LOCUS       NZ_CP072574             6096 bp    DNA     circular CON 29-APR-2024
DEFINITION  Enterococcus faecium strain VB3895 plasmid pVB3895_p7, complete
            sequence.
ACCESSION   NZ_CP072574
VERSION     NZ_CP072574.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18533866
            Assembly: GCF_017815675.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 6096)
  AUTHORS   Balaji,V., Yamuna,B. and Monisha,P.
  TITLE     Complete genome of Vancomycin Resistant Enterococcus faecium_VB3895
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 6096)
  AUTHORS   Balaji,V., Yamuna,B. and Monisha,P.
  TITLE     Direct Submission
  JOURNAL   Submitted (30-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                   :: UNICYCLER v. v0.4.8
            Assembly Name                     :: VB3895
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 44.3x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_017815675.1-RS_2024_04_29
            Annotation Date                   :: 04/29/2024 04:33:43
            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)                     :: 3,062
            CDSs (total)                      :: 2,972
            Genes (coding)                    :: 2,868
            CDSs (with protein)               :: 2,868
            Genes (RNA)                       :: 90
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 68
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 104
            CDSs (without protein)            :: 104
            Pseudo Genes (ambiguous residues) :: 0 of 104
            Pseudo Genes (frameshifted)       :: 35 of 104
            Pseudo Genes (incomplete)         :: 70 of 104
            Pseudo Genes (internal stop)      :: 25 of 104
            Pseudo Genes (multiple problems)  :: 20 of 104
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP072574.1.
            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..6096
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="VB3895"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pVB3895_p7"
                     /geo_loc_name="India"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2019"
                     /collected_by="Christian medical college"
     gene            join(5362..6096,1..3)
                     /locus_tag="J7291_RS15060"
                     /old_locus_tag="J7291_15070"
     CDS             join(5362..6096,1..3)
                     /locus_tag="J7291_RS15060"
                     /old_locus_tag="J7291_15070"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015060391.1"
                     /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_002292475.1"
                     /translation="MSNDIVRYNNGLNSVPLRKFTPIDMDLFWGICSKMKRKGTKEEIF
                     TFKQIKELIDYNINARGDRFANDLIKMSKKIITLSFIYEDEKTYEQLNLFQKFKIDKVN
                     ETLLIKVSEEFEYILNSIGTNFTRFELENMTNLKSSYVKELYRQLMAHKNRRSKKGHWF
                     VKIEDFRALLAIPESYRMRDIDKQIFAQAKKEFLNVNSTHPAIFKTFEIKKIKAYKGNK
                     IGSLQIYFEENIPSITLDNWLEK"
                     /name="replication initiation protein"
     gene            31..564
                     /locus_tag="J7291_RS15065"
