LOCUS       NZ_CP059763             1980 bp    DNA     circular CON 20-SEP-2023
DEFINITION  Enterococcus faecium strain A10290 plasmid pA10290_P8, complete
            sequence.
ACCESSION   NZ_CP059763
VERSION     NZ_CP059763.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14675380
            Assembly: GCF_012933345.2
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 1980)
  AUTHORS   Veeraraghavan,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  JOURNAL   Unpublished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 1980)
  AUTHORS   Veeraraghavan,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 1980)
  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                     :: A10290
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 84.54x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/20/2023 03:59:25
            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)                     :: 3,199
            CDSs (total)                      :: 3,107
            Genes (coding)                    :: 2,958
            CDSs (with protein)               :: 2,958
            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)              :: 149
            CDSs (without protein)            :: 149
            Pseudo Genes (ambiguous residues) :: 0 of 149
            Pseudo Genes (frameshifted)       :: 48 of 149
            Pseudo Genes (incomplete)         :: 96 of 149
            Pseudo Genes (internal stop)      :: 34 of 149
            Pseudo Genes (multiple problems)  :: 26 of 149
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP059763.1.
            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..1980
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="A10290"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pA10290_P8"
                     /geo_loc_name="India: Vellore"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2019"
                     /collected_by="CMC Vellore"
     gene            complement(686..1702)
                     /locus_tag="HI839_RS15880"
                     /old_locus_tag="HI839_015875"
     CDS             complement(686..1702)
                     /locus_tag="HI839_RS15880"
                     /old_locus_tag="HI839_015875"
                     /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"
     Typing          complement(687..1453)
                     /name="rep_cluster_1968"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ttgagcctcc tcctgccgaa atggaaaggg cgcacccgct gtttatttca ttcagctatc
       61 ggttttcaca atctaacacg atcgttccgc taccagtcgc cttacaggct ccattttcgc
      121 tcctctaacg tgttttaacg attgtgccga taactaaacg aaataaacgc taaaaccgct
      181 cagaacgcaa aatatgccat tttagagcta ttgtagaaaa tgtagtttga aatgcaattt
      241 tcttctttca gctttttatt tcccacttgt aaatctgcta attattttct accagacaaa
      301 ccattgattt tttggctatc agttaactca cgattattat gagaaatgct tgtattcttt
      361 gttccctttt tgaacgaaat actaaacccc aagttaaacc cctccttcgc gctgtcgcta
      421 ataaaaagag tgtaaacctt tctgttactc tttgacaaag agtaaacatt ttcctaattg
      481 tgacatggct gtcacaattc caaatgctct ccgagggtat tcgctgtcac aagtgacaac
      541 gaaaaaagga gccgaaagcg tgtcacgctc tcaactcctt ttacgcttta ttttgcttca
      601 cgcaaaataa tcgcttatcg taaactcacg tcattaaaca ttgacgtaaa tttactctca
      661 ctcatctgac ttttcttatt cggtatcact tctctgtcac gtccaaaccc aaaagccacg
      721 tgtctaattc tattttcaag tcgtttgcag attccttaaa cgtctctcgt aaatgattcg
      781 tcaactcatc gttttggctt tcttctttca acaatttgcg caatctatat ttcaaatttc
      841 tgctaatata cgcccactct gaatgatctt gattcagccc ttttatcata attctatcaa
      901 caggttttac atctccaggc aagtaatgag gacttgcaaa gctatctaaa ctttcccgaa
      961 ccatcgcatg ccaatctgtt gctttgccac gtcttagctg catttctata cgccaccatg
     1021 tttcgatttc ttttggtaca atctgttttt ttcgttcctg ttcaagcttt ttgttgtaca
     1081 tccgcacttg tcgctcgctg gcacgactac cccagtacgc tgtttctaat ttgccagaac
     1141 ggccataaat tggcttaaaa gacacagggt caacgattcg atactgggta ataaaatcat
     1201 caggaacacc gagaatatcg caagcaatat ctgcacgtga gaaatgcgca tccagaaaca
     1261 aatcatgaat gaattgtttc atcgacccct ttaaaaactc gccaatttta tttggattaa
     1321 aatcaatacg acctttgtca gggtgaaatt ttaacatttc gatataggcg atatcttctc
     1381 catattggtc aaataattgc caaccatttg taccaaccga cttcaaatac ccttgatttt
     1441 cattcaaacg cattaattgc tcaaaatcga caaacacaac tccattttgc gtccaataag
     1501 ctatggtatc attcagtttt ccgacgattg taattcgatc gattgaccaa cttaatttta
     1561 gggggtgtac cttatcgtca acacttaacc gcctgttaga aatacggtta agtttttcga
     1621 gctgatttat cgttgttctt ttttctgccc ctcgaccttc aatttttgat tgaatttcac
     1681 tcaactgatt ttcatttgcc attttcgtcc tccagacgaa aaaagagact tttggaaaga
     1741 atttccagag ttcacgtaac cctaaaaatt catatccaaa aatctctagc ttgaagaaac
     1801 ctaaaaatat tcgtataatg aacctgagtt acggagctag gtgaagtagt ttccgtaaat
     1861 agtcgagagt gttagcgcac tgctcggctt ttattttgct cttttttctc gttttctttg
     1921 attatagcac tcctcctaaa aaaataaaaa gacctcaggg aatttcattc cccgaacccc
//
