LOCUS       CP063585                5946 bp    DNA     circular BCT 04-APR-2022
DEFINITION  Enterococcus faecium strain BMT-4-1-11 plasmid pRL-1-11_06, complete
            sequence.
ACCESSION   CP063585
VERSION     CP063585.1
DBLINK      BioProject: PRJNA669626
            BioSample: SAMN16483160
KEYWORDS    .
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 5946)
  AUTHORS   Both,A., Kruse,F., Mirwald,N., Franke,G., Christner,M., Huang,J.,
            Hansen,J.L., Kroger,N., Berneking,L., Lellek,H., Aepfelbacher,M. and
            Rohde,H.
  TITLE     Population dynamics in colonizing vancomycin-resistant Enterococcus
            faecium isolated from immunosuppressed patients
  JOURNAL   J Glob Antimicrob Resist 28, 267-273 (2022)
   PUBMED   35134550
REFERENCE   2  (bases 1 to 5946)
  AUTHORS   Both,A., Kruse,F., Christner,M., Huang,J., Mirwald,N., Franke,G. and
            Rohde,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (20-OCT-2020) Institute of Medical Microbiology, Virology
            and Hygiene, University Medical Center Hamburg-Eppendorf,
            Martinistr. 52, Hamburg, Hamburg 20246, Germany
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Trycycler v. v0.3.3
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 377.3x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 10/27/2020 16:29:53
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 4.13
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 3,116
            CDSs (total)                      :: 3,026
            Genes (coding)                    :: 2,892
            CDSs (with protein)               :: 2,892
            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)              :: 134
            CDSs (without protein)            :: 134
            Pseudo Genes (ambiguous residues) :: 0 of 134
            Pseudo Genes (frameshifted)       :: 54 of 134
            Pseudo Genes (incomplete)         :: 70 of 134
            Pseudo Genes (internal stop)      :: 28 of 134
            Pseudo Genes (multiple problems)  :: 17 of 134
            ##Genome-Annotation-Data-END##
            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/
FEATURES             Location/Qualifiers
     source          1..5946
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="BMT-4-1-11"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pRL-1-11_06"
                     /geo_loc_name="Germany: Hamburg"
                     /lat_lon="53.33 N 10.1 E"
                     /collection_date="2015-01-07"
                     /collected_by="Institute of Medical Microbiology, Virology
                     and Hygiene, University Medical Center Hamburg-Eppendorf"
     gene            1..969
                     /locus_tag="IQN12_15555"
     CDS             1..969
                     /locus_tag="IQN12_15555"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002347614.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="UOE09058.1"
                     /translation="MSNEIVKYHHELNTIPLRKFTPVEMNLFFSIVSRMRDVGDKKVQF
                     TFEQLKDLSNYKATANVRFIDDLETTYDKLMDLRFGRRSADGLQRERFVLFNQFKIDGK
                     SDIPFAEIQVHEKALPLLNNLEEWVRYSLQQFNELESSYSKTMFRLLKQYRTKGFAYFS
                     KEDFHELLDIPKSYNQGTIDQRVFNPIRQELTAIFKGLTIKKKYGKGRGKPVIGYQFTF
                     KPEIKKSDDFNKHAPTKEEQNKALELANQQVQSEKAPTSLQEKIKEQKRKLELLQQLEK
                     LEREQNTQNKENNAQKSEINSDIPSELKKDLLDNLQNLFKD"
                     /name="replication initiation protein"
     gene            986..1510
                     /locus_tag="IQN12_15560"