                     /old_locus_tag="J7291_15075"
     CDS             31..564
                     /locus_tag="J7291_RS15065"
                     /old_locus_tag="J7291_15075"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002292473.1"
                     /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_104858994.1"
                     /translation="MQPKETFTIKELSELFEISRQAISKHVDKLDPSLLAKNDRGYKVV
                     LRSGVLQLARNLGNQRLLDKLHEHEQNSDKNAYIPTKNVVANELLDQLREENKFLREQI
                     ALKEQNNSHIQKLLDQQQQLTLQANQQIDKLQKRLQLVYTEETSENESTTLSEETESIE
                     KQTKKKQKWWKLWK"
                     /name="DUF536 domain-containing protein"
     gene            580..750
                     /locus_tag="J7291_RS15070"
                     /old_locus_tag="J7291_15080"
     CDS             580..750
                     /locus_tag="J7291_RS15070"
                     /old_locus_tag="J7291_15080"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002322958.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002322958.1"
                     /translation="MTRKKLIFGSILLGILGFSPMLLSVINKGNKHGELKLNPNYYNSP
                     NEELFVKETDK"
                     /name="hypothetical protein"
     gene            1211..1744
                     /locus_tag="J7291_RS15075"
                     /old_locus_tag="J7291_15085"
     CDS             1211..1744
                     /locus_tag="J7291_RS15075"
                     /old_locus_tag="J7291_15085"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002334266.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002334266.1"
                     /translation="MKKFTLGVALLTIGAVVLPSTTIVYASENSQVVSLNENNATENVV
                     IEYTEDGMVVTKYEDGYSAEDFANSSDIMTRAAVARWGKKEYTNIAVTTGVAANAINAA
                     FWAGGKASTSMFGIPGWAIGALLTGASWTKKGASPGNAVAKEWDKNGNGWIGFYYQRGY
                     DAAGRVVATRYSTL"
                     /name="hypothetical protein"
     gene            1756..1959
                     /locus_tag="J7291_RS15080"
                     /old_locus_tag="J7291_15090"
     CDS             1756..1959
                     /locus_tag="J7291_RS15080"
                     /old_locus_tag="J7291_15090"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002307460.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002321382.1"
                     /translation="MFLISKSLKSLKTFTKKNPQIATIRIFIFAIAVAIIVNMLSGGQL
                     YKSGLFLVLILVVLDIIKSKKK"
                     /name="hypothetical protein"
     gene            2282..2662
                     /locus_tag="J7291_RS15085"
                     /old_locus_tag="J7291_15095"
     CDS             2282..2662
                     /locus_tag="J7291_RS15085"
                     /old_locus_tag="J7291_15095"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002348702.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_189660794.1"
                     /translation="MSEQNQNLASDPSKKYTYRSEPKQISFRVSESEFAKLKQSAEALQ
                     MSVPAFVKAKAQNARLVTPKVAPDIAQAIARDLAKAGGNINQIAKWCNTHQHDVAPDDA
                     QRLSENLKIMQKELQKIWQQLK"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2644..3582
                     /locus_tag="J7291_RS15090"
