LOCUS       NZ_KY595970             6173 bp    DNA     circular CON 05-NOV-2023
DEFINITION  Enterococcus faecium strain VREfm87 plasmid pMIS006, complete
            sequence.
ACCESSION   NZ_KY595970
VERSION     NZ_KY595970.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14227880
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 6173)
  AUTHORS   Melegh,S., Nyul,A., Kovacs,K., Kovacs,T., Ghidan,A., Dombradi,Z.,
            Szabo,J., Berta,B., Lesinszki,V., Paszti,J., Toth,A. and Mestyan,G.
  TITLE     Dissemination of VanA-Type Enterococcus faecium Isolates in Hungary
  JOURNAL   Microb Drug Resist 24 (9), 1376-1390 (2018)
   PUBMED   29750597
REFERENCE   2  (bases 1 to 6173)
  AUTHORS   Melegh,S., Kovacs,K., Nyul,A. and Mestyan,G.
  TITLE     Direct Submission
  JOURNAL   Submitted (07-FEB-2017) Department for Medical Microbiology and
            Immunology, University of Pecs Clinical Centre, 12 Szigeti Street,
            Pecs 7624, Hungary
COMMENT     ##Assembly-Data-START##
            Assembly Method              :: SPAdes v. 3.8.1
            Sequencing Technology        :: Illumina
            ##Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider          :: NCBI RefSeq
            Annotation Date              :: 11/05/2023 12:52:25
            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)                :: 10
            CDSs (total)                 :: 10
            Genes (coding)               :: 10
            CDSs (with protein)          :: 10
            Genes (RNA)                  :: 0
            tRNAs                        :: 0
            ncRNAs                       :: 0
            Pseudo Genes (total)         :: 0
            CDSs (without protein)       :: 0
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            KY595970.1.
            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..6173
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="VREfm87"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pMIS006"
                     /geo_loc_name="Hungary"
                     /collection_date="2014"
     gene            complement(443..775)
                     /locus_tag="HTL90_RS00005"
     CDS             complement(443..775)
                     /locus_tag="HTL90_RS00005"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002363589.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="bacteriocin immunity protein"
                     /protein_id="WP_227986014.1"
                     /translation="MVHGHLEGSGREVIIMDFTKEEKLLNAISKVYNEATIDDYPDLKE
                     KLFLYSKEISEGKSVGEVSMKLSSFLGRYILKHKFGLPKSLIELQEIVSKESQVYRGWA
                     SIGIWS"
                     /name="bacteriocin immunity protein"
     gene            complement(750..974)
                     /locus_tag="HTL90_RS00010"
     CDS             complement(750..974)
                     /locus_tag="HTL90_RS00010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002363584.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="class II bacteriocin"
                     /protein_id="WP_002363584.1"
                     /translation="MKKKVLKHCVILGILGTCLAGIGTGIKVDAATYYGNGLYCNKEKC
                     WVDWNQAKGEIGKIIVNGWVNHGPWAPRR"
                     /name="class II bacteriocin"
     gene            complement(1429..1635)
