LOCUS       NZ_CP092376             5601 bp    DNA     circular CON 08-APR-2024
DEFINITION  Enterococcus faecium strain V13-21-E11-012-001 plasmid
            pK21EFM001_1_5, complete sequence.
ACCESSION   NZ_CP092376
VERSION     NZ_CP092376.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN23500290
            Assembly: GCF_021172105.3
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 5601)
  AUTHORS   Lim,S.-K., Moon,D.-C., Kim,S.-J., Yeom,Y.-J., Kang,Y.-J., Kim,Y.-J.
            and Baek,H.-J.
  TITLE     Direct Submission
  JOURNAL   Submitted (15-FEB-2022) Bacterial Disease Division, Animal and Plant
            Quarantine Agency, 177 Hyeoksin 8-ro, Gimcheon-si, Gyeongsangbuk-do
            39660, South Korea
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: CLC NGS Cell v. V.70
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 32.94x
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_021172105.3-RS_2024_04_08
            Annotation Date                   :: 04/08/2024 11:18:16
            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)                     :: 3,111
            CDSs (total)                      :: 3,022
            Genes (coding)                    :: 2,895
            CDSs (with protein)               :: 2,895
            Genes (RNA)                       :: 89
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 67
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 127
            CDSs (without protein)            :: 127
            Pseudo Genes (ambiguous residues) :: 0 of 127
            Pseudo Genes (frameshifted)       :: 42 of 127
            Pseudo Genes (incomplete)         :: 80 of 127
            Pseudo Genes (internal stop)      :: 25 of 127
            Pseudo Genes (multiple problems)  :: 16 of 127
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP092376.1.
            Bacteria and source DNA available from Animal and Plant Quarantine
            Agency Bacterial Disease Division.
            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..5601
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="V13-21-E11-012-001"
                     /host="dog"
                     /db_xref="taxon:1352"
                     /plasmid="pK21EFM001_1_5"
                     /geo_loc_name="South Korea: Daegu"
                     /lat_lon="35.8303858 N 128.6299486 E"
                     /collection_date="2021-01-05"
     gene            complement(149..313)
                     /locus_tag="LRL10_RS15375"
                     /old_locus_tag="LRL10_16155"
     CDS             complement(149..313)
                     /locus_tag="LRL10_RS15375"
                     /old_locus_tag="LRL10_16155"
                     /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            complement(343..768)
                     /gene="bacA"
                     /locus_tag="LRL10_RS15380"
                     /old_locus_tag="LRL10_16160"
     CDS             complement(343..768)
                     /gene="bacA"
                     /locus_tag="LRL10_RS15380"
                     /old_locus_tag="LRL10_16160"
                     /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="bacteriocin 51 precursor BacA"
                     /protein_id="WP_002337995.1"
                     /translation="MICKNKKKIIAIIASFSLIFSTACTVLLTNNANVEAASSSYKHNH
                     AGYRCYKMSYYVSPSKCKQLARQTNKLNTVSAIANFIGLSGLTPGIISLVFGSAVSANN
