LOCUS       NZ_CP059771             2419 bp    DNA     circular CON 20-SEP-2023
DEFINITION  Enterococcus faecium strain A11051 plasmid pA11051_P7, complete
            sequence.
ACCESSION   NZ_CP059771
VERSION     NZ_CP059771.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14675381
            Assembly: GCF_012933285.2
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 2419)
  AUTHORS   Veerarghavan,B., Vasudevan,K., Arumugam,A., Solaimalai,D. and
            Bakthavatchalam,Y.D.
  TITLE     Complete genome of vancomycin resistant Enterococcus faecium
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2419)
  AUTHORS   Veerarghavan,B., Vasudevan,K., Arumugam,A., Solaimalai,D. and
            Bakthavatchalam,Y.D.
  TITLE     Direct Submission
  JOURNAL   Submitted (09-JUL-2020) Clinical Microbiology, Christian Medical
            College, Ida Scudder Road, Vellore, Tamil Nadu 632004, India
REFERENCE   3  (bases 1 to 2419)
  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                     :: A11051
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 91.28x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/20/2023 03:44:53
            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)                     :: 3,089
            CDSs (total)                      :: 2,997
            Genes (coding)                    :: 2,835
            CDSs (with protein)               :: 2,835
            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)              :: 162
            CDSs (without protein)            :: 162
            Pseudo Genes (ambiguous residues) :: 0 of 162
            Pseudo Genes (frameshifted)       :: 51 of 162
            Pseudo Genes (incomplete)         :: 102 of 162
            Pseudo Genes (internal stop)      :: 36 of 162
            Pseudo Genes (multiple problems)  :: 25 of 162
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP059771.1.
            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..2419
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="A11051"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pA11051_P7"
                     /geo_loc_name="India: Vellore"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2019"
                     /collected_by="CMC Vellore"
     gene            join(1625..2419,1..51)
                     /locus_tag="HI861_RS15340"
                     /old_locus_tag="HI861_015340"
     CDS             join(1625..2419,1..51)
                     /locus_tag="HI861_RS15340"
                     /old_locus_tag="HI861_015340"
                     /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="nucleotidyltransferase domain-containing protein"
                     /protein_id="WP_182494627.1"
                     /translation="MVDNIIKSVAEKLSSLSYIEGIVLGGSRARGTHTEDSDIDIGIYY
                     NSESFDINTINQFATKLDDEHRNNLVVPPGAWGDWINGGGWLVINGYHVDLILRDIKRV
                     EQIMKDTEHGIVTANYQTGHPHGYISAMYRGELAISKILYAKNESLCELKKQAETYPNA
                     LQKSLVNFFMFEAGFSLMFVKANSGTDDKYYIAGHVFRIVSCLNQVLFACNNAYCINEK
                     KAIKLLETFEHKPEKYTEKVNHIFEVLGISLFECYDMTEKLYNLNLESYTLLKGMEINY
                     "
                     /name="nucleotidyltransferase domain-containing protein"
     gene            <153..413
                     /locus_tag="HI861_RS15345"
                     /old_locus_tag="HI861_015345"
                     /pseudo=""
     CDS             <153..413
                     /locus_tag="HI861_RS15345"
                     /old_locus_tag="HI861_015345"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000108743.1"
                     /GO_component="GO:0005694 - chromosome [Evidence IEA]"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0003916 - DNA topoisomerase activity [Evidence IEA]"
                     /GO_process="GO:0006265 - DNA topological change [Evidence
                     IEA]"
                     /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="topoisomerase DNA-binding C4 zinc finger
                     domain-containing protein"
                     /name="topoisomerase DNA-binding C4 zinc finger
                     domain-containing protein"
     gene            576..>1241
                     /locus_tag="HI861_RS15350"
