt gctataaaat gaactattat
      541 gttactaata aaatgtgtag agatttgaaa aaaaattata ataagctaaa gactcctgct
      601 caaattgcat cttttattcc tattggtgga gttggaacat gggttattac aaatgctttt
      661 agtagtgctg ttgatgcaat gaatgtcttt gtaagagctg caaatcaagg aaaaggtgta
      721 caattaacat ataatgctca ctttagcaat acaacatcat atcaatacaa tgattacgct
      781 cgttatgtaa taaaataatc agaaagtgaa actatctcat gaataaaaag attttagctg
      841 taattatttc aataatagtt ttaatcacta tgttcttcat atttaggcta attttcaata
      901 taagcttaca aaaaagtatt ctttatctaa ttcctatagc atttatctta gcaattttta
      961 gaagtattta cggaaataaa aactctaaat agctaaaaat aaatcatact aaattttaca
     1021 aaaagtggct agcattttct agccactttt tgtattgtgg agcgtgggtt ttgaggggga
     1081 ttcaaggggg agcttgcgcc cctttgacaa gcggttattt gcaccaaata cggaggtatt
     1141 tggctagcaa atatagagct tgccaaaccc ttttagtgag ttttgtagaa agtaccttta
     1201 aaggtacttt cacattacga acgatacgtc cgtaggacgt actgaaaggg tgggacttat
     1261 gagcaaatta atgcaaaatt tggctagcaa aaaagctaaa aaatatatgc taataatcga
     1321 gcgaaataaa cactttttca agtgagcgaa tccgccatga caaagctgaa ataaactgct
     1381 tcagctttgt catggcgtgt gccgactttt ttaaaagtct aggcacacga gcaaatatct
     1441 ttatcaagct ctaatttgcg ttttaagacg tttgaaacgc ctaagtatat aaatatataa
     1501 gaataggttt aagagtgctt aaatcgaatt ttagagggca tttagacaat tttagggttg
     1561 ttagggcttg ccctgaccgc ctgtaaggcg ttttaagaac aagataaggg atttatacta
     1621 ggactgtctt aaaatgtctt aaacgaacgc tcagagcttc tcaaagggtt ccttatgaac
     1681 ggcttttagc aaaggagccg gaggcgactg cgcagtataa tgtgagagca gagcgatcac
     1741 acctttttag cgaaccgtag ggagcaaggt ttggaattgg cagttttgat aaattcgcga
     1801 acctgtttag agaaaaaagg agtgattttt taggcgggaa aattagcctc ccctcttttt
     1861 atatctcttt ttatatctct ttttatatct cttttatgtc ggctgtgtcc ttactctccc
     1921 aagcaattca gagttttttc aagtaggttt tctacgcttt tcaagtaggt tttctacgct
     1981 tttcaagtag gttttctacg cttttcaagt aggttttccg acattattga gtatttttat
     2041 aaagtatgtt acttttattt catactttat aaaagtagga gaagcttatg gcaaatgaaa
     2101 ttgtaaaata tgaaaataga ttaaatcata ttcctctgag aaaatttaat agtcgtgaaa
     2161 tgaacttatt tttttcaatt gcttcacgtg tacgtgaaaa aggtgtagat gagattattt
     2221 tttcatttca cgatttgaaa aaactaagcg gttatacaga acgtggggaa caatttataa
     2281 aagatcttag tagcacgtat gacaaattat taagtattaa tgcttggaat gatgatggaa
     2341 atactttaac taaatttgtt gctttcacaa aatatagcat tatacgagat aaacaacttg
     2401 ttataatttc agttaatcca gaatttaaag gactttttaa tcaattaaag aactggacaa
     2461 gatttaatct agagcaattt actaatttgg atagcacata ttcaaaaact atgtttcgat
     2521 tattaaaaca atatcgaact caaggctgga ctgaattttc caaagaaaaa ttttttgatt
     2581 tactagatat tcctaaaagt tattggaata gtccgtcaaa tattgacaaa tttatcttaa
     2641 ggccaattaa agaagaactc actcccttat ttaaaggatt aactattcgt aaaaaatatg
     2701 gtaaaggtcg aggtaaacct gttatcggtt atcgttttac ttggaaagct gaaattaacc
     2761 atgctgacga tttttccaaa gggaaacaag aagatttacg tataaaatta tttaatattg
     2821 atcacaatgg agaattaaca cgagaagaaa aatggcgcgc taaagatcga atactaaatc
     2881 ttcccttagg cactcatgaa gctgatttta aacaacaaca acaaactgaa gaaaaacagg
     2941 cagaaaaacg agaactttca aacaaactca aacaagattt actaggaaat ttacaaaact
     3001 tattcgatta agcttaagga gtatttatgg cagataaaac aatcaaagaa cttgcggaag
     3061 aattaggagt tagtaaaaca gcaattaaca aaaaagtttc tgacaaaaat cgaaaacttt
     3121 ggtttgcaaa aaacggaaac aagtttgtga ttaacgaaac cggtcaaaaa gctataaaat
     3181 caatgttttt agtcgataac gcaaacttaa atcgaaaact agttggcgaa aaatcaaaaa
     3241 ccaaaaacca taaaaacacc aaccaagttt ccgaattaaa actcctttct ttcctagaaa
     3301 aacagttaaa tcgaaaagat atacagctac aagaaaaaga taatcaaata aaacaaatgc
     3361 aaaaattact cgaccagcaa caacaactca ctctacaagc gaaccaacaa attgagaacc
     3421 tacaagaaca gctccattta acttatacag aagaaactcc aacaaccgaa tcaactgcct
     3481 tttctgaaaa aaaagcagac aatacacaac cacttattga aaaaaagtgg tggcaaattt
     3541 ggaaatctaa tagaaccaat ctctaaaatt ttctagaagt tagttcggat agtagaggaa
     3601 aaagttgtac tacctgatgg ggagatcact caaattttta tgagaaagaa aaaatagttt
     3661 acaactgtaa acaatcaatg tttatagttg taaactatca aactatatgg tgacttattg
     3721 cttaaaatag gttgaaatct cactcaattt ttggtggaaa aacaaaataa attctaatcg
     3781 attttgttga aaaagtcata aaaaaacaaa tgtgatttta acaaaatttc aaaaaaatcg
     3841 tttgaaattt cgtttatttt ttttgagaat tttgatcatc gtagggtcat tgtagaatca
     3901 ttatgagatc atcgtgggat catcgaataa agtatgggaa aggcttgcgg tgcttggtat
     3961 taagggcatt ctccgcctcc caggttcttg accattttct cttataagtg ggatttttac
     4021 cacgttgaga gaaaatggtc aagaacctgg gaggcggaga aaacatacca agcaccacaa
     4081 gcaaaaaaag ttagagtaac ttccaaaaaa gaaaaatttt ttagaacaac ttttgaaaat
     4141 ttaattttga tttatatccg ttcaatttaa acatttgata aactgaaggc tagtatttaa
     4201 aatgtgtata caagtggtag cgttaaaaaa agtggaggta taacctatgt taaaaaaaac
     4261 tgtgttggta ctgggttcta tttctctagg aatattaggt tttagcccca tgctattatc
     4321 cgtaattgga aaaaacaatt ccaacagaga acttaaattg aattcaaatt attacaacag
     4381 tcctaacgaa gaattgtttg taaaagaaac ggataaataa taaaaaagac tgctcttccg
     4441 agcagccagt taaaaaataa t
//
