LOCUS       CP063624                3127 bp    DNA     circular BCT 04-APR-2022
DEFINITION  Enterococcus faecium strain BMT-4-1-3 plasmid pRL-1-3_06, complete
            sequence.
ACCESSION   CP063624
VERSION     CP063624.1
DBLINK      BioProject: PRJNA669626
            BioSample: SAMN16483153
KEYWORDS    .
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 3127)
  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 3127)
  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..3127
                     /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_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            join(2865..3127,1..154)
                     /locus_tag="IQN05_15595"
     CDS             join(2865..3127,1..154)
                     /locus_tag="IQN05_15595"
                     /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="UOC54446.1"
                     /translation="MRKTSVQKHVTLYPSHVDVLDSIIEKNPDINNYSEAIRFLCMSYE
                     PDTNTTTTSNQAKLNAMGKEISIMTEIIAEFADLYLKDTGVLIGTNSKVYQEVKEKIEA
                     KLNPSNRNQPKNHQKGTNKTVTSSNFDPTKFLKR"
                     /name="hypothetical protein"
     gene            complement(242..964)
                     /locus_tag="IQN05_15600"
     CDS             complement(242..964)
                     /locus_tag="IQN05_15600"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002338549.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication protein"
                     /protein_id="UOC54447.1"
                     /translation="MNKNITKARHFGFLLYPESIPENWREQLESLGVSMAVSPLHDMDE
                     KTNKKDWTSSDVIRNGKHYVKPHYHVLYIARNPVTIESVRKKIKRKLGNNSVAHLEIID
                     HIKGSYEYLTHESKDAKEKNKHVYDKKDILHINDFDIDRYVTLDESQKKELRNQLFDLV
                     NHCGIVNMKELAAFLDWRGQEYGITNQRDVVDVIASNSNLFRMMFDANYQNGFRPQYAK
                     RIDSETGEMIEGVNKHVE"
                     /name="replication protein"
     gene            complement(1045..1194)
                     /locus_tag="IQN05_15605"
     CDS             complement(1045..1194)
                     /locus_tag="IQN05_15605"
                     /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="UOC54448.1"
                     /translation="MAESERLVVILPSEIKRKLEEKAKDKSLSMSTYVKLLVTEDLKKS
                     EKGN"
                     /name="hypothetical protein"
     gene            complement(1685..1864)
                     /locus_tag="IQN05_15610"
     CDS             complement(1685..1864)
                     /locus_tag="IQN05_15610"
                     /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="UOC54443.1"
                     /translation="MEKDIYKQLTRQIQKEKEKGLLDHLDELELKADEINKNRMSAKEK
                     GIKLKDSSLQSDKS"
                     /name="hypothetical protein"
     gene            complement(1988..2233)
                     /locus_tag="IQN05_15615"
     CDS             complement(1988..2233)
                     /locus_tag="IQN05_15615"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002311817.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="UOC54444.1"
                     /translation="MRLEKEKMEKFPYEYFQNLEKLEQAIQAIKFDLTDEKLLKYKNMT
                     PERKRSLEKLMQLVNEDGGISDAAFDAWSEFHGEYN"
                     /name="hypothetical protein"
     gene            2578..2862
                     /locus_tag="IQN05_15620"
     CDS             2578..2862
                     /locus_tag="IQN05_15620"
                     /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="UOC54445.1"
                     /translation="MDILVRNIDPKFVATIDKRCQELTNKTGEKWSRNKYLKVLIESDF
                     DRQLTTYKKDQFDLLLDKFIAIQTENTQILSEYVYTNNQIIEMLIGGMI"
                     /name="hypothetical protein"
ORIGIN
        1 cggcacaaat tctaaagtat atcaagaagt gaaagaaaaa atcgaagcta aactaaatcc
       61 atcaaatcga aatcaaccaa agaatcatca aaaaggaaca aacaaaacag tcacttctag
