LOCUS       NZ_CP061826             1979 bp    DNA     circular CON 07-NOV-2023
DEFINITION  Enterococcus faecium strain A6521 plasmid pA6521_9, complete
            sequence.
ACCESSION   NZ_CP061826
VERSION     NZ_CP061826.1
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 1979)
  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  JOURNAL   Unpublished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 1979)
  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 1979)
  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
            CP061826.1.
            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..1979
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="A6521"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pA6521_9"
                     /geo_loc_name="India:Vellore"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2019"
                     /collected_by="CMC Vellore"
     gene            complement(join(1217..1979,1..254))
                     /locus_tag="HI837_RS15880"
                     /old_locus_tag="HI837_015880"
     CDS             complement(join(1217..1979,1..254))
                     /locus_tag="HI837_RS15880"
                     /old_locus_tag="HI837_015880"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002299382.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0003916 - DNA topoisomerase 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 factor domain-containing
                     protein"
                     /protein_id="WP_002326787.1"
                     /translation="MANENQLSEIQSKIEGRGAEKRTTINQLEKLNRISNRRLSVDDKV
                     HPLKLSWSIDRITIVGKLNDTIAYWTQNGVVFVDFEQLMRLNENQGYLKSVGTNGWQLF
                     DQYGEDIAYIEMLKFHPDKGRIDFNPNKIGEFLKGSMKQFIHDLFLDAHFSRADIACDI
                     LGVPDDFITQYRIVDPVSFKPIYGRSGKLETAYWGSRASERQVRMYNKKLEQERKKQIV
                     PKEIETWWRIEMQLRRGKATDWHAMVRESLDSFASPHYLPGDVKPVDRIMIKGLNQDHS
                     EWAYISRNLKYRLRKLLKEESQNDELTNHLRETFKESANDLKIELDTWLLGLDVTEK"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            complement(<835..1017)
                     /locus_tag="HI837_RS15885"
                     /old_locus_tag="HI837_015885"
                     /pseudo=""
     CDS             complement(<835..1017)
                     /locus_tag="HI837_RS15885"
                     /old_locus_tag="HI837_015885"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002313295.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /name="hypothetical protein"
     Typing          complement(1218..1979)
                     /name="rep_cluster_1968"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 cgcattaatt gctcaaaatc gacaaacaca actccatttt gcgtccaata agctatggta
       61 tcattcagtt ttccgacgat tgtaattcga tcgattgacc aacttaattt tagggggtgt
      121 accttatcgt caacacttaa ccgcctgtta gaaatacggt taagtttttc gagctgattt
      181 atcgttgttc ttttttctgc ccctcgacct tcaatttttg attgaatttc actcaactga
      241 ttttcatttg ccattttcgt cctccaaacg aaaaaagaga cttttggaaa gaatttccag
      301 agttcacgta accctaaaaa ttcatatcca aaaatctcta gcttgaagaa acctaaaaat
      361 attcgtataa tgaacctgag ttacggagct aggtgaagta gtttccgtaa atagtcgaga
      421 gtgttagcgc actgctcggc ttttattttg ctcttttttc tcgttttctt tgattatagc
      481 actcctccta aaaaaataaa aagacctcag ggaatttcat tccccgaacc ccttgagcct
      541 cctcctgccg aaatggaaag ggcgcacccg ctgtttattt cattcagcta tcggttttca
      601 caatctaaca cgatcgttcc gctaccagtc gccttacagg ctccattttc gctcctctaa
      661 cgtgttttaa cgattgtgcc gataactaaa cgaaataaac gctaaaaccg ctcagaacgc
      721 aaaatatgcc attttagagc tattgtagaa aatgtagttt gaaatgcaat tttcttcttt
      781 cagcttttta tttcccactt gtaaatctgc taattatttt ctaccagaca aaccattgat
      841 tttttggcta tcagttaact cacgattatt atgagaaatg cttgtattct ttgttccctt
      901 tttgaacgaa atactaaacc ccaagttaga cccctccttc gcgctgtcgc taataaaaag
      961 agtgtaaacc tttctgttac tctttgacaa agagtaacat tttcctaatt gtgacatggc
     1021 tgtcacaatt ccaaatgctc tccgagggta ttcgctgtca caagtgacaa cgaaaaaagg
     1081 agccgaaagc gtgtcacgct ctcaactcct tttacgcttt attttgcttc acgcaaaata
     1141 atcgcttatc gtaaactcac gtcattaaac attgacgtaa atttactctc actcatctga
     1201 cttttcttat tcggtatcac ttctctgtca cgtccaaacc caaaagccac gtgtctaatt
     1261 ctattttcaa gtcgtttgca gattccttaa acgtctctcg taaatgattc gtcaactcat
     1321 cgttttggct ttcttctttc aacaatttgc gcaatctata tttcaaattt ctgctaatat
     1381 acgcccactc tgaatgatct tgattcagcc cttttatcat aattctatca acaggtttta
     1441 catctccagg caagtaatga ggacttgcaa agctatctaa actttcccga accatcgcat
     1501 gccaatctgt tgctttgcca cgtcttagct gcatttctat acgccaccat gtttcgattt
     1561 cttttggtac aatctgtttt tttcgttcct gttcaagctt tttgttgtac atccgcactt
     1621 gtcgctcgct ggcacgacta ccccagtacg ctgtttctaa tttgccagaa cggccataaa
     1681 ttggcttaaa agacacaggg tcaacgattc gatactgggt aataaaatca tcaggaacac
     1741 cgagaatatc gcaagcaata tctgcacgtg agaaatgcgc atccagaaac aaatcatgaa
     1801 tgaattgttt catcgacccc tttaaaaact cgccaatttt atttggatta aaatcaatac
     1861 gacctttgtc agggtgaaat tttaacattt cgatataggc gatatcttct ccatattggt
     1921 caaataattg ccaaccattt gtaccaaccg acttcaaata cccttgattt tcattcaaa
//
