LOCUS       NZ_CP061823             3871 bp    DNA     circular CON 07-NOV-2023
DEFINITION  Enterococcus faecium strain A6521 plasmid pA6521_6, complete
            sequence.
ACCESSION   NZ_CP061823
VERSION     NZ_CP061823.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14675386
            Assembly: GCF_012933195.2
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 3871)
  AUTHORS   Veeraraghavan,B., Bakthavatchalam,Y.D., Vasudevan,K. and
            Solaimalai,D.
  TITLE     Complete genome of vancomycin resistant Enterococcus faecium_A6521
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3871)
  AUTHORS   Veeraraghavan,B., Bakthavatchalam,Y.D., Vasudevan,K. and
            Solaimalai,D.
  TITLE     Direct Submission
  JOURNAL   Submitted (18-SEP-2020) Clinical Microbiology, Christian Medical
            College, Ida Scudder Road, Vellore, Tamil Nadu 632004, India
REFERENCE   3  (bases 1 to 3871)
  AUTHORS   Veeraraghavan,B., Solaimalai,D., Vasudevan,K. and Arumugam,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (23-APR-2020) Department of Clinical Microbiology,
            Christian Medical College and Hospital, Ida Scudder Road, Vellore,
            Tamil Nadu 632004, India
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2020
            Assembly Method :: CANU v. v. 1.7; UNICYCLER HYBRID v. v. 0.4.6
            Assembly Name                     :: A6521
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 62.0x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/07/2023 09:17:18
            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)                     :: 3,203
            CDSs (total)                      :: 3,111
            Genes (coding)                    :: 3,007
            CDSs (with protein)               :: 3,007
            Genes (RNA)                       :: 92
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 70
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 104
            CDSs (without protein)            :: 104
            Pseudo Genes (ambiguous residues) :: 0 of 104
            Pseudo Genes (frameshifted)       :: 40 of 104
            Pseudo Genes (incomplete)         :: 63 of 104
            Pseudo Genes (internal stop)      :: 28 of 104
            Pseudo Genes (multiple problems)  :: 21 of 104
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP061823.1.
            Bacteria and source DNA available from Christian Medical College.
            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..3871
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="A6521"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pA6521_6"
                     /geo_loc_name="India:Vellore"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2019"
                     /collected_by="CMC Vellore"
     gene            1..975
                     /locus_tag="HI837_RS15830"
                     /old_locus_tag="HI837_015830"
     CDS             1..975
                     /locus_tag="HI837_RS15830"
                     /old_locus_tag="HI837_015830"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002358693.1"
                     /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_112019297.1"
                     /translation="MANEIVKYHYELNTIPLRKFTPVEMNLFFSIVSRMREKGDKTVRF
                     TFDQLKDLSNYKATANVRFVDDLKTTYEKILSLRFGRRSESGLSYEMFVMFTKFKINGD
                     TPEPYVDIQIFEDALPLLNGLDSWVRYSLQQFNELQSSYSKTMFRLLKQFRTKGYAYFS