                     /locus_tag="HTL90_RS00015"
     CDS             complement(1429..1635)
                     /locus_tag="HTL90_RS00015"
                     /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="hypothetical protein"
                     /protein_id="WP_123061375.1"
                     /translation="MVAAMEMKKEILMTKKHLLFGSILLGILSFSPMLLSVANKGNKKG
                     ELKLNPNYYNSQNEEVFVEKLDK"
                     /name="hypothetical protein"
     gene            complement(1614..2147)
                     /locus_tag="HTL90_RS00020"
     CDS             complement(1614..2147)
                     /locus_tag="HTL90_RS00020"
                     /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_002363576.1"
                     /translation="MQPQETFTIKELSDLFKMSRQAISKHIQKLDSSMIAKNERGYKVV
                     LRSGVLQLARNLDNQRLLDKLHKHEQNNDKNAYIPNKNVVANKLLDQLREENEFLREQL
                     ALKEQNNSHIQKLLDQQQQLTLQANQQIEKLQEQLQLTYTEESSENSSTTLSEATETMD
                     EQTKNWKKWWQLWK"
                     /name="DUF536 domain-containing protein"
     gene            complement(2168..3112)
                     /locus_tag="HTL90_RS00025"
     CDS             complement(2168..3112)
                     /locus_tag="HTL90_RS00025"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002303559.1"
                     /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_002303559.1"
                     /translation="MANEIVKYHHELNTIPLRKFTPVEMNLFFSIVSRMREKGDKTVRF
                     TFDQLKDLSNYKATANVRFVEDLKATYEKILSLRFGRRSESGLSYDMFVMFTEFKINGD
                     VENPYVDIRIYEKALPLLNNLDEWVRYSLQQFNELQSGYAKTMFRLLKQYRTKGFAYFS
                     KEDFLELLDIPKSYKQPDIDKRVIKPIRQELTAIFKGLTIKKKYGKGRGKPVIGYQFTF
                     KPEIKKADDFNKHAPTKEDQNKALALADKQKEYEEPATTINEKIKQKKRELELLQQIKQ
                     LEKEKKALEKQTESALSEKEKKSLLSDLDNLFQ"
                     /name="replication initiation protein"
     gene            3749..3835
                     /locus_tag="HTL90_RS00030"
     CDS             3749..3835
                     /locus_tag="HTL90_RS00030"
                     /inference="COORDINATES: protein motif:HMM:NF033608.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type I toxin-antitoxin system Fst family toxin"
                     /protein_id="WP_106914087.1"
                     /translation="MFELFICPLLIEVCVSLFSYWLNNRNKK"
                     /name="type I toxin-antitoxin system Fst family toxin"
     gene            complement(3956..4645)
                     /locus_tag="HTL90_RS00035"
     CDS             complement(3956..4645)
                     /locus_tag="HTL90_RS00035"
                     /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_002369882.1"
                     /translation="MAFYLPYLLIFASILGIIWLSYKAYQTRYSLKGSKIRFKRFLLPG
                     VIFTLSIVLSGLFGVLEGNKRISRSILLGDITQKYEAACDKKKKEQVLTQKMEEFTTCY
                     EEMNDIFVNQEKRLTDKNMEKLTRLYQNLPEKQQKEVQDNYERTKKDVQYFKDTQTEEA
                     CYNLFSDTIPFSTSEQERKERQQSVTYERYKALLQQATNIQNPTKKETALNYLKSVKEW
                     LDQQQQN"
                     /name="hypothetical protein"
     gene            complement(4652..4930)
                     /locus_tag="HTL90_RS00040"
     CDS             complement(4652..4930)