                     VFVTAARRGKGVQLNYIAHFSNTTTYNYSSNQNYVIK"
                     /name="bacA"
     gene            complement(1418..1834)
                     /locus_tag="LRL10_RS15385"
                     /old_locus_tag="LRL10_16165"
     CDS             complement(1418..1834)
                     /locus_tag="LRL10_RS15385"
                     /old_locus_tag="LRL10_16165"
                     /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            complement(1836..2117)
                     /locus_tag="LRL10_RS15390"
                     /old_locus_tag="LRL10_16170"
     CDS             complement(1836..2117)
                     /locus_tag="LRL10_RS15390"
                     /old_locus_tag="LRL10_16170"
                     /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            complement(2493..>2738)
                     /locus_tag="LRL10_RS15395"
                     /old_locus_tag="LRL10_16175"
                     /pseudo=""
     CDS             complement(2493..>2738)
                     /locus_tag="LRL10_RS15395"
                     /old_locus_tag="LRL10_16175"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002296856.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="DUF536 domain-containing protein"
                     /name="DUF536 domain-containing protein"
     gene            2830..3508
                     /locus_tag="LRL10_RS15400"
                     /old_locus_tag="LRL10_16180"
                     /pseudo=""
     CDS             2830..3508
                     /locus_tag="LRL10_RS15400"
                     /old_locus_tag="LRL10_16180"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_064305258.1"
                     /GO_function="GO:0004803 - transposase activity [Evidence
                     IEA]"
                     /GO_process="GO:0006313 - DNA transposition [Evidence IEA]"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="IS6-like element IS1216 family transposase"
                     /name="IS6-like element IS1216 family transposase"
     gene            complement(3542..3805)
                     /locus_tag="LRL10_RS15405"
                     /old_locus_tag="LRL10_16185"
     CDS             complement(3542..3805)
                     /locus_tag="LRL10_RS15405"
                     /old_locus_tag="LRL10_16185"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_240213321.1"
                     /translation="MTDKTIKELADILGVSKDKVKYQLRKLPSNFTYKKGNIIYLKKEA
                     VTTITKVLSGNEPGNLPSELPDSLPTDYLLKEIETKGSVAKF"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(3815..4792)
                     /locus_tag="LRL10_RS15410"
                     /old_locus_tag="LRL10_16190"
     CDS             complement(3815..4792)
                     /locus_tag="LRL10_RS15410"
                     /old_locus_tag="LRL10_16190"
                     /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"
     Typing          complement(3816..4792)
                     /name="rep_cluster_1093"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aataaccgct tgtcaaaggg gcgcaagctc ccccttgaat ccccctcaaa attcacgctc
       61 tacaatacaa aaaaggctag catttgctag ccactttttg taaagtttcg cttatttcac
      121 cgaaggtgaa attgttgttt tgtaacgatt aggtagagct acattttttt cgttgttcaa
      181 agattcttac gccatttact attaaaatcg caggtattcc aaagtaaagg aagaattgat