     CDS             986..1510
                     /locus_tag="IQN12_15560"
                     /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="UOE09059.1"
                     /translation="MTEKTIKELAEELGVSKTAINKKVSDENRKLWFSKIGNKFVINET
                     GQKAIKSMFFNENENSNQQLVGEKTKTENHKNANQVPELEVLSLLEQQLNQKDMQLQEK
                     DEQIKQMQKLLDHQQQLTLQANQQIEKLQEQLQLTYTEESSENKSTTLSEETESIEKQS
                     KAEKKWWQFWQ"
                     /name="DUF536 domain-containing protein"
     gene            1886..2167
                     /locus_tag="IQN12_15565"
     CDS             1886..2167
                     /locus_tag="IQN12_15565"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002337999.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="UOE09060.1"
                     /translation="MDILVRNINPKIIARIDKRCQELTTKTGKKWSRNKYLKVLIESDF
                     DRQLMNYKKDQFDLLLEKFIAIQTENTNILNDYVHTNNQLIETLIGGI"
                     /name="hypothetical protein"
     gene            2169..2585
                     /locus_tag="IQN12_15570"
     CDS             2169..2585
                     /locus_tag="IQN12_15570"
                     /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="UOE09061.1"
                     /translation="MRKTSVQKHVTLYPSHVDVLDSIIEKNPDVNNYSEAIRFLCMSYE
                     PDTNTTTTSNQAKLNAMGKEISIMTEIMAEFADLYLKDTGVLIGTNSKVYQEVKEKIEN
                     QLNPSRRNQPKNRQKETNQTFTSGNFDPTNFLKR"
                     /name="hypothetical protein"
     gene            3207..4361
                     /locus_tag="IQN12_15575"
     CDS             3207..4361
                     /locus_tag="IQN12_15575"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002348970.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="peptidase C47"
                     /protein_id="UOE09057.1"
                     /translation="MIILKPKKKIYLGLLFSLMIGIFSIGITNTYASENSNFNINSQPI
                     EEQAINFAKTDFEHSITSILLMENNTETDINYTLGSPFKMLDGENTANSSIFFPVFSDA
                     DNTIKYIYTVKKNTNGEYSGSISQFLAKELQNLVDSNITDTTLFFQDNSIYYSDNGQIK
                     LLWKSPLSTEKNGVSSFTEKNDLISVNIKNKIKNFSKKQNFPAVKRVKSVSSGDNFIMI
                     NWRIAETQTSFPWCAAYVEAAILCNKTDVRATSARAIMHYTYPNLNNSQIESKSLNQDQ
                     IIKYANYCGVYPKKVARILNLSEVQTQLRKGNAIYMGTAGYGNYSNSRHALALFGWVNQ
                     GGYQTYYVWNPWYNYPTVISANAGPVTIPVPGGGFTWDNTITNW"
                     /name="peptidase C47"
     gene            4355..4777
                     /locus_tag="IQN12_15580"
     CDS             4355..4777
                     /locus_tag="IQN12_15580"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002348709.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="UOE09062.1"
                     /translation="MVNKPIALVMGLVLVLFLTSCSKKQEIQKTDLIPFLGTWQTKDHS
                     ERLVITNLNTSKNIEQYTILVKENNHKIQIIDKNLNINEQVFIYKATNNLLTLRSNKKQ
                     LDYTFSLDSPKKLVFILTTNDGTEGTAKPIEFFKAD"
                     /name="hypothetical protein"
     Typing          2..965
                     /name="rep_cluster_1093"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.782"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 atgtctaatg aaatcgtaaa gtatcatcat gaattaaata caattccgtt gcgaaaattt
       61 acaccagtcg aaatgaattt gttcttttct atcgtatcaa gaatgcgtga tgtaggtgat
      121 aaaaaagtac aatttacatt cgagcaatta aaagatttaa gcaattataa agcaactgca
      181 aatgttcgat tcatagatga tttagaaaca acgtatgaca aattaatgga tttacgtttt
      241 ggtagaagaa gtgctgacgg tttgcaacgt gaacgttttg ttttatttaa tcaatttaaa