                     /locus_tag="HTL90_RS00040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002354385.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002369881.1"
                     /translation="MKEEQTTNKNYRSKTLQDIENEIKKQRAFLAPYTKERIQTTIDSQ
                     VKKFHHALLNQRNKEQKKVIMQRSMDILAPLCCLIMTLLAFWLVWGE"
                     /name="hypothetical protein"
     gene            complement(4890..5804)
                     /locus_tag="HTL90_RS00045"
     CDS             complement(4890..5804)
                     /locus_tag="HTL90_RS00045"
                     /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_010782659.1"
                     /translation="MATVKVSRTTSCSRAINYAEPRATVKTGINCDIDYAKSEMKQIRM
                     LYGKDDRVQAHLLIQSFRPGEITAEKANQLGAEYAKKIAPDHQIAIYTHTDKDHIHNHI
                     VINSVNLETGNKFQAHGQAFLNKCYDLNDEICLEHDLTITERGKKPEKRTMSEIKLKEK
                     NEPVWKDEIRFAIDQTMKNKKTRTYNQFCDSLKTFGIHCLNRGKNFTYELIHKKKKVRS
                     NKLGKDYEKETILHELDRRERAYNQQRTNELRRARASIRETAKEVRREQRTLTTEQPEI
                     RPTRRNHDQHVERGADYQQELSF"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(5786..6166)
                     /locus_tag="HTL90_RS00050"
     CDS             complement(5786..6166)
                     /locus_tag="HTL90_RS00050"
                     /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_010782660.1"
                     /translation="MSEQNQYLASNHSKKYTYRSEPKQISFRVSESEFAKLKQSAEALQ
                     MSVPAFVKAKAQNARLVTPKVAPDIAQAIARDLAKAGGNINQIAKWCNTHQHDVDPGDA
                     QRLSENLKIMQKELQKIWQQLK"
                     /name="MobC family plasmid mobilization relaxosome protein"
     BGC             1..5974
                     /name="RiPP-like"
                     /gene="RiPP-like"
                     /tool="antismash"
     Typing          complement(2169..3112)
                     /name="rep_cluster_1197"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(4894..5804)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.421"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 accctttcag tacgtcctac ggacgtatcg ttcgcaatac cattgtacct aaaaaggtac
       61 aataagtaaa gctcactaaa gctcactaaa gggcttggca agctctatat ttgctagcca
      121 aatacctacg tatttggtgc aaataaccgc ttgtcaaagg ggcgcaagct cccccttgaa
      181 tccccctccc ccccactctc cacaatacaa aaaagactag caaatgctag ccactttttg
      241 taaagtttcg cttgtttcac cttcggtgaa attgttgcaa atcaataatt aggtagagct
      301 acattttttt cgttgttcaa agattcttat gccatttact attaataaat ctataaatat
      361 gataattttt cggctctata atttatggga ctgatgaatc agaattgatt cttcagtccc
      421 attttcattt tattccaaag aattaactcc aaataccaat agaagcccat cctctatata
      481 cttgagattc cttactaaca atttcttgta attctattaa agatttaggt aatccaaatt
      541 tatgttttaa aatatatctt ccaagaaaac tacttaattt catactaact tcaccaacac
      601 tttttccctc actgatttct ttagaataaa gaaagagctt ttcttttaag tcaggatagt
      661 catctatagt tgcttcattg tatactttac taattgcatt taaaagtttt tcttctttag
      721 taaaatccat tataataacc tccctaccac taccttctag gtgcccatgg accatgatta
      781 acccaaccat taacaataat ttttccaatt tctcctttag cttgattcca atctacccaa
      841 catttttctt tgttacaata aagaccattt ccatagtaag tagctgcatc aacttttatt
      901 cctgtaccga tgccagctag acaagttcct aatattccta gaataacaca atgttttaat