      121 caatttcgac ccaactaaat ttctaaaacg ataaaaaaca gataggagtt attcctatct
      181 gttttttatt tcccaatatt ctattttttc attccaagca gttaacggaa gttttcgata
      241 tttattcgac gtgtttattc acgccttcaa tcatttctcc agtttcagaa tctatccttt
      301 ttgcatattg cggccgaaat ccgttctggt aattagcatc aaacatcata cggaaaagat
      361 tgctgtttga agctatgaca tcaacaacat ctctttgatt agtgattcca tactcttgac
      421 ctctccagtc aagaaatgca gctaactctt tcatattgac tattccacaa tgattaacaa
      481 gatcaaacaa ttggtttctc aactctttct tttgactctc gtccaaagtt acataacgat
      541 caatatcaaa atcattaata tgcaagatat cttttttatc gtatacatgt ttattctttt
      601 cttttgcatc ttttgattca tgcgtaagat actcatacga gcctttgata tggtcaatta
      661 tttctaagtg agcaaccgaa ttatttccca attttctctt gattttcttt cttacgctct
      721 cgattgttac aggattgcga gcaatataaa ggacatgata atgtggcttt acataatgct
      781 taccgtttct gataacatca ctactagtcc aatccttttt atttgttttt tcgtccatat
      841 cgtgtaacgg actaaccgcc attgatactc ctaagctctc aagctgttct ctccaattct
      901 ctggaataga ttcgggatat agtaaaaaac caaaatgtct agctttcgtt atattcttat
      961 tcatgatata cttacctcaa ttgaacacta tcagttaagc ggaaacggtg cgccaacaca
     1021 tatgtttctg ctcttttttt gcgctcaatt tcctttctct gattttttca agtcttctgt
     1081 tactagcaat ttaacatatg tcgacatact caaacttttg tcttttgctt tttcctcaag
     1141 ttttcgctta atttcactcg gtaaaattac taccagtctt tctgattccg ccatgccttt
     1201 cagccccttt agttaattgt taatatcatg gtaaactttt gacaactgta ttgtcaatat
     1261 ttttttctat ttttcaaaac ggcggtcaaa acggcggtca aatggcggtc gaaaaaaaaa
     1321 ggctctatcc attggtacag taaggataaa gcactttttg gcacaaaaat tggcactcgg
     1381 cacactatgg ggggggggtc gtagtagccc cccccagatt ttccaaattc caaatttttt
     1441 ccaaaaattt tccagcgcta tcgctcggca aatcaagacc gtaccttttt gaaaaaaggc
     1501 accccaaaaa ctttccactc gccgttaagg cgtcaagaac gttccctatg gtcaccttct
     1561 tgtgtttcca gcttttgggt tttgtttata gccgtcaact ccttaaagcc tcaaagagac
     1621 gctaagaggg cttattagcc tctctaagcg tctctaattc gatttaccgt tgaccgcacg
     1681 ttatctagct tttatcgctt tgcaacgacg aatctttaag ttttatacct ttttcttttg
     1741 ctgacattct gtttttattg atttcatcag cttttagttc taattcatct aaatgatcta
     1801 gtaagccttt ttctttttcc ttttgaattt gtcgggtcaa ttgtttataa atatcttttt
     1861 ccatccccca tcgcctcctt aaaagctatt attattcgat ttaagacgtt ttatttagtt
     1921 tttggtgtat ttcattggtc caagctaaaa aactcttaga agcgatttta gagccattta
     1981 aacccactta attatattct ccatgaaatt cgctccatgc gtcaaaagct gcgtctgaaa
     2041 ttccgccgtc ttcgttcact agttgcatta atttttccaa cgatcgtttt ctttcgggcg
     2101 tcatattttt atatttcaac aatttttcgt ctgttaaatc gaacttgatt gcttgaattg
     2161 cttgctctaa tttttctaag ttttgaaaat attcgtaagg aaatttttcc attttttctt
     2221 tctccagtct cacaattttt ctagaaataa aatcacttct ttgccgtcta tactctcaaa
     2281 aaaaatgtcg tttgaaaaac taaataaatt tttgatcgtg catttttaaa tttggttatc
     2341 gatcacacgt gcagcactcc cccccgaatt ttaaagagca taaggaaacg tgtacccact
     2401 ttctaaaaaa agtgggtaga taggctgtgc ctatcacgtt tctcagaaaa aaatttgata
     2461 tcactttttc gccatcgtgg gtagcttatg tatagcattt tggcaaaaaa cagctataca
     2521 aatatagtat ttgtatggta tacataaatt atacataatt gcaaaaggag attttttatg
     2581 gacattttag ttcggaatat tgatccaaag tttgttgcaa caatagacaa acgttgccaa
     2641 gaactcacga ataaaacagg agaaaaatgg agtcgaaata aatatctaaa agttttaatc
     2701 gaaagtgatt ttgaccgtca acttacgact tacaaaaaag accaattcga tttattgctc
     2761 gataaattta ttgctatcca aacagaaaat actcaaatat taagcgagta tgtctacaca
     2821 aataatcaaa tcattgaaat gcttatcgga ggaatgatat aaccatgaga aaaacttctg
     2881 tccaaaaaca tgttactttg taccctagtc atgttgacgt tttagattcc atcatcgaaa
     2941 aaaatccaga tatcaataac tactcggaag ccattcgctt tttatgtatg agttatgaac
     3001 ccgataccaa cacgaccact accagcaatc aggcaaaact aaatgctatg ggaaaagaaa
     3061 tttccatcat gactgaaatc atcgcagaat tcgctgattt atatctaaaa gatacaggcg
     3121 ttcttat
//
