LOCUS       CP063625                2189 bp    DNA     circular BCT 04-APR-2022
DEFINITION  Enterococcus faecium strain BMT-4-1-3 plasmid pRL-1-3_07, complete
            sequence.
ACCESSION   CP063625
VERSION     CP063625.1
DBLINK      BioProject: PRJNA669626
            BioSample: SAMN16483153
KEYWORDS    .
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 2189)
  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 2189)
  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                   :: Unicycler v. v0.4.7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 65.1x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 10/27/2020 18:03:42
            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)                     :: 3,126
            CDSs (total)                      :: 3,033
            Genes (coding)                    :: 2,935
            CDSs (with protein)               :: 2,935
            Genes (RNA)                       :: 93
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 71
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 98
            CDSs (without protein)            :: 98
            Pseudo Genes (ambiguous residues) :: 0 of 98
            Pseudo Genes (frameshifted)       :: 34 of 98
            Pseudo Genes (incomplete)         :: 58 of 98
            Pseudo Genes (internal stop)      :: 17 of 98
            Pseudo Genes (multiple problems)  :: 10 of 98
            ##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..2189
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="BMT-4-1-3"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pRL-1-3_07"
                     /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            complement(404..607)
                     /locus_tag="IQN05_15625"
     CDS             complement(404..607)
                     /locus_tag="IQN05_15625"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002352749.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="UOC54450.1"
                     /translation="MSQLGKCYSLSKSNRKVYTLFISDSAKEGFTLGFSISFKKGTKNT
                     SISHNNRELTDSQKINGLSGRK"
                     /name="hypothetical protein"
     gene            complement(1066..2031)
                     /locus_tag="IQN05_15630"
     CDS             complement(1066..2031)
                     /locus_tag="IQN05_15630"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002305972.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication protein"
                     /protein_id="UOC54449.1"
                     /translation="MSKRGTIINEWENLTALSNRRLSVQTLTTPLKIQWSIDRITIVGK
                     LKENIYYHTQNDVLILDFEQLMRLNENNGYVKSVGLNGWQIVDKHDENIAYIEILKYQE
                     GQGRIDFNPNKISQFLAGSMKNFIHDLFLEPHFSRADIACDIIDVPDDFITQYRVVDPV
                     SFKPIYGRSGKLETAYWGSRASERQIRMYNKKLEQETKRKIVPPEIKTWWRLELQLRRG
                     KATDWYAMVHESLDSFASPHFLPTDTKHTDRIMIAGLISDQNLWAGLARHTKYKYRNLL
                     KKESQSDELVNHLRETFSESADVLKKELDTWLLGLDVTEE"
                     /name="replication protein"
     Typing          complement(1070..1953)
                     /name="rep_cluster_943"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.588"
                     /coverage="98.0"
                     /evalue="0.0"
ORIGIN
        1 atagtcgaga gtgttagcgc actgctcggc ttttattttg ctcttttttc tcgttttctt
       61 tgattatagc actcctccta aaaaaataaa aagacctcag ggaatttcat tccccgaacc
      121 ccttgagcct cctcctgccg aaatggaaag ggcgcacccg ctgtttattt cattcagcta
      181 tcggctttca caatctaaca cgatcgttcc gctaccagtc gccttacagg ctccattttc
      241 gctcctctaa cgtgttttaa cgattgtgcc gataactaaa cgaaataaac gctaaaaccg
      301 ctcagaacgc aaaatatgcc attttagagc tattgtagaa aatgtagttt gaaatgcaat
      361 tttcttcttt cagcttttta tttcccactt gtaaatctgc taattatttt ctaccagaca
      421 aaccattgat tttttggcta tcagttaact cacgattatt atgagaaatg cttgtattct
      481 ttgttccctt tttgaacgaa atactaaacc ctaaggtgaa cccctccttc gcgctgtcgc
      541 taataaaaag agtgtaaacc tttctgttac tctttgacaa agagtaacat tttcctaatt
      601 gtgacatggc tgtcacaatt ccaaacgctc tccgagggtt ttcgctgtca caagtgacaa
      661 cgaaaaaagg agccgaaagc gtgtcacgct ctcaactcct tttacgcttt attttgcttc
      721 acgcaaaata atcgcttatc ttaaacattg acgtaaattt actctcactt atctgacttt
      781 tttactcggt atcactccga gtaagccgtc atattcattg ggataatctc gtctgcttcg
      841 ctctaatttt ccagagtgag gggtaactcc ttcccccgaa ttaccccaaa gagtgacact
      901 gggatatccc taaatttatt ataaaaagcc aagtctcttt gcgcaactgt tttatccaag
      961 tcggcatttg cggattcgtt agcgtttttt cgctcttgct gcaaacgcac gacccaccat
     1021 gccgacttgt gctgaaaata aaaaagtgga caaaaattca tccactcatt cttccgtcac
     1081 gtccaacccc aaaagccacg tatccaattc ttttttcaaa acatctgccg attccgaaaa
     1141 tgtctctcgt aaatgattaa ctaactcatc actttggctt tcttttttca acaaatttcg
     1201 atatttatat tttgtatgac gagccaagcc agcccataaa ttttgatctg aaatcaatcc
     1261 tgcaatcata attctatcag tatgctttgt atcagtcggc aaaaaatgag gacttgcgaa
     1321 actgtctaaa ctttcatgaa ccatcgcata ccaatcagta gcttttccac gccgtaactg
     1381 caattccagt cgccaccaag tttttatttc cggtggtaca attttccgtt tggtttcttg
     1441 ttccaatttt ttgttgtaca tccttatttg tcgctcactg gcacgactac cccaatatgc
     1501 cgtttccagc ttcccagacc gcccatagat tggtttgaat gaaacagggt caaccacacg
     1561 atattgcgta ataaaatcat caggcacatc gataatgtcg caagcaatat cagcacgtga
     1621 gaaatgtggt tctaaaaata aatcatggat aaagttcttc atcgaacccg ccaaaaattg
     1681 gctaatttta tttgggttaa agtcaattcg cccttgccct tcttgatatt tcaaaatttc
     1741 aatgtaagca atattctcat catgcttatc cacaatttgc caaccattta gaccaacaga
     1801 tttaacataa ccattatttt cattcagtcg cattaactgt tcaaagtcta aaatcaatac
     1861 atcattttgc gtgtgataat aaatattctc tttgagtttt ccaacaatgg taattcggtc
     1921 aattgaccac tgtattttaa ggggggtggt caaagtttgc acacttaacc gcctgttaga
     1981 tagggctgtt aaattttccc actcatttat gatcgtgcca cgtttactca aattttgttc
     2041 ctcctcaaag aaaaagagac ttttggaaag aatttccaga gttcacgtaa ccctaaaaat
     2101 tcatatccaa aaatctctag cttgaagaaa cctaaaaata ttcgtataat gaacctgagt
     2161 tacggagcta ggtgaagtag tttccgtaa
//