                     KEDFHELLDIPKSYKQPDIDKRVIKPIRQELTAIFKGLTIKKKYGKGRGKPVIGYQFSF
                     KPEIKQADDFNKHAPTKEEQNRALAQADKQKEYEQQPTTIDEKILEAKRKVELLEQLKE
                     LEKKEKQDTKNQTPTEQKKSKSDSQLSEKDKQDLLNGLSNFGK"
                     /name="replication initiation protein"
     gene            complement(1463..1933)
                     /locus_tag="HI837_RS15835"
                     /old_locus_tag="HI837_015835"
     CDS             complement(1463..1933)
                     /locus_tag="HI837_RS15835"
                     /old_locus_tag="HI837_015835"
                     /inference="COORDINATES: protein motif:HMM:NF025324.3"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type III toxin-antitoxin system ToxN/AbiQ family
                     toxin"
                     /protein_id="WP_071870226.1"
                     /translation="MADLDFYEIDPKYLKYLKKFDSSVPDYSYDKHDKFFCGVVTKMNG
                     FQYFAPISSFSRQQATNLLIKNSDGRNISSIRFCFMVPADDSVLKVKDFSLEKDQKYVG
                     LLSTELTFCRQNERRIQETAKRVYHYGIDSKHPQYRNCCKFTNLEQAATQYK"
                     /name="type III toxin-antitoxin system ToxN/AbiQ family
                     toxin"
     gene            2378..2914
                     /locus_tag="HI837_RS15840"
                     /old_locus_tag="HI837_015840"
     CDS             2378..2914
                     /locus_tag="HI837_RS15840"
                     /old_locus_tag="HI837_015840"
                     /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_112019302.1"
                     /translation="MSTQAEKIRLLAVDLLKNRSLNEPIDNDLYGIRYSQLKKKIMEDS
                     NHEFTDGAVTGALYTLTERVENIYKIKNNHGTYFYYSEDYKDNLEITRESITTSEEYKD
                     LTDMIKNSEVKVREILRNASQGRYTETTNLDIEHLRKLLNLTDQLSNLLKTYEAEKSFE
                     VMGNYRYSQFDNLPF"
                     /name="hypothetical protein"
     Typing          2..975
                     /name="rep_cluster_1197"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.692"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atggcaaatg aaattgtgaa gtaccattat gaattaaata cgattccctt acggaaattc
       61 acaccagttg aaatgaatct gttcttctct attgtttcta gaatgcgtga aaaaggcgat
      121 aaaaccgtta gatttacgtt tgaccaactg aaagatttaa gtaactataa agcgactgct
      181 aacgttcggt ttgtagatga tttaaaaaca acctacgaga aaatcttatc tttgcgtttt
      241 ggtcgtagaa gtgaatctgg actttcctac gaaatgtttg taatgtttac taaattcaaa
      301 atcaatggcg atactcctga accctacgta gatattcaaa tttttgaaga tgctttgcct
      361 ttgctaaatg gtttagattc ttgggtacgt tattctctcc aacaattcaa cgagctgcaa
      421 agcagctact ctaaaacgat gttccgcttg ttaaaacaat tccgaaccaa aggatatgcc
      481 tatttttcca aagaagattt tcatgagttg ctagatattc ctaaaagcta taagcaacct
      541 gatatagaca agagagttat taagcctatc cgtcaagaac taaccgcaat cttcaaaggt
      601 ttaacaatta aaaagaaata tggaaaaggt cgtggtaagc ccgtcattgg ctatcaattt
      661 tcgtttaaac cggaaatcaa gcaagcagac gactttaaca aacatgcacc aaccaaagaa
      721 gaacaaaata gagcgttagc acaagcggat aaacaaaaag aatacgagca acaaccaaca
      781 acgattgacg agaaaatttt agaagcaaaa agaaaagttg agctacttga acaactcaaa
      841 gagttagaaa aaaaagaaaa acaagacaca aaaaatcaga cacctacaga acaaaaaaaa
      901 tcaaaaagtg attcgcaact ttccgaaaaa gacaaacaag atttactaaa tggactttca
      961 aattttggaa aataatttca ctgatttttt caaaaatggg gattggggca acgccccaaa
     1021 aataaaaaga atcgtctgaa acgaggaaca aattaaaatg caaattttag ttgtggccga
     1081 gtggaagatg attacttttt accgtaagtg tgtacacact tactaagctc gctacaaaga