                     /old_locus_tag="J7291_15100"
     CDS             2644..3582
                     /locus_tag="J7291_RS15090"
                     /old_locus_tag="J7291_15100"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002340563.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /protein_id="WP_104858995.1"
                     /translation="MATVKVSRTTSCSRAINYAEPRATVKTGINCDIDYAKSEMKQIRM
                     LYGKDDHVQAHLLIQSFRPGEITAEKANQLGKEYAEKIAPEHQIAIYTHTDKDHIHNHI
                     VINSVNLETGKKFQAHGQAFLDKCYDINDEICLTHGLSITERGKKEEKRTMSEIKLKEK
                     NEPVWKDEIRFAIDQTMKNPKTRTYDQFCDSLKIFGIHCFNRGKNFTYELIKKKKKVRS
                     NKLGKDYEKETILHELDRREQTYYRERERAYHRQQADELRRARESIRKIAGEVRREQRT
                     FTPEQSEIRSTRRNHEQHVERGTDHQQELSL"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            3822..4511
                     /locus_tag="J7291_RS15095"
                     /old_locus_tag="J7291_15105"
     CDS             3822..4511
                     /locus_tag="J7291_RS15095"
                     /old_locus_tag="J7291_15105"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002298772.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_125276269.1"
                     /translation="MAFYLPYLLIFVSISGSIWLSCKIYQTRHSLKGSKIRFKRFLLLG
                     CIFSLIIISSGLFGILEGNKRISGSILLENVTQKYEVARDKKKKEQALAQKIEEFTACY
                     ENMNDIFVKQEKRLTDKNMETLTRLYRKLPEKQQKEYQEKYEQVKKDVQYVKDTQTEEA
                     CYDLFSDTIPFSTSEQERKERQQSVTYERYEILLQKATNIQNPTKKETALNYLESVKEW
                     LDQQQQN"
                     /name="hypothetical protein"
     Typing          5363..6096
                     /name="rep_cluster_1742"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          2645..3579
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="90.705"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 taatacctaa caatttagga ggcaattatc atgcaaccca aagaaacctt tacaataaag
       61 gaattatctg aattatttga aataagtagg caagcaatct ctaaacatgt tgataaatta
      121 gacccgtcct tattagctaa aaatgatcgt ggttataagg ttgtattacg ttctggagta
      181 ttgcaacttg ctcgcaattt aggcaaccaa aggttgctag ataagttgca tgaacatgaa
      241 caaaacagcg ataaaaatgc ttatatacca acaaaaaacg tggttgcaaa tgagttgctc
      301 gatcagttgc gtgaagaaaa taaattttta cgtgaacaaa tcgctctcaa agaacaaaat
      361 aattctcata tacaaaaact cttagaccag caacaacaac tcaccttgca ggcaaatcaa
      421 caaatcgata aactgcaaaa acggttacaa ttagtttata cggaagaaac ttcagaaaat
      481 gaatcaacta ctctttctga agaaacagaa tcgatagaaa aacaaacaaa gaagaagcaa
      541 aaatggtgga aactatggaa ataactggag gaaacattca tgacaagaaa aaagctcata
      601 tttggttcta ttttactagg aattctaggc ttcagtccga tgttattgtc agtgatcaat
      661 aaaggaaata aacatggtga attgaaattg aatccaaatt attacaacag tcctaacgaa
      721 gagttatttg taaaagaaac ggataaataa taaaaaaaga ctgctcttcc gagcagccca
      781 aaatgaaatt atcctattca tcaacataaa aatattacaa aatgaagaac tagaagaagg
      841 acaaaaaaag catatcaaat cctctaaaaa ataacaagtc tttaaaaagt gaccggtaaa
      901 aatgcacaaa gaactaaaaa agagaaattg catcaaatca agcattagaa gctagtaact
      961 agctagacca attgaaaatc acaaagtgag cgcctgtatc gattgctaca ggcgctactt
     1021 ggcatagtgt acattatgtc aacaagaatt taatataaca tattttccta atgcattcta