      961 actttctttt tcatgattgt ttttcctttt cgttttttta aaattgcttg ttatattaaa
     1021 taatcttagt aattttatta tataacattt tattatataa caatgattaa cgtcataaaa
     1081 agtagttttg aattcataat cgtttaaata aaattataag atcagttatt taaacagcta
     1141 gtagacataa tgtgtatact accaagtaac gcctgtacca agggatccag gcgctgattt
     1201 tgtgaatttt tattggtcta ggttaaaagc tctttttaag gcttggtttt ctgcggttgt
     1261 ttctttctaa ttctttgtga atattgatcg gtcatttttt aaatacttgt tatttttgtt
     1321 tgtgtttgtt atgcttttta catatctcat attcatttat tattcttttc taaggttaat
     1381 aataggataa tctctttcag aaagactgct cgtacgagca gtcttttctt atttatcaag
     1441 tttttctaca aatacttcct cattttgact gttgtagtaa ttaggattga gttttagttc
     1501 ccctttttta tttcctttgt tggccactga taataacatt gggctaaagc ttaatattcc
     1561 tagtaggata gaaccgaata gcaagtgttt ttttgtcata agtatttcct tcttcatttc
     1621 catagctgcc accatttttt ccaattcttt gtttgttcgt ccattgtttc tgttgcttca
     1681 gaaagagtcg ttgaactatt ctctgaagac tcttccgtat aagtcaactg cagttgctcc
     1741 tgaagttttt cgatttgttg gttggcttgc agggtgagtt gttgttgctg gtcgagtagt
     1801 ttttgtatat gagaattatt ttgctctttg agggcaagtt gttctcgtaa aaattcattt
     1861 tcttcacgca actgatctag caacttgttt gcaaccacgt ttttgtttgg tatataagca
     1921 tttttatcgt tgttttgttc atgtttatgc aacttatcta gcaacctttg attgtctaag
     1981 ttgcgagcaa gttgcaatac tccagaacgc aatacaacct tataaccacg ctcattttta
     2041 gctatcatgg aagaatctaa tttttggata tgtttcgata ttgcttgcct actcatctta
     2101 aaaagatctg acaattcctt tattgtaaag gtttcttgtg gttgcatact ggttgcctcc
     2161 taggttgcta ctggaataaa ttatctaaat cagataataa actttttttc tctttttccg
     2221 aaagtgcgga ctctgtttgt ttttcaagag cttttttctc tttttctagt tgtttgattt
     2281 gttggaggag ttcaagttct cgtttcttct gtttgatttt ttcgttaatt gttgtagcgg
     2341 gttcttcgta ttctttttgt ttatcagcta aagccaatgc tttattttgg tcttctttgg
     2401 ttggtgcatg tttgttaaag tcgtctgctt ttttgatctc aggtttgaac gtaaattgat
     2461 agccaataac aggttttccc cgtccttttc cgtatttctt tttgattgtt agtcctttga
     2521 agattgcagt tagttcttga cgtataggtt ttataactcg tttatctata tcaggttgct
     2581 tataactttt aggaatatct aataattcaa gaaagtcttc tttggagaaa tatgcgaaac
     2641 ctttggttct gtattgcttt aacagacgaa acatagtctt tgcatagcca ctttgtagct
     2701 cgttgaattg ttgtaaagaa tagcgtaccc actcgtctaa attatttaac aaaggcagtg
     2761 ctttttcgta aattcgtata tctacgtaag gattttctac gtccccgttg attttaaatt
     2821 ctgtaaacat tacaaacata tcgtaagaaa gcccagactc acttctacga ccaaagcgta
     2881 aagataagat tttttcataa gttgctttta aatcttctac aaatcgtaca tttgcagttg
     2941 ctttgtagtt acttaaatct tttagttggt caaacgtaaa acgaactgtc ttatcccctt
     3001 tttcacgcat tctagacacg atggaaaaaa acaaattcat ttcaaccggt gtaaattttc
     3061 ttaaaggaat tgtatttaat tcatggtggt attttacaat ctcattagcc atataatcac
     3121 ctcaatccaa ttatgaatga cattttttaa atgtcaagac attcatattt gacgttcaaa
     3181 cagacaaaat gtccttcata aacagacaaa atgtccttca taaacagaca aaatgtcctt
     3241 cataaacaga caaaatgtcc ttcataacat tctgtatcca ttggtagagt aaggacacag
     3301 cttacggtaa agaggtttaa aaagaggttt aaaaagagat ataaaaagag gggggctaat
     3361 tttcccgcct aaaaaccact tcttttttct ttaaacaggt tcgcgcattt ttcaaaactg
     3421 ccaatccaaa accttgcttc ctacggtcgc caaaaaggtg tgatcgctac gctctcacat
     3481 tgtactgcgc agtcgcctaa aggctccttt gctaaaaaca tgttggtaaa gaggcctttg
     3541 agcggttctg aatgcttatc taagccgttt taagacagtc ttggataaaa atccttatct