      301 atcgacggaa aatctgatat tccttttgct gaaatacaag ttcatgaaaa agccttaccc
      361 ttacttaata atcttgaaga atgggtgcgc tattctctcc aacaattcaa tgaattagaa
      421 agcagttatt caaaaacaat gtttcgatta ctaaaacaat acagaaccaa aggtttcgct
      481 tatttttcaa aagaagactt tcatgaatta cttgatattc ctaaaagtta caaccaaggt
      541 acgattgatc aacgtgtgtt caatccaata cgacaagaac taaccgcaat ctttaaaggt
      601 ttaacaatca aaaagaaata cggaaaagga cggggaaagc ctgtcattgg ctatcaattt
      661 acatttaaac ctgagataaa aaaatcagac gactttaaca aacatgcccc aacaaaagaa
      721 gaacaaaaca aagcattaga actagctaac caacaagttc aatctgaaaa agcacctact
      781 tcattacaag aaaaaatcaa agaacaaaag cgaaaattgg aacttttaca acagttagaa
      841 aagttagaaa gagaacaaaa tacccaaaat aaagaaaata atgcacaaaa atcagagata
      901 aattccgata ttccttcaga actaaaaaaa gacttattag acaatcttca aaacttattc
      961 aaagattgag gggtttttag attttatgac agaaaaaaca atcaaagaac ttgctgaaga
     1021 attaggagtt agtaaaacag caattaacaa aaaagtttct gacgaaaatc gaaaactttg
     1081 gttttcgaaa atcggaaaca agtttgtgat taatgaaacc ggacaaaagg ctataaaatc
     1141 aatgtttttt aacgaaaacg aaaactcaaa tcaacaacta gttggcgaaa aaacgaaaac
     1201 cgaaaaccac aaaaacgcca accaagttcc cgaattagaa gtcctttctc tcctagaaca
     1261 acagttaaat caaaaagata tgcaactaca agaaaaagac gagcaaataa aacaaatgca
     1321 aaaattactc gaccaccaac aacaactcac cctgcaagcc aaccaacaaa tcgagaaact
     1381 gcaggaacaa ctacagttga cttatacgga agaatcttcg gaaaataaat caacgactct
     1441 ttctgaagaa acagaatcga tagaaaaaca atcaaaggcg gagaaaaaat ggtggcaatt
     1501 ctggcaataa aaccagcaat ttaaattaat aaaaattgct ggttttattc ttctttttgc
     1561 ttttgcgagc agagcaacat ggacccatgt tgcgatattt tggtggcgcc ccaatccccg
     1621 ttttttcgtt gaatcttact cggactgcac tcgttttaca gctgattttt ctgaattttg
     1681 aaagagcata aggaaacgtg gtatcacttt cttacgaaag gtgctagata ggctgtgcct
     1741 atcacgtttc tcagaaaaaa atttgctatc acttttttgc cattgtggct aggctatgta
     1801 tagtgttttg gcgaaaaata gctatacaaa tactatattt gtatggtata cataaattat
     1861 acgctgatac gaaaggaaaa tttccatgga cattttagtt cgaaatatca atcccaaaat
     1921 tattgcaaga atagataaac gttgtcagga actcacaacc aaaacgggca aaaaatggag
     1981 tcgaaataaa tatctaaaag ttctaatcga aagtgatttt gaccgtcaac ttatgaatta
     2041 caaaaaagat caattcgatt tattactcga aaaatttatt gccattcaaa cagaaaatac
     2101 gaacatactg aatgactatg ttcacacaaa caaccaactc attgaaacac ttatcggagg
     2161 aatataacat gagaaaaact tctgttcaaa aacacgtaac cctttatccc agtcacgttg
     2221 acgttttaga ttccatcatc gaaaaaaatc cagacgtcaa caattattca gaagccattc
     2281 gttttttatg tatgagttat gaacctgata ccaatacaac cacaaccagt aaccaagcaa
     2341 aactcaatgc catgggaaaa gaaatttcta tcatgacaga aatcatggca gaatttgctg
     2401 atttatatct aaaagatact ggtgttctta tcggtacaaa ttctaaagtg tatcaagaag
     2461 tgaaagaaaa aattgaaaat caactcaatc cttcccgacg aaatcaaccc aaaaatcgtc
     2521 aaaaagaaac caatcaaacc tttacttctg gaaattttga cccaacaaac tttctaaaaa
     2581 gataaaaaaa gaaaccgatc cctaaaaaaa ttcctcgatt tctttttagg gatcagtctt
     2641 ccagcaagat ttgcaagttg gtaccaactt gcgaaaaaaa agaaaaatcc gcttatgcaa
     2701 cttcttcttt ttgtattttg aggcgctacc ccaatcccca agtatcggtt atttaatagc
     2761 gcggaaatcc aaagaatagg acgtaccctg aaacaaaaaa agactgctct cacgagcagc
     2821 ccaaaatgag attatcctat tcatcaacat aaaaatatta caaagtgaag aactagagaa
     2881 agacaaaaaa agcatatcaa atcctctcaa aaataacaag tctttaaaaa atgacagata
     2941 aaaatgcaca aagaactaaa aaagagaaat cgcgtaaaat caagcattag aagctagtaa
     3001 ctagctagac caattaaaaa tcacaaagtg agcgtctcta tccattggta gaggggctac
     3061 ttggcatagt gtacattatg ttaactaacg ctataaataa cgattatgtt cccaaaacaa
