LOCUS       NZ_CP071964             5198 bp    DNA     circular CON 22-APR-2024
DEFINITION  Enterococcus faecium strain VB13828 plasmid p6VB13828, complete
            sequence.
ACCESSION   NZ_CP071964
VERSION     NZ_CP071964.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18353823
            Assembly: GCF_017603725.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 5198)
  AUTHORS   Balaji,V., Yamuna,B.D. and Anushree,A.
  TITLE     Complete genome of vancomycin resistant E. faecium_VB13828
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5198)
  AUTHORS   Balaji,V., Yamuna,B.D. and Anushree,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (19-MAR-2021) Clinical Microbiology, Christian Medical
            College, Ida Scudder Road, Vellore, Tamil Nadu 632004, India
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2021
            Assembly Method :: CANU v. v.1.7; UNICYCLER HYBRID v. v.0.4.6
            Assembly Name                     :: VB13828
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 59.0x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_017603725.1-RS_2024_04_22
            Annotation Date                   :: 04/22/2024 04:36:32
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 3,107
            CDSs (total)                      :: 3,015
            Genes (coding)                    :: 2,851
            CDSs (with protein)               :: 2,851
            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)              :: 164
            CDSs (without protein)            :: 164
            Pseudo Genes (ambiguous residues) :: 0 of 164
            Pseudo Genes (frameshifted)       :: 52 of 164
            Pseudo Genes (incomplete)         :: 102 of 164
            Pseudo Genes (internal stop)      :: 38 of 164
            Pseudo Genes (multiple problems)  :: 26 of 164
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP071964.1.
            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..5198
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="VB13828"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="p6VB13828"
                     /geo_loc_name="India"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2020"
                     /collected_by="Christian medical college"
     gene            complement(join(4972..5198,1..793))
                     /locus_tag="J4767_RS15305"
                     /old_locus_tag="J4767_15305"
     CDS             complement(join(4972..5198,1..793))
                     /locus_tag="J4767_RS15305"
                     /old_locus_tag="J4767_15305"
                     /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="Abi family protein"
                     /protein_id="WP_010729551.1"
                     /translation="MKTSNRKYKVKTVNHRIPPKKALCVINNSKVINQELKPYLSEQEM
                     IKKISKDIFLTNSDTILLEKFLKKNSYFRFSIYVKLMKNIDKVTILDVIETYKLDSFIR
                     NQLHYFVNQIEIFWKKSLSDNMCVSYEETSIFPKNQCYLDKNIYSDLKWAEDIIGHFNS
                     FFYSNQSPTFKHHHIKKNHCLPIWALFEEITFGSLTTFINQLNTEYYNNWVMSCYDNPK
                     YKKAIRSWANVIRAYRNKIAHHSRIYAFKVTDAPTIIKNDSKSYFPENNLKETQKLYLY
                     GGLYVIKHLLIYEDSMTQTLWNKFLIDLEKKIDKIPSLEKSNYGFPENWRNKLKIMIV"