      241 tagcaggcaa tacaaaatat aaaataatgc cagcaataac agctaaaatt acagcaattt
      301 ttgttaattt cataaagcat tcctcctagt ttaaagtttt aattatttta taacataatt
      361 ttggttagaa ctataattat aggtagtggt attactaaaa tgggcaatat aatttaattg
      421 aacgcctttt cctcttctag cggctgtaac aaatacatta ttagcactaa ctgctgatcc
      481 gaaaactaat gatataatcc ccggtgttaa tccagatagt ccaataaagt ttgcaatagc
      541 tgagacggta ttaagtttat tagtttggcg agccaattgt ttgcatttag aaggacttac
      601 ataataactc attttgtaac atctataacc agcatgatta tgtttgtaag aagagcttgc
      661 agcttcaaca ttagcattat ttgttaataa gacagtacat gcagtactaa aaatcaaaga
      721 gaaactagca ataatagcaa taattttttt cttgttcttg caaatcataa aaatcacctc
      781 taaacaaaaa atagagaaaa cgttttctat gtaaaaatca taaaataaaa ggtatagtcc
      841 ttgtcaagga gcttttaata aggataatgc ttacattttt gttagagtgg cattgttata
      901 acaaactaga aaaatatgtt atattaaatt cttgttgaca taatgtacac tatgccaagt
      961 agcgcctgta gcaatagata caggcgctca ctttgtgatt ttcaattggt ctagctagtt
     1021 actagcttct aatgcttgat ttgatgcaat ttctcttttt tagttctttg tgcattttta
     1081 ccggtcactt tttaaagact tgttattttt tagaggattt gttaaaagtt taatagcgtt
     1141 tctcagtaag ggacgtcgtt ttttcatttt cctatgtatg gactgctcga acgagcagcc
     1201 ttttttttat tccagggaac gtcttattct ttgagtttcc atgctattga ataaccggga
     1261 cttagggatt agggcagcgc cccaaaatga aaaagaagaa ttcgcagaag cggatttttc
     1321 tttttttttt cgcaagttgg taccaacttg caaatcttgc tggaagaccg atccctaaaa
     1381 agaaatcgag gaattttttt atttttcggt ttctttttta tctttttaga aagtttgttg
     1441 ggtcaaaatt tccagaagta aaggtttgat tggtttcttt ttgacgattt ttgggttgat
     1501 ttcgtcggga aggattgagt tgattttcaa ttttttcttt cacttcttga tatactttag
     1561 aatttgtacc gataagaaca ccagtatctt ttagatataa atcagcaaat tctgccatga
     1621 tttctgtcat gatagaaatt tcttttccca tggcattgag ttttgcttgg ttactggttg
     1681 tggttgtatt ggtagcaggt tcataactca tacataaaaa gcgaatggct tctgaataat
     1741 tgttgacgtc tggatttttt tcgatgatgg aatctaaaac gtcaacgtga ctgggataaa
     1801 gggttacgtg tttttgaaca gaagtttttc tcatgttata ttcctccgat aagtgtttca
     1861 atgagttggt tgtttgtgtg aacatagtca tttagtatgt tcgtattttc tgcttgaatg
     1921 gcaataaatt tttcgaataa taaatcgaat tgatcttttt tgtaattcat aagttcgtgg
     1981 tcaaaatcgt tttcgattaa aatttttagg tattgatttc gactccattt tttgcccgtt
     2041 ttggttgtta gttcctgaca acgtttatct attcttgtaa taattttggg attgatattt
     2101 cgaactaaaa tgtccatgga aattttcctt tcgtatcagt atataattta tgtatatcat
     2161 acaaatatag tatttgtata gctatttttc gccaaaacac tatacatagc ctagccacaa
     2221 tggcaaaaaa gtgatagcaa atttttttct gagaaacgtg ataggcacag cttatctagc
     2281 acctttcgta agaaagtgat accacgtttc cttatgctct ttcaaaattc agaaaaatca
     2341 gctgtaaaac gagtgcagtc cgagtaagat tcaacgaaaa aacggggatt ggggcgccac
     2401 caaaatatcg caacatgggc ccatgttgct ctgctcgcaa aagcaaaaag aagaataaaa
     2461 ccagcaattt ttattaattt aaattgctgg ttttattgcc agaattgcca ccattttttc
     2521 tccgtctttg attgtttttc tatcgattct gtttcttcag aaagagtcgt tgatttattt
     2581 tccgaagatt cttccgtata agtcaactgt agttgttcct gcagtttctc gatttgttgg
     2641 ttggcttgca gggtgagttg ttgttgctgg tcgagtaatt tttgttgtgt ttctaaagct
     2701 agttgaagtt tttcaatttg cctatctttt tcttcaatat gattattctt agtttggttc
     2761 tgttgcaaag ttttaaatct actatcaaat aaggtagaat aatagaaaaa gatagcagga
     2821 ggaatgacga tgaatcattt taaaggaaag caatttcagc aggatgtgat tattgtagcc
     2881 gtgggctact atcttcgtta taaccttagc tatcgtgaag ttcaagaaat cttatatgat
