LOCUS       NZ_CP040370             3846 bp    DNA     linear   CON 25-JUL-2023
DEFINITION  Enterococcus faecium strain VB3240 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP040370
VERSION     NZ_CP040370.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN11633508
            Assembly: GCF_005576735.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 3846)
  AUTHORS   Balaji,V., Yamuna,B.D., Karthick,V., Ayyan,N. and Vignesh,N.
  TITLE     Linezolid and vancomycin resistant Enterococcus faecium
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3846)
  AUTHORS   Balaji,V., Yamuna,B.D., Karthick,V., Ayyan,N. and Vignesh,N.
  TITLE     Direct Submission
  JOURNAL   Submitted (15-MAY-2019) Clinical Microbiology, Christian Medical
            College, Ida Scudder Road, Vellore, Tamil Nadu 632004, India
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2019
            Assembly Method :: CANU v. 1.7; UNICYCLER HYBRID v. 0.4.6
            Assembly Name                     :: VB3240
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 136.8x
            Sequencing Technology :: IonTorrent; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/25/2023 04:29:55
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 3,022
            CDSs (total)                      :: 2,931
            Genes (coding)                    :: 2,746
            CDSs (with protein)               :: 2,746
            Genes (RNA)                       :: 91
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 69
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 185
            CDSs (without protein)            :: 185
            Pseudo Genes (ambiguous residues) :: 0 of 185
            Pseudo Genes (frameshifted)       :: 109 of 185
            Pseudo Genes (incomplete)         :: 79 of 185
            Pseudo Genes (internal stop)      :: 28 of 185
            Pseudo Genes (multiple problems)  :: 28 of 185
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP040370.1.
            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..3846
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="VB3240"
                     /isolation_source="Pus"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="unnamed2"
                     /geo_loc_name="India"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2019"
                     /collected_by="Christian Medical College"
     gene            64..1470
                     /locus_tag="FEF08_RS15800"
                     /old_locus_tag="FEF08_15800"
     CDS             64..1470
                     /locus_tag="FEF08_RS15800"
                     /old_locus_tag="FEF08_15800"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016173818.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006310 - DNA recombination [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid recombination protein"
                     /protein_id="WP_138222786.1"
                     /translation="MGFSISFKKGTKNTSISHNNRELTDSQKINDWHKHIDFTKSDENI
                     YLEQINIREKYEELFGEAVEKYNAKQKRADRKIEDYLAKVRKDKKMEPQREFIVQIGTL
                     DDFRTTRDDGSSTGISEQQAEQNRVIANKILVEYFKEFKERNPSLSVYNAVIHNDEVSP
                     HLHLNIVPVAEGYKRGVQKQPSFNKALQQQGLRADKENGRVIWNNFRNQEVESIERLMA
                     DFGWERELVGTNKIKDIHEYKEIMSEISELRQTAVKERESVSDELRYIYRQREENEREK
                     ALVASERAEIEEEKKNMLNVKKEMAVIFQKDMVPLESFKRLPDGSYHLSGNDFVDLYQR
                     ATRATNAKRNADNMSEQYLQMLEQNTELNAYVAALEEERHLSGRKQLADLQVENKKLKE
                     ENRSLRQRLERLKNAFQKSITRLSIRFGLAEKDMGLSEELEVLEQEKTLFYRQNVSQHK
                     LERSEDEIEW"
                     /name="plasmid recombination protein"