                     /name="Abi family protein"
     gene            1943..2911
                     /locus_tag="J4767_RS15310"
                     /old_locus_tag="J4767_15310"
     CDS             1943..2911
                     /locus_tag="J4767_RS15310"
                     /old_locus_tag="J4767_15310"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002332718.1"
                     /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_002332718.1"
                     /translation="MANEIVKYHHELNTIPLRKFTSVEMNLFFSIVSRMRDVGDKKVQF
                     TFEQLKDLSNYKATANVRFIDDLETTYDKLMDLRFGRRSADGLQRERFVLFNQFKIDGK
                     ADIPFAEIQVHEKALPLLNNLEEWVRYSLQQFNELESSYSKTMFRLLKQYRTKGIAYFS
                     KEDFHELLDIPKSYRESDINKKIIKPIRQELTAIFKGLTIQKRYGKGRGKPVIGYQFTF
                     KPEIKKSDDFNKHAPTKEEQNKALELANQQVQSEKAPTSLQEKIKEQKRKLELLQQLEK
                     LEREQNTQNKENNAQKSEINSDIPSELKKDLLDNLQNLFKD"
                     /name="replication initiation protein"
     gene            2929..3453
                     /locus_tag="J4767_RS15315"
                     /old_locus_tag="J4767_15315"
     CDS             2929..3453
                     /locus_tag="J4767_RS15315"
                     /old_locus_tag="J4767_15315"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002305828.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF536 domain-containing protein"
                     /protein_id="WP_125394239.1"
                     /translation="MTEKTIKELAEELGVSKTAINKKVSDENRKLWFSKIGNKFVINET
                     GQKAIKSMFFNENENSNQQLVVEKTKTENHKNANQVPQLEVLSLLEQQLNQKDMQLQEK
                     DEQIKQMQKLLDQQQQLTLQANQQIEKLQEQLQLTYTEESSENKSTILSEETESIEKQS
                     KTEKKWWQFWQ"
                     /name="DUF536 domain-containing protein"
     gene            3823..4105
                     /locus_tag="J4767_RS15320"
                     /old_locus_tag="J4767_15320"
                     /pseudo=""
     CDS             3823..4105
                     /locus_tag="J4767_RS15320"
                     /old_locus_tag="J4767_15320"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000353845.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /name="hypothetical protein"
     gene            4107..4523
                     /locus_tag="J4767_RS15325"
                     /old_locus_tag="J4767_15325"
     CDS             4107..4523
                     /locus_tag="J4767_RS15325"
                     /old_locus_tag="J4767_15325"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001232859.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_098388136.1"
                     /translation="MRKTSVQKHVTLYPSHIDVLDSIIEKNPDINNYSEAIRFLCMSYE
                     PNTNTTTTSNQAKLNAMGKEISIMSEIIAEFADLYLKDTGVLIGTNSKVYQEVKEKIEK
                     QLNPSQRNQPKNRQKETSQTFTSKNFDPTNFLKR"
                     /name="hypothetical protein"
     Typing          1944..2907
                     /name="rep_cluster_1093"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.661"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 ttttggaatc attttttatg attgttggag cgtcagtaac tttaaatgca tatattcttg
       61 aatgatgagc tatcttattt ctataagctc taattacgtt tgcccaactt cgtatagctt