     1081 actataccac attatcaaaa atataaatta tctttactaa ataaaatatt gacaagccta
     1141 taccttttgt tttatgattt tcacaaagaa aacgttttct atatattttt ctgtatcagg
     1201 aggaaattct atgaaaaaat ttactttagg ggtagctttg ttaactattg gggcagttgt
     1261 tttaccgtca actactatag tttatgcttc agaaaattcc caagtggtat cattaaacga
     1321 aaacaatgct actgaaaatg tagttattga gtacactgaa gatggtatgg tcgtaactaa
     1381 atatgaggat ggttatagtg cggaagattt tgcaaattct tcagatatca tgacaagagc
     1441 tgcagttgca agatggggca aaaaggaata tacaaatatt gctgtaacca ctggagtagc
     1501 tgctaatgct attaatgctg ccttttgggc aggagggaaa gctagcactt ctatgtttgg
     1561 tatcccaggt tgggcaattg gtgctttgtt aacaggtgca agttggacta aaaaaggtgc
     1621 ttctccaggg aatgcagttg caaaagaatg ggacaaaaat ggtaatggct ggattggatt
     1681 ttattaccaa aggggatatg atgcagctgg aagagttgta gctactagat attcaacgtt
     1741 ataagttaag gagtgatgtt tttgatatct aaatcattaa aatcattaaa aacatttact
     1801 aaaaagaatc cgcaaatagc tactattcgt atttttatat ttgctatagc tgttgctata
     1861 attgttaata tgctaagcgg agggcaatta tacaaatctg gtttattttt agtgttaatc
     1921 ttagttgtct tagacataat aaagtctaaa aaaaaataaa tcgatacatt ttagaagaat
     1981 agggttgttt gaatattaca aagcaacaat ttcaccttcg gtgaaataag cgaaacttta
     2041 caaaaagtgg ctagcaaatg ctagcctttt tttgtattgt ggagcgtgga ttttgagggg
     2101 gattcaaggg ggagcttgcg ctcctttgac aagcggttat ttgcaccaaa tacgtaggta
     2161 tttggctagc aaatatagag cttgccaaac ccttttagtg agctttactc attgtacctt
     2221 tttaggtata atgagtattg cgaacgatac gtccgtagga cgtactgaaa gggtgggact
     2281 tatgagcgaa caaaatcaaa atttggctag cgatccttct aaaaaatata cctatcgatc
     2341 cgagccaaaa caaatcagtt ttcgagtgag cgaatccgaa tttgcaaagc tgaagcagtc
     2401 agctgaagct ttgcaaatga gtgtgccggc tttcgtgaaa gccaaggcac aaaacgcgcg
     2461 tctggtgaca ccgaaagtgg cgccagacat tgcccaggca atcgcgcgcg atttagccaa
     2521 agctggaggg aatatcaatc aaattgccaa gtggtgcaat acacaccaac acgacgttgc
     2581 tcctgatgat gctcaacgtt tgtccgaaaa cctaaaaatc atgcaaaagg agctacaaaa
     2641 gatatggcaa cagttaaagt aagtcgaacc acttcatgta gccgagcaat caattacgca
     2701 gaaccacgag caaccgtcaa aacaggaata aactgtgaca ttgattatgc caaaagtgaa
     2761 atgaaacaaa tacgtatgct ttacggaaaa gacgatcatg tacaagcaca cttattgatt
     2821 cagtcctttc gaccaggaga aattaccgcc gaaaaagcca accagctagg aaaagaatac
     2881 gctgaaaaaa tcgcaccaga acaccaaatc gcgatttata cgcacacgga caaagaccat
     2941 atccacaatc acattgtcat taattcggtc aatttagaaa caggaaaaaa gtttcaagca
     3001 catggtcaag cattcctaga taagtgttac gatatcaacg acgaaatttg tttgactcat
     3061 ggtttaagta tcactgaacg aggaaaaaaa gaagaaaaac gaactatgtc tgaaatcaaa
     3121 ctaaaagaaa aaaatgaacc tgtttggaaa gacgaaattc gctttgccat tgatcaaacc
     3181 atgaaaaatc caaaaaccag aacctatgac caattttgtg attccctcaa aatatttggg
     3241 attcattgct tcaatcgtgg gaaaaatttt acttacgaat taatcaaaaa aaagaaaaaa
     3301 gtacgatcca acaaattagg aaaggactat gaaaaggaga caattttaca tgagctggac
     3361 agacgagaac aaacctatta tcgagaacga gaacgagcct atcatagaca gcaagccgac
     3421 gagcttcgaa gagctcgaga aagcattcgg aaaattgctg gagaagtacg aagagaacaa
     3481 cgaactttta cgcctgaaca atcggaaatt agatcgactc gaagaaacca tgaacaacac
     3541 gttgaacgag gaacagacca ccaacaagaa ttatcgctct aaaacgttaa aagacataga