     1141 aatatctatc tgcatagaaa catgagcgta gcgaatttta acaaacacgc ttgacggaaa
     1201 aagagtacag tttcacgtga gtgatctgta ctctttttta gcacgatagc caccaaaata
     1261 ttttggtggg tgtaagtgcg cacttagcac aacgtagaaa aaattcggta gattttttta
     1321 ctgcgtataa gtgcgccctt gctcttattc tttgagcact ggaacgacat tttcaaatgg
     1381 cgttccagtg ctcatttttt cgtttcgtct catcttttca aaaaaattat tgctgttctt
     1441 gtactttata agctaattca ctttatttat actgagttgc agcttgttct aaatttgtaa
     1501 acttacaaca atttctatac tgagggtgtt tagaatcaat gccataatgg taaacccttt
     1561 ttgctgtttc ttgaatgcga cgttcatttt gtcgacaaaa ggtcagttct gtagataata
     1621 aaccgacgta tttttgatct ttttcaagag aaaagtcttt gacttttaaa acagagtcat
     1681 ctgcaggaac catgaagcaa aatctaatgc tagaaatatt acgtccatct gaatttttaa
     1741 ttaatagatt agttgcttgt tgtctactaa aagacgagat aggagcaaaa tattggaagc
     1801 cattcatttt tgtaactacc ccacaaaaaa acttatcatg tttatcatat gaataatccg
     1861 gtacagaaga atcaaatttt tttaagtatt taaggtattt aggatctatc tcataaaaat
     1921 ctaaatctgc caataatatc cctccaattg ctgttttttt taataactac cctatatttt
     1981 aacataaaaa caagcgccca agtatatact tgggcgcttg tttcagtttt ttcgaattag
     2041 gctggttttg atgagttcca taaactcgaa ttaggctggt tttgatgagt tccataaact
     2101 cgaattaggc tggttttgat gagttccata aactcgaatt aggctggttt tgatgagttc
     2161 cataaactcg agagaattaa taatctctac agtaatttta acaaaccttt cctaataatc
     2221 caacacaagc gttgacaaaa cacttatatt ttctaattaa tcccaaatta attttaaagc
     2281 tttataatta atttgatttt tattgtaata gtttaaattt aattgaaatt ggtatatact
     2341 taatttatat atattttgaa gaatggagaa tgattgaatg tccacgcaag cagaaaaaat
     2401 ccgattatta gctgttgatt tattaaaaaa cagatccctt aacgaaccta tagataacga
     2461 tttgtatggt attagataca gtcagcttaa aaaaaaaata atggaagatt ctaatcacga
     2521 gtttactgat ggggctgtta caggtgctct atatacactt actgagagag tagaaaatat
     2581 ttataagatc aaaaacaatc atggtacgta tttttattat tctgaggatt ataaagacaa
     2641 tttagaaatt acccgagaga gtataactac ctctgaagaa tataaagatt taaccgatat
     2701 gataaaaaat tctgaagtta aagtaagaga gattttacga aatgctagtc aaggtcggta
     2761 tactgaaacg actaatttag atatagaaca tttacgtaaa ttacttaatt taacagatca
     2821 attaagcaat ttattgaaaa cctacgaagc agaaaaatct tttgaggtaa tgggaaatta
     2881 tagatatagc caatttgata acttaccttt ttagactttt gtttgaattt attttattaa
     2941 tatctggttt tataaaaagc cctaataatc ctctctaaga gattattagg gcttttcgca
     3001 taattagtag cctttatctt caacaggctg ttaaaacgtg aaaataagct gaataaacct
     3061 attttaatct taattctttc ttttattagg ttttgggtat gtagggcttg ccctgcacga
     3121 gcgatagcga gccttacaca aactttgtcc tttcagcaga caaagtaaac gtgcgaataa
     3181 aaagcaaatc atttttaaag ctcataaaat gcgttctaag gtgttttaac gatcatgccg
     3241 acaactaaac taaataaaca ctaaaacctc ttaaaacgca aaatatgacg tttaaatggt
     3301 attttagttt gtattgctat ctaaaatctg cttttgggtt gttagggctt gccctgaccg
     3361 cctgaaaggc gcctgatgaa caagaattac ctgaaaacac taaaaccgtc ttagagagcc
     3421 ttatatggcg ttctaagact aaactaattc gcctttgaac aacggttttg attttgccct
     3481 tagcgagtga acgaagtgaa cgctgcaagt aaaatgtgag agcgtagcga tcactccttt
     3541 tttgtctttt ggttttttat ttgcagtttt gcaaaattcg cgaacctgtt tatctaaaaa
     3601 aatgagcttt tttaggcggg aaattttgcc cccctctttt ataatctctt tttaaacctc
     3661 ttttaaacct ctttaccgtc ggctgtatcc cacgcccctc aaggggttca gggctttatg
     3721 aaggtcattt tgtctgttta tgaaggtcat tttgtctgtt tatgaaggtc attttgtctg
     3781 tttatgaagg tcattttgtc tgtttgagtg tctttttata aatgacttga cttttaaatt
     3841 atgtcattta taatcatttt gaggtgatta c
//