      121 ttttgtattt aggattatca taacagctca tgacccaatt attataatac tctgtattaa
      181 gttgattaat aaatgttgtt aaactaccaa atgttatttc ttcaaataaa gcccatattg
      241 gtaaacaatg attttttttt atatgatgat gtttaaaagt gggactttga tttgaataaa
      301 aaaaactatt aaaatgacca attatatctt cagcccattt caaatctgaa taaatatttt
      361 tatccaaata acactgattc ttcggaaata tgctagtttc ttcataagaa acgcacatat
      421 tatctgaaag agattttttc caaaaaattt ctatttgatt cacaaaataa tgcaattgat
      481 tacgaatgaa tgaatctaat ttgtacgttt caataacatc tagaatagta actttatcta
      541 tatttttcat taatttaaca taaatactaa atcgaaaata actatttttc tttaaaaact
      601 tttctaataa aattgtatcg gaatttgtta aaaaaatatc tttacttatt ttttttatca
      661 tttcttgctc ggataaatat ggttttaact cttgattaat tactttggaa ttattaatta
      721 cacacaatgc ctttttaggt ggaattctat gattaactgt tttaacttta tattttctat
      781 ttgatgtctt cataagaatc ttctttctta aaaaaatata aaaaaaaagc cctaccataa
      841 tgcgcatgat attaaatcag aggcgtggca agtactgata gatatattaa aacacatttg
      901 aattaaactg taaagctttt ttatttaaaa atttagttgt caaaatcgtg atttttttta
      961 agtgtgcaac caaaagaaat gcctatatat caagcattac tatcataatt tttcacatta
     1021 tcccccccct gttagaatgc ggggggctaa atgcgatcgg tctatcgagc aagctcgata
     1081 gacctttttt tgcttgaaaa tggcgcaaaa ccggtgcctt tcacgaattt gtaagcttgt
     1141 ttgtacacgt ctcgctctag gagaccttgt tcgctccgca ccgcaagcag cttttagcaa
     1201 cagcactttt ttgctaacgt acgaaaatgg ctcttccgga attctgctga atcggttgct
     1261 tattgttttg tttcatacgc tcttatttgc gttttcagac gttttactac ccaaggtata
     1321 taaaatatac aagaacatag ataagacaga ttaaatcgaa ttttaggatg gttttatgct
     1381 ctttaagggt tgttagggct tgccctgacc gcctgtaagg tgctttaaga acaagataag
     1441 ggtttatcca tactaaactg tcttaaaacg gcttaaacga gcgcgcagag cctctaaaaa
     1501 aatctcttta aacaacgttt ttagcaaagg agcctttagg cgactgcgca ggtacaatgt
     1561 gagggtgttt ttccctcaca cctttttagc gaccagaggg agcaagtttc ctagtttagt
     1621 aaaattcgcg aacctgtttg gctaaaaaag cagaaaattt ttaggcggga aattttgccc
     1681 ctctcctctt ttataatctc tttttaaacc tctttttaaa cctctttacc gtcggctgta
     1741 tgcttactct cccaaggtgt gcagaatctt ttgggggtct ttttgtctgt ttttaggggt
     1801 ctttttgtct gtttttaggg gtctttttgt ctgtttttag gggtcttttt gtctgttttt
     1861 aggggtcttt aattaggggc ttgaccccta ttagaaagct ctttataatt ttgttaagta
     1921 gttaatcttg aaggaggatt ttatggcaaa tgaaattgtg aaataccacc atgaattaaa
     1981 tacgattcct ttacgcaaat ttacgtcagt agaaatgaat ttattcttct ctatagtatc
     2041 tagaatgcgt gacgtaggcg ataaaaaagt acaatttaca ttcgaacaat taaaagattt
     2101 aagcaattat aaagcaactg caaatgttcg attcatagat gatttagaaa caacgtatga
     2161 caaattaatg gatttacgtt ttggtagaag aagtgctgac ggtttgcaac gtgaacgatt
     2221 tgttttattt aatcaattta aaatcgatgg aaaagctgat attccttttg ctgaaataca
     2281 agtccatgag aaagccttac ccttacttaa taatcttgaa gaatgggttc gatattctct
     2341 ccaacaattc aatgaattag aaagcagtta ttccaaaacc atgtttagat tattaaaaca
     2401 atacagaacc aaaggaattg cctatttttc aaaagaagac tttcatgaat tacttgatat
     2461 acctaaaagt tatagagaaa gtgatataaa taaaaaaatt ataaagccta ttcgccaaga
     2521 actaaccgca atcttcaaag gtctgacaat ccaaaagaga tacggaaaag gacggggaaa
     2581 gcctgtcatt ggctatcaat ttacatttaa acctgagata aaaaaatcag acgactttaa