     gene            2058..3038
                     /locus_tag="FEF08_RS15805"
                     /old_locus_tag="FEF08_15805"
     CDS             2058..3038
                     /locus_tag="FEF08_RS15805"
                     /old_locus_tag="FEF08_15805"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002355134.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_014387154.1"
                     /translation="MKKKKQDLINGTFREKKRNLKKIMAFGDGRISGKTLENMKACGSF
                     MEFIATVDKEKKKMVHGMFCKNRFCPVCAYRKARKDSYMLSIMMEAIQAEKGYEYIFMT
                     LTTPNVPADKLSEEIDRFNKALSKLFRRKRVTTSIKGYVRKLEITYNKKRNDYNPHFHL
                     ILAVNKSYFTDKDYYIKQSEWLDLWRDVTGLDGINEDGTDEICSLDVRKVKGFQQDKAV
                     SEIAKYSAKDFEITYSQDVFDTFYFAMKGRQLMTFNGVFKEYRKKYESGELDHYKKKDE
                     NDYFWFLTASWMQKDANYSVAVRELTDDEKKFFAERYDKEGDETG"
                     /name="protein rep"
     gene            3025..3273
                     /locus_tag="FEF08_RS15810"
                     /old_locus_tag="FEF08_15810"
     CDS             3025..3273
                     /locus_tag="FEF08_RS15810"
                     /old_locus_tag="FEF08_15810"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002323248.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002323248.1"
                     /translation="MKLDKQRLYEAVKDNCNCGGNRQLFKAMMVTVYRRLDGENAETAV
                     ENAYFQVFGEHHSPEWDRAILDDMAEMHEKLWRALND"
                     /name="hypothetical protein"
     gene            3326..3688
                     /locus_tag="FEF08_RS15815"
                     /old_locus_tag="FEF08_15815"
     CDS             3326..3688
                     /locus_tag="FEF08_RS15815"
                     /old_locus_tag="FEF08_15815"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016173819.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002318183.1"
                     /translation="MGVTLADIKAQEEKLKKEQAKLRQQKKRLIEKENAEMGKALRKHF
                     GFESFADFERWLSSISDDQQHEKSVDNEWLADEKSAPSERDYPDESDGLFGVIPNKKSQ
                     MSESKFTSIFNDVNLR"
                     /name="hypothetical protein"
     Typing          2059..3038
                     /name="rep_cluster_1077"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          65..1467
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.573"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 acaaagagta acagaaaggt ttacactctt tttattagcg acagcgcgaa ggaggggtct
       61 aacttggggt ttagtatttc gttcaaaaag ggaacaaaga atacaagcat ttctcataat
      121 aatcgtgagt taactgatag ccaaaaaatc aatgactggc ataagcatat tgatttcaca
      181 aaatcggatg aaaatatcta tttggaacaa ataaatattc gtgaaaaata tgaagaatta
      241 ttcggtgaag ccgtagaaaa atataatgca aagcagaaaa gagccgatag aaaaatcgag
      301 gactatttag caaaggttcg caaggataaa aaaatggaac cacagcgaga atttatcgtg
      361 caaattggta ctcttgatga ttttcgtact actcgtgatg atggttcttc tactggcata
      421 tcggaacaac aagcagaaca aaatcgagtg attgccaaca aaattttagt tgagtatttc
      481 aaagaattta aagaacggaa tcctagttta tccgtctaca atgctgttat tcataatgac
      541 gaagtaagtc cgcacctgca tttgaatatt gttcctgttg ctgaagggta taaacggggt
      601 gttcaaaagc aaccaagttt taacaaagcc ttgcaacagc agggtttacg agcagataaa
      661 gagaatggtc gagtgatttg gaataatttt aggaatcagg aagttgagtc aattgaacgt
      721 ttgatggcag attttggttg ggagcgtgag ttagtcggta ctaacaaaat caaagatatt
      781 catgaataca aagaaatcat gagcgaaatt tccgaattgc gtcaaacggc cgtaaaagag
      841 cgtgagagcg tttctgatga gttgaggtat atttataggc aaagagaaga aaacgagcgt
      901 gagaaggctc tggtggcttc tgagagagcg gagattgaag aagagaagaa aaatatgctg