     3601 agctttaaag cgccttacag gcggtcaggg caagccctaa caaccctaaa ataagcgata
     3661 cttaaaaaca ccacacaagt ttaatttttt aagatataat aacttgtcgc ctatccgaca
     3721 gtcttgcgac tggaaggagg tgtatctaat gtttgaattg ttcatttgcc cccttcttat
     3781 agaagtttgt gtctctttat tcagttattg gttgaataac cgaaacaaga agtaaaatca
     3841 ataaaggcga catcaacctg aaaaaaagcc ccagagaatc cgacctctct ggggctttcg
     3901 tgtatctaat gtttgatcat ttgcatgttt agtttaacat gattgccgat caaattcaat
     3961 tttgctgttg ctgatctaac cattccttga cactttttag ataatttaat gccgtttctt
     4021 ttttcgttgg attttgtatg ttcgttgctt gctgaagcag tgctttataa cgttcgtagg
     4081 taactgattg ttgccgttct tttcgttcct gttcactagt tgaaaaaggg attgtatcac
     4141 tgaataaatt ataacaagct tcttctgtct gcgtatcttt aaaatattgc acgtcttttt
     4201 tggttcgctc atagttgtct tgaacctctt tttgctgttt ttctggcaag ttttgataaa
     4261 gacgagtgag tttttccatg tttttatccg tcaaacgttt ttcttgattc acaaaaatat
     4321 cgttcatttc ctcataacaa gtggtaaact cttccatttt ttgtgttaac acttgctcct
     4381 ttttcttttt atcacatgct gcttcatact tttgagtgat atcccctaat aaaatacttc
     4441 ttgaaatacg tttatttccc tctaaaacgc cgaataaacc acttaaaacg attgataatg
     4501 taaatataac ccctggcaat aaaaacctct taaatcgaat tttagagcct tttaatgaat
     4561 atcttgtttg ataagcctta tagctaagcc aaataattcc taaaatactg gcaaaaatga
     4621 gtagataggg taaatagaat gccatttcta tttattctcc ccataccagc caaaaggcta
     4681 acagtgtcat gattaagcaa cataaggggg caagaatatc cattgatcgc tgcataatta
     4741 cttttttctg ttctttattt cgctggttta atagcgcatg gtggaatttt ttgacttgtg
     4801 aatcaattgt agtttgtatt ctttctttgg tataaggtgc aagaaaagca cgttgtttct
     4861 ttatttcatt ttctatgtct tgtaacgttt tagaacgata attcttgttg gtagtctgct
     4921 cctctttcaa cgtgttggtc atggtttctt cgagtcggtc taatttccgg ttgttcagtc
     4981 gtaagagttc gttgttctct tcgtacttct tttgcagttt cgcgaatgct agctcgagct
     5041 cttcgtagct cgttggttcg ttgttgattg taggctcgtt ctcgtctgtc cagctcatgt
     5101 aaaatcgtct ccttttcgta atcctttcct agtttgttgg atcgtacttt tttctttttg
     5161 tggatcaatt cgtaagtaaa atttttccca cgattcaagc aatgaatgcc gaatgtttta
     5221 agagaatcac aaaattggtt atacgttcga gtttttttgt ttttcattgt ttgatcaatc
     5281 gcaaaccgaa tttcgtcttt ccaaacaggt tcattttttt cttttaattt gatttcagac
     5341 atggttcgtt tttcgggttt cttccctcgt tcagtgattg ttaagtcatg ttcaagacaa
     5401 atctcgtcat ttaggtcata acatttgttt aaaaatgctt gaccatgggc ttgaaatttg
     5461 ttcccagttt ccagattgac ggagttaatg acaatgtggt tatgaatatg gtctttgtct
     5521 gtatgtgtgt aaatcgcgat ttggtggtca ggggctattt ttttcgcata ctctgcccct
     5581 agttgattgg ctttttcagc ggtaatttct cctggtcgaa aagactggat caataagtgt
     5641 gcttgtacac gatcgtcttt tccatacagc atgcgaattt gtttcatttc gcttttggca
     5701 taatcaatgt cacagtttat ccctgttttg acggttgctc gtggttcggc gtaattgatc
     5761 gctcggctac aagaagtggt tcggcttact ttaactgttg ccatatcttt tgtagctcct
     5821 tttgcatgat ttttaggttt tcggataagc gttgggcgtc gccaggatca acgtcgtgtt
     5881 ggtgtgtgtt gcaccacttg gcaatttgat tgatattccc gccagctttg gctaaatcgc
     5941 gcgcgattgc ctgagcaatg tctggcgcca ctttcggtgt caccagacgc gcgttttgtg
     6001 ccttggcttt cacgaaagcc ggcacactca tttgcaaagc ttcagctgac tgcttcagct
     6061 ttgcaaattc ggattcgctc actcgaaaac tgatttgttt tggctcggat cgataggtat
     6121 attttttaga atgattgcta gccaaatatt gattttgttc gctcataagt ccc
//