     2641 caaacatgcc ccaacaaaag aagaacaaaa caaagcatta gaactagcta accaacaagt
     2701 tcaatctgaa aaagcaccta cttcattaca agaaaaaatc aaagaacaaa agcgaaaatt
     2761 ggaactttta caacagttag aaaagttaga aagagaacaa aatacccaaa ataaagaaaa
     2821 taatgcacaa aaatcagaga taaattccga tattccttca gaactaaaaa aagacttatt
     2881 agacaatctt caaaacttat tcaaagattg agggggtttt tagattttat gacagaaaaa
     2941 acaatcaaag aacttgctga agaattagga gttagtaaaa cagcaattaa caaaaaagtt
     3001 tctgacgaaa atcgaaaact ttggttttcg aaaatcggaa acaagtttgt gattaatgaa
     3061 accggacaaa aggctataaa atcaatgttt tttaacgaaa atgaaaactc aaatcaacaa
     3121 ctagttgtcg aaaaaacgaa aaccgaaaac cacaaaaacg ccaaccaagt tccccaatta
     3181 gaagtccttt ctctcctaga acaacagtta aatcaaaaag atatgcaact acaagaaaaa
     3241 gacgagcaaa taaaacaaat gcaaaaatta ctcgaccaac aacaacaact caccctgcaa
     3301 gccaaccaac aaatcgagaa actgcaggaa caactacagt tgacttatac ggaagaatct
     3361 tcggaaaata aatcaacgat tctttctgaa gaaacagaat cgatagaaaa acaatcaaag
     3421 acggagaaaa aatggtggca attctggcaa taaaaccagc aatttaaatt aatttaaatt
     3481 gctggtttta ttcttctttt tgcttttgcg agcagagcaa catgggccca tgttgcgata
     3541 ttttggtggc gccccaatcc ccgttttttc gttgaatctt actcggactg cactcgtttt
     3601 acagctgatt tttctgaatt ttgaaagagc ataaggaaac gtggtatcac tttcttacga
     3661 aaggtgctag gtaggctgtg cctaccacgt ttctaagaaa aaaatttgct atcacttttt
     3721 cgccattatg gatagcttat gtatagtgct tcggcaaaaa acagctatac aaatatagta
     3781 tttgtatgat acataaatta tactgataca aaaggaaatt ttatggacat tttagttcgg
     3841 aatattgatc ccaaaagttt gttgcaacaa tagacaaacg ttgccaagaa ctcacgaata
     3901 aaacaggaaa aaatggagtc gaaataaata tctaaaagtt ctaatcgaaa gtgattttga
     3961 ccgtcaactt atgaattaca aaaaagatca attcgattta ttactcgaaa aatttatcga
     4021 tattcaaaca aaaaatactg aaacattgaa cgactatgtt catacaaaca accaaatcat
     4081 tgaaacactt atcggaggaa tataacatga gaaaaacttc tgttcaaaaa cacgttaccc
     4141 tttatcccag tcacattgac gttttagatt ccataatcga aaaaaatcca gatatcaata
     4201 actactcgga agccattcgt tttctatgta tgagttatga acctaatact aatacgacaa
     4261 ctaccagcaa ccaagcaaaa ctaaatgcga tgggaaaaga aatttctatt atgtccgaaa
     4321 tcattgcaga atttgctgat ttgtatttaa aagatacagg cgttcttatc ggtacaaact
     4381 cgaaagtata tcaagaagta aaagaaaaaa ttgaaaaaca gctaaatccc tcccaacgaa
     4441 atcaaccaaa gaatcgtcaa aaagaaacga gtcaaacatt cacttctaaa aatttcgacc
     4501 caaccaactt tctaaaaaga taaaaaaata aaccaggaaa tttttaattt cctggtttat
     4561 tttctagaga gcggtcttcc aataagattt gcaaatcgat cccaatttgc gtaaaaaaaa
     4621 aagctgctcg tacgagcagc taaacaagaa aaagttagct tgttttaagg gtaaaataag
     4681 tgtaacaaat tttgcgaatg taacgatctt ttttattata cgcaaacaat caaaaaaaaa
     4741 gactgctcga aagagcagtc tcacaagcgc tcacaaaaat aacaaccccc taaaaacaga
     4801 ccggtccaaa ttcacaaaga aatggaagaa acaaatcgta tcaaatcaag ctttagaaag
     4861 tctcttttag ctagaccaat gaaaaatcac aaagtgagcg tctctatcca ttggtagagg
     4921 ggctacttgg catacactcg acattatgtt aactaacaat ttaaataaca attaaacaat
     4981 cattattttt aacttgtttc tccaattttc cggaaaacca taattggatt tttctaagga
     5041 agggatttta tcgatctttt tttctaaatc tattagaaat ttattccata aagtttgtgt
     5101 catgctatct tcatatatta acagatgttt tataacgtat aatcctccat ataaatataa
     5161 cttttgggtt tcttttaagt tattttcagg aaaataac
//