     3601 aaacgaaata aaaagacaac gtgcttttct tgcgccttat acccaagaaa ggatacaaac
     3661 tacaattgat tcacaagtca aaaaactcca ccaagcgcta ttagaccagc gaaaccaaga
     3721 acaaaaaaag gctttaattc aacgatcgat ggatattctt gcccccttat gttgcttagt
     3781 cctgacactg ttcgcatttt ggttagtatg gggaggctaa aatggcattt tatttaccct
     3841 atctactcat ttttgttagt atttcaggaa gtatttggct cagttgtaaa atttatcaaa
     3901 caagacattc attgaaaggc tctaaaattc gatttaagcg atttttattg cttggctgta
     3961 tattttcatt gataatcatt tcaagtggct tattcggcat tttagaggga aataagcgca
     4021 tttcaggaag tattttatta gaaaatgtca ctcaaaagta tgaagtagca cgtgataaaa
     4081 agaaaaaaga gcaagcatta gcacaaaaaa ttgaagaatt taccgcttgt tatgaaaaca
     4141 tgaatgatat ttttgtgaag caagaaaagc gattgacgga taaaaatatg gaaacactca
     4201 ctcgtcttta tcggaaattg ccagaaaaac agcaaaaaga gtaccaagaa aaatatgaac
     4261 aagtaaaaaa agacgtgcaa tatgtgaaag atacgcaaac agaagaagcg tgttatgact
     4321 tattcagtga tacaatccct ttttcaacta gcgaacaaga acgaaaagaa cgacaacaat
     4381 cagtcacata tgaacgctat gaaatcttgc ttcaaaaggc aactaacata caaaatccaa
     4441 cgaaaaaaga aacagcatta aattatctag aaagtgtcaa agaatggctg gatcagcaac
     4501 agcaaaattg aatttgattg aaactcatgt taaactaaat atgcaaatag gtaatcataa
     4561 gatacacgaa agtcctagag aagtcggatt ctctaggact ttttttgtag gctgatatcg
     4621 ccttagttga ttttacttct tgtttcggtt attcagccaa taactaaata aagagtttag
     4681 aagctcaaca agaagggcgc aaataaagtg ggtaatcata agatacacct ccttccagtc
     4741 gcaagactgt cggataggcg acaagttatt atatcttaaa aaattaaatc tgtgtggtgt
     4801 ttttaagtat cccttatttt agggttgtta gggcttgccc tgaccgcctg taaggcgctt
     4861 taggaactga taaggttttc ccctagaact gtctcaaaac ggtttagacg agggctcaga
     4921 gccccacaag gttctctttg aacaacggtt ttggcaaagg agcctttagg cgactgcgca
     4981 gtacaatgtg agagcatagc gatcacacct ttttagcgac cgtagggagc aagttttcca
     5041 gtttagaaaa attcgcgaac ctgtttgagt aaaaggtagt agttttttag gcgggaaatt
     5101 aaatgtgctc ttaagatata ctgttagata tactgttaga tatactgtta ataataactg
     5161 ttaggtatta gcaacctcat gggagagtaa gtattgacat aggtagtggg ggataaattg
     5221 tcacactatg ggggataaat tgtcacacta tgggggataa attgtcacac tatgggggat
     5281 aaattgtcac actatggggg ataaattgta ttttacatcc tcttatgtct atgataacat
     5341 aatttattga ggtgattttt attgagtaac gatatagttc gatataataa tggattaaat
     5401 tctgtccctt taagaaaatt tactcctata gatatggatt tattttgggg aatatgttct
     5461 aaaatgaaaa gaaaaggtac aaaagaagaa atttttacat ttaaacaaat aaaagaatta
     5521 attgattaca atataaatgc acgtggcgac cgttttgcta atgatttaat aaaaatgtca
     5581 aaaaaaatca ttactttgtc ttttatttat gaagacgaaa aaacatatga gcaattaaat
     5641 ctgtttcaaa aatttaaaat cgataaagtg aatgaaacat tattaataaa ggtttctgaa
     5701 gaatttgaat atatacttaa ttcaatcgga actaatttta ctcgtttcga attagaaaat
     5761 atgacaaact taaagagtag ctacgttaaa gagttatatc gccaacttat ggctcataaa
     5821 aacagaagat ctaaaaaagg tcactggttt gtaaaaatag aagattttag agctctatta
     5881 gcaataccag aaagttatcg catgagagat attgataaac aaatttttgc ccaagcgaaa
     5941 aaagaatttt taaacgttaa ttcaactcac cctgctattt ttaaaacttt tgaaatcaaa
     6001 aaaattaaag cctacaaagg aaataagata ggatctctgc aaatttattt tgaagaaaat
     6061 ataccttcaa ttaccttaga taattggtta gagaaa
//