     3121 tattttatga actataacaa aaatttgtta tcgcatattg tatattttaa ttataggtgt
     3181 ataccactta aatttaacac aaaggcgtga ttattttgaa acccaaaaag aaaatttatc
     3241 taggtctcct cttttccttg atgattggaa tttttagtat aggaattaca aatacctatg
     3301 cttcagaaaa ttctaatttc aatatcaact cccaaccaat tgaagaacaa gcaattaatt
     3361 ttgcgaaaac tgattttgaa cactccataa cttcaattct tttaatggaa aataacaccg
     3421 aaactgatat taactatact cttggttcgc catttaaaat gctcgatgga gaaaatacgg
     3481 caaatagttc tattttcttt ccagtatttt cagacgctga taatacgatt aaatatattt
     3541 ataccgtcaa aaaaaataca aatggagaat attcaggaag tatttcacaa tttttagcaa
     3601 aagaacttca aaatctagta gatagtaata taacagatac aaccttattt tttcaagata
     3661 atagcattta ttattccgat aatggacaaa ttaaactact ttggaaatca cctttaagta
     3721 cagaaaaaaa tggtgtttct tcctttacag aaaaaaatga tcttatatcc gtaaatataa
     3781 aaaataaaat taaaaatttc tctaaaaaac aaaattttcc tgcggttaaa cgtgtaaaaa
     3841 gtgtctcctc cggagataac tttattatga ttaattggcg tatagcagaa acccaaacaa
     3901 gttttccgtg gtgtgctgct tacgtagaag ctgctatctt atgtaacaaa acagatgtac
     3961 gtgctacttc agctagagcc attatgcatt atacctatcc taatttaaac aacagtcaaa
     4021 ttgaatcaaa aagtcttaat caagatcaaa taataaaata tgcaaattac tgtggtgttt
     4081 atcctaaaaa agtagcacga atactaaacc tttcagaggt ccaaacacaa ctaagaaaag
     4141 gaaatgccat ttatatggga actgctggtt atggaaatta tagtaacagc cgtcatgcac
     4201 ttgcattatt tgggtgggtc aatcaaggtg gttatcaaac ttactatgtg tggaatcctt
     4261 ggtataacta cccaactgta ataagtgcaa atgcaggacc agttacaatt cctgtacctg
     4321 gaggtggttt tacttgggac aataccatta caaattggta aataaaccca ttgctttagt
     4381 tatgggtcta gtgttagttc ttttcttaac tagttgttca aaaaaacaag aaatacaaaa
     4441 gactgatctg attccttttc taggaacttg gcaaactaaa gatcattcag aacgtctagt
     4501 aatcactaat ttaaatactt caaaaaatat agaacaatat accatcttag taaaagagaa
     4561 caatcataaa attcaaatca ttgataaaaa tttaaatata aatgaacaag ttttcattta
     4621 caaagcaaca aataatttac taacactgcg ctctaataaa aaacaattag attacacttt
     4681 tagtttggat tctccaaaaa agctcgtatt tattttgaca acgaatgatg ggacagaagg
     4741 gacagctaaa ccaattgaat tttttaaagc tgattgatga atagttgttt gatattacaa
     4801 aacaataatt tcaccgaagg tgaaacaagc gaaactttac aaaaagtggc tagcatttgc
     4861 tagccttttt tgtattgtgg agcgtgggtt ttgaggggga ttcaaggggg agcttgcgcc
     4921 cctttgacaa gcggttattt gcaccaaata cgtaggtatt tggctagcaa atatagagct
     4981 tgccaaacac tttagtgagt tttgtagaaa gtacctttaa aggtactttc acattacgaa
     5041 cgatacgtcc gtaggacgta ctgaaagggt gggatttatg agcgaactaa tgcaaaattt
     5101 ggctagcaaa aaaagttaaa aaatatatgc taataatcga gcgaaatgaa cactttttca
     5161 agtgagcgaa tccgccatga caaagctgaa gcagtttatt tcagctttgt catggcgtgt
     5221 gcctagactt ttaaaaaagt cggcacacga gcaaatatct ttatcaagct ctaatttgcg
     5281 ttttaagacg tttgaaacgt ctaagtatat aaatatataa gagtaggttt aagagtgctt
     5341 aaatcgaatt ttagagggca ttcagacaac tttagggttg ttagggcttg ccctgaccgc
     5401 ctgtaaggcg ctttaagaac aagataaggg atttatacta agactgtctt aaaacgtctc
     5461 aaacgaaggc tcatagcttc tcaaagagtt ccttatgaac atttttagca aaggagccgg
     5521 aagcgactgc gcagtataat gtgagagcag agcgatcaca cctttttaag cgactgtagg
     5581 gagtaagatt cccagttgag aaaaatgcgc gaatctgttt ggagaaaaaa gaagtggttt
     5641 tttaggcggg aaattttgtc cccctctttt ataatctctt tttaaacctc tttttaaacc
     5701 tctttaccgt cggctatatc cttactctcc caagggaatg acgcttttat ctacatcgtt
     5761 ttgtctgttt atctacatcg ttttgtctgt ttatctacat cgttttgtct gtttatctac
     5821 atcgttttgt ctgtttgtac attgaattag tacatcgacg atgttaatat aagatgtaga
     5881 taaacaggca ttttgtattt cataacgtgt atctcttgtg cgagtaagaa aggagctatt
     5941 ttaaat
//