     2941 cgtggcatta acgtttctca tacgacgatt tatcgttggg tgcaagaata tggcaaacta
     3001 ctctatcaaa tttggaaaaa gaaaaataaa aaatcctttt attcatggaa aatggatgaa
     3061 acgtacatca aaattaaagg aaaatggcat tatttgtatc gagccatcga tgcagatggt
     3121 ttaaccttgg atatttggtt acgtaaaaaa cgggacacac aagcagccta tgcttttctt
     3181 aagcggttag tgaagcagtt gatgaaccga aggttgtagt cacagataaa gccccctcta
     3241 ttacaagtgc ctttaagaaa ctaaagaata cggcttttat caagggacag aacatcgtac
     3301 cattaaatac ctgaataatt tgattgaaca agaccatcgt ccagtaaaga gacgcaataa
     3361 attctatcga agtttacgca ctgcctctac cacgattaaa ggcatggaag ccattcgagg
     3421 attatataag aaaacccgaa aagaaggcac tctcttcggg ttttcggtct gtactgaaat
     3481 caaggtatta ttgggaatcc cagcttaaat catagatacc gtaagggatt ttattcttta
     3541 tttaaaactt tgcaacagaa cccttagttt caatctcctt gagtaggtaa tcggtaggta
     3601 atgaatcagg taattcacta ggtaagttac ccggctcatt acctgataaa acctttgtaa
     3661 ttgttgttac tgcttctttt ttcaggtaga taatatttcc ttttttgtag gtaaaattac
     3721 taggtaattt cctcagttga tacttcactt tatcttttga aacacctaga atatctgcta
     3781 attctttgat agttttatct gtcataaaaa ccccttattc tttaaataag ttttgaagat
     3841 tatctagtaa gccttttttt aattctgggg gaatatcgga attgttatct ggtatttgtt
     3901 cgttaatctc cttattttct ttattcagat tattttgttt tctttctagc tcttctaatt
     3961 gttgtaaaag ttctaatttt cgtttctgtt ctttgatttt ttcttgtaat gaagtggggt
     4021 ctttttcaga gtaaatttgt tgattaacta gttctaaagc tttattttgt tcttcttttg
     4081 ttggtgcgtg tttattaaag tcgtctgctt tttttatttc aggtttaaac gtgaattgat
     4141 agccaatgac aggttttcct cttccttttc cgtatttctt tttgattgtc agacctttga
     4201 agattgcggt tagttcttgg cgaataggct ttataatttt tttatttata tcactttctc
     4261 tataactttt agggatatca agtaattcat gaaagtcttc ttttgaaaaa taggcaattc
     4321 ctttggttct gtattgtttt aataatctaa acatggtttt ggaataactg ctttctaatt
     4381 cattgaattg ttggagagaa tatcgaaccc attcttcaag attattaagt aagggtaagg
     4441 ctttctcatg gacttgtatt tcagcaaaag gaatatcagc ttttccatcg attttaaatt
     4501 gattaaataa aacaaatcgt tcacgttgca aaccgtcagc acttcttcta ccaaaacgta
     4561 aatccattaa tttgtcatac gttgtttcta aatcatctat gaatcgaaca tttgcagttg
     4621 ctttataatt gcttaaatct tttaattgtt cgaatgtaaa ttgtactttt ttatcgccta
     4681 cgtcacgcat tctagatact atagagaaga ataaattcat ttctactgac gtaaatttgc
     4741 gtaaaggaat cgtatttaat tcatggtggt atttcacaat ttcatttgcc ataaaatcct
     4801 ccttcaagat taactactta acaaaattat aaagagcttt ctaatagggg tcaagcccct
     4861 aattaaagac ccctaaaaac agacaaaaag acccccaaaa acagacaaaa agacccctaa
     4921 aaacagacaa aaagacccct aaaaacagac aaaaagaccc ccaaaagatt ctgcacacct
     4981 tgggagagta agcatacagc cgacggtaaa gaggtttaaa aagaggttta aaaagagatt
     5041 ataaaagagg aggcaaaatt tcccgcctaa aaaactcctg cttttttcct caaacaagtt
     5101 cgcgaatttt tctaaactgg gaaactcgct ccctacggtc actaaaaatg tgtgatcgct
     5161 acgctctcac attatactgc gcagtcgcct aaaggctcct ttgcttaaaa acagttcata
     5221 aagaactcct ttgaaaagtt ctgagcgttt gtttaagccg ttttaagaca gtcttagtat
     5281 aaaaccctta tcttgttctc aaagcgcctt acaggcggtc agggcaagcc ctaacaaccc
     5341 taaaatgttc tataagacct ctaaaattag atctaaggcg ttttaaagtt gttttggtat
     5401 aattatatac cagaacgttt aaaacgcctt aaaacgcaaa ttatagccat atgtattttt
     5461 acggaagccg gcacactcat ttgcaaagct gaagctttgc aaattcggat tcgctcactc
     5521 gaaaattgat ttgttttgac tctgatcgat aggtgtattt tttagaagga ttgctagcca
     5581 aatacggagg tatttggtgc a
//