                     /old_locus_tag="HI861_015350"
                     /pseudo=""
     CDS             576..>1241
                     /locus_tag="HI861_RS15350"
                     /old_locus_tag="HI861_015350"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_086558228.1"
                     /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="IS1182-like element IS1182 family transposase"
                     /name="IS1182-like element IS1182 family transposase"
     gene            1277..1522
                     /locus_tag="HI861_RS15355"
                     /old_locus_tag="HI861_015355"
     CDS             1277..1522
                     /locus_tag="HI861_RS15355"
                     /old_locus_tag="HI861_015355"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000567888.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="single-stranded DNA-binding protein"
                     /protein_id="WP_000567888.1"
                     /translation="MIDVNELLEEAIRETENLNDGEVFLVKDLFKGYVGNRIPRKDRLL
                     LGTLFLNHVSKMNGNLKAIEKTSSNQQRYKKTIDKF"
                     /name="single-stranded DNA-binding protein"
ORIGIN
        1 ttaaatttgg aaagttacac gttactaaag ggaatggaga taaattatta gatatactac
       61 tgacagcttc caagaagcta aagaggtccc tagcgcctac ggggaatttg tatcgataag
      121 gggtacaaat tcccactaag cgctcgggac cccttgtagg aaaatgtcct aagtgtggca
      181 acaatattgt attaaaaaaa tcgttttatg gttgttcaaa ttatcctgaa tgtaagttta
      241 ctttagctga acattttaga aagaaaaaac taaccaaaac gaatgtaaaa gaattactgg
      301 agggaaaaga aaccctggta aaaggaatca aaaacaaaga gaaaaagccc tacaatgccg
      361 ttgtaaaaat tggggaaaag ggatatattg attttatctc tttttcaaaa taaacatggg
      421 gctgacccaa aagtagctcc tatatgaaaa atagaggtct ttccatttag atagtagtgg
      481 aaagacctct atttatcttt tgaaagtgaa tacaaaaata aagcacactc tgctataata
      541 taggtgatta atccatttga gagaggtgct ttatcatgta tcaaaattat accataaacc
      601 aactttgttt gcctatagat cttgaaatta aattagaaga aaatgatttt gctcatgcca
      661 ttgtgcagtt tgttgactct attcccgatg aagtctttct tccttattat caatctatgg
      721 gtagacccca atatcatcct cgtatgctac tttccattat tctttgtgcc tatattcaag
      781 gggtttattc gggccgccaa atacaaaata tgctgataga tagtattcgg atgcgctact
      841 tatctcaaga gcaattccct aactttcgta ctattaatcg ttttcgcgtt catccgatta
      901 tgaacgatat tctagatcat tcatttgttc aatttcgtga gctactggtt caaagtggct
      961 taatcagtgg cagtgctcta tacattgatg gtacaaaaat tgaagcggat gcgaataaat
     1021 actctttcgt ttggaaaaaa agtattttaa agtataagga tagccttgat caaaaagccc
     1081 ttgaaaacta ccaacaaatg gtggaaacaa aaatcttacc tgagttaata gatgatttaa
     1141 aggatgaact ttctatagaa gagattgaaa ggattcgtca atctttggaa gaaaaggaaa
     1201 atcaattaat tgaagcgatt gaccaaaccg aaacagtaga agggggctga cccattatta
     1261 ataaggagtg gacaacatga ttgatgtaaa tgagctattg gaagaagcta ttagagaaac
     1321 tgaaaatcta aatgatggcg aagtttttct tgttaaagat ttattcaagg gatatgtggg
     1381 gaataggata cccagaaagg atcgacttct gcttggaacg ttatttttaa accatgttag
     1441 caaaatgaat ggtaatttaa aggctattga aaagacttca tctaatcagc agaggtataa
     1501 aaagacaatt gataagtttt aactatcttt tgtgaaatta aaaaaattat aaatatgttg
     1561 agtagaagca aaagatttgg cttggaattt ttacagcagt gaatcgataa aaggagcatg
     1621 cttgatggta gataatatta ttaaatcagt agcagagaaa ttatcctctc tgtcttatat
     1681 agaaggtatt gttttaggtg gttcacgtgc aaggggcacc catacagagg attcggatat
     1741 agatatcggc atctattaca attcagaatc atttgacata aatactatta atcaattcgc
     1801 tacaaagctg gatgatgagc atagaaataa ccttgttgta cctcccggag catggggtga
     1861 ttggattaat ggcggcggat ggttagtcat aaacgggtat catgtggatt taattttacg
     1921 tgatattaaa cgtgtggaac aaataatgaa agatacagag cacggaattg ttactgccaa
     1981 ttatcagact gggcatcccc atggttatat tagtgcaatg tatcgaggag aattagcgat
     2041 tagcaaaata ctatatgcta agaatgaaag cttatgcgaa ttaaaaaaac aggcagaaac
     2101 ttatcccaat gctttgcaga aaagtttagt taactttttt atgtttgaag cagggttctc
     2161 tttaatgttt gtaaaagcaa attcgggaac agacgataaa tattatattg cgggtcatgt
     2221 ttttcgtata gtttcatgtt taaatcaagt gttatttgca tgtaataatg cttattgtat
     2281 caacgaaaag aaagctataa aactgcttga aacttttgaa cataaacctg aaaaatatac
     2341 cgagaaggta aatcatattt ttgaagtact cggtatctca ctttttgaat gctacgacat
     2401 gaccgagaag ctttataat
//