      961 aatgtaaaaa aagagatggc ggtcattttc caaaaagata tggttccttt agaaagtttc
     1021 aagaggcttc ctgatggttc gtatcattta tctgggaatg attttgttga tttgtatcaa
     1081 cgagctacga gagcaacaaa tgccaagaga aatgctgata acatgagtga gcaatattta
     1141 cagatgcttg agcaaaatac agaattaaat gcgtatgtag ctgcattgga agaagagcgt
     1201 catttgtctg gtagaaaaca attagcagat ttacaagtgg aaaataaaaa gctgaaagaa
     1261 gaaaatcgct ctttacgcca gcgtttagag cgattaaaaa acgcatttca aaaatcgatc
     1321 actcgtttgt ctatccgttt tggtcttgca gaaaaggata tggggctttc tgaggaatta
     1381 gaagtattag agcaggagaa aaccttattt tatcgtcaaa acgtctcaca gcataaatta
     1441 gagcgttctg aagatgagat cgagtggtag ttacgatgtg cagtcaacgg taccggaggc
     1501 ggtttgtgcc gaggataagg agttgacggc taaaccacta gcctattaag ctgacatttg
     1561 ctaaaaaatg gccagtccat tttttggcca acctagcgtt agcgaagttt gggggcgccc
     1621 ttttcaaagg gtgcggtttt atgtttgcat gactaagaat gagtgggaaa aattaacagc
     1681 cctctctaac aggcggttaa agtatcaaag tttgaccctt cccctaaaaa tgcagtggtc
     1741 aattgaccga attttatgtc tttgggtttt ggggttttaa aacgaaaaaa agggggcgat
     1801 tttcgccccc ttttttgatg ttttttctta tcttgataca tagggtaact attttcggga
     1861 gaaaatcgtg cctatgtatg gtcttttccc ttgtggctct aaggaagaac aaaaaaaaag
     1921 attgcttttt cttccctagt attttatagt tttaattgac tagaaaaaaa ctaaactaga
     1981 aaggagagca atctattttt tgttatcggc ttttcagcct tttttgtata caaaatttgt
     2041 agattcagta tagcaagatg aaaaagaaaa agcaagattt gattaacgga acatttcgag
     2101 aaaaaaagag aaatttaaag aaaatcatgg cgttcggtga tggccgtatt tctggcaaaa
     2161 ccttggaaaa catgaaagcc tgtggatcat tcatggagtt tatagcaacg gttgacaagg
     2221 agaagaaaaa gatggttcat ggcatgttct gtaaaaaccg attttgtccg gtttgtgcat
     2281 accgaaaagc ccgtaaggac agctatatgc tgtctatcat gatggaagct atccaagctg
     2341 aaaaggggta tgaatatatc tttatgaccc tcaccacacc caatgtgcct gcggataaat
     2401 tatccgaaga aattgatcgt ttcaacaaag cgctgtcgaa gctgtttcgg cgaaaaaggg
     2461 tgacaacttc aatcaagggc tatgtgcgaa aattggaaat cacgtacaac aaaaaacgga
     2521 atgactataa cccgcatttt cacttgattt tggcagtaaa taaatcttat ttcacggata
     2581 aagattatta tatcaagcaa tcggaatggt tagatttgtg gcgggatgtc accggtttgg
     2641 atggcattaa cgaggatggc accgatgaaa tttgttcgtt ggatgtccgc aaggtcaaag
     2701 gattccaaca agacaaagcg gtatcggaaa ttgccaaata ttctgccaaa gattttgaaa
     2761 taacctattc ccaagatgtt tttgacacgt tctattttgc tatgaaaggt cgtcagctga
     2821 tgactttcaa tggcgtgttc aaggagtaca ggaaaaaata cgagagtggc gaactcgatc
     2881 actacaagaa aaaagatgaa aacgactatt tctggttctt gactgctagc tggatgcaaa
     2941 aggatgccaa ttactcggtg gccgttcgtg agttgacgga tgatgagaag aaattctttg
     3001 cggaacgcta tgataaggag ggtgatgaaa ctggataagc aaaggctata tgaagcggtg
     3061 aaagataatt gtaattgtgg cggaaatcgt cagcttttta aggctatgat ggtgactgtt
     3121 tatcgtcggt tggatgggga aaatgctgag acagctgtgg aaaatgctta ttttcaagtg
     3181 ttcggtgaac accatagccc tgaatgggat cgtgctattc ttgatgatat ggcggaaatg
     3241 cacgagaaat tgtggagggc gctaaatgac taatcaaatt ggtgttattt atagggatga
     3301 atctaagggt aaggagttgt aattcatggg agtaacttta gctgatatta aagcacaaga
     3361 agaaaaattg aaaaaagagc aggcaaaact tcgccaacag aaaaagcgat tgattgagaa
     3421 ggaaaatgct gaaatgggca aggcgcttcg caagcatttt gggtttgaat cttttgctga
     3481 ttttgagcgg tggctatcgt cgatttctga cgatcagcaa cacgaaaaat cagtggataa
     3541 tgagtggctt gctgatgaaa aatcagcgcc aagcgaacga gattatcccg atgaatctga
     3601 cggcttattc ggagtgatac cgaataagaa aagtcagatg agtgagagta aatttacgtc
     3661 aatatttaat gacgtgaatt tacgataagc gattattttg cgtgaagcaa aataaagcgt
     3721 aaaaggagtt gagagcgtga cacgctttcg gctccttttt tcgttgtcac ttgtgacagc
     3781 gaataccctc ggagagcatt tggaattgtg acagccatgt cacaattagg aaaatgttac
     3841 tctttg
//
