LOCUS       CP063632                3028 bp    DNA     circular BCT 04-APR-2022
DEFINITION  Enterococcus faecium strain ICU-4-1 plasmid pZA4-1_06, complete
            sequence.
ACCESSION   CP063632
VERSION     CP063632.1
DBLINK      BioProject: PRJNA669626
            BioSample: SAMN16483152
KEYWORDS    .
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 3028)
  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 3028)
  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                   :: 414.3x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 10/27/2020 18:33:54
            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)                     :: 3,157
            CDSs (total)                      :: 3,064
            Genes (coding)                    :: 2,972
            CDSs (with protein)               :: 2,972
            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)              :: 92
            CDSs (without protein)            :: 92
            Pseudo Genes (ambiguous residues) :: 0 of 92
            Pseudo Genes (frameshifted)       :: 27 of 92
            Pseudo Genes (incomplete)         :: 53 of 92
            Pseudo Genes (internal stop)      :: 20 of 92
            Pseudo Genes (multiple problems)  :: 7 of 92
            ##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..3028
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="ICU-4-1"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pZA4-1_06"
                     /geo_loc_name="Germany: Hamburg"
                     /lat_lon="53.33 N 10.1 E"
                     /collection_date="2019-03-01"
                     /collected_by="Institute of Medical Microbiology, Virology
                     and Hygiene, University Medical Center Hamburg-Eppendorf"
     gene            join(2955..3028,1..343)
                     /locus_tag="IQN04_15770"
     CDS             join(2955..3028,1..343)
                     /locus_tag="IQN04_15770"
                     /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="UOE14751.1"
                     /translation="MRKTSVQKHVTLYPSHVDVLDSIIEKNPDINNYSEAIRFLCMSYE
                     PDTNTTTTSNQAKLNAMGKEISIMTEIIAEFADLYLKDTGVLIGTNSKVYQEVKEKIEA
                     KLNPSNRNQPKNHQKGTNKTVTSSNFDPTKFLKR"
                     /name="hypothetical protein"
     gene            complement(431..1153)
                     /locus_tag="IQN04_15775"
     CDS             complement(431..1153)
                     /locus_tag="IQN04_15775"
                     /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="UOE14752.1"
                     /translation="MNKNITKARHFGFLLYPESIPENWREQLESLGVSMAVSPLHDMDE
                     KTNKKDWTSSDVIRNGKHYVKPHYHVLYIARNPVTIESVRKKIKRKLGNNSVAHLEIID
                     HIKGSYEYLTHESKDAKEKNKHVYDKKDILHINDFDIDRYVTLDESQKKELRNQLFDLV
                     NHCGIVNMKELAAFLDWRGQEYGITNQRDVVDVIASNSNLFRMMFDANYQNGFRPQYAK
                     RIDSETGEMIEGVNKHVE"
                     /name="replication protein"
     gene            1844..1942
                     /locus_tag="IQN04_15780"
     CDS             1844..1942
                     /locus_tag="IQN04_15780"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017370351.1"
                     /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="UOE14749.1"
                     /translation="MLEKLITLVIAPLFVGLVIELISHWLDEKDDN"
                     /name="type I toxin-antitoxin system Fst family toxin"
     gene            2668..2952
                     /locus_tag="IQN04_15785"
     CDS             2668..2952
                     /locus_tag="IQN04_15785"
                     /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="UOE14750.1"
                     /translation="MDILVRNIDPKFVATIDKRCQELTNKTGEKWSRNKYLKVLIESDF
                     DRQLTTYKKDQFDLLLDKFIAIQTENTQILSEYVYTNNQIIEMLIGGMI"
                     /name="hypothetical protein"
ORIGIN
        1 aaaaaatcca gatatcaata actactcgga agccattcgc tttttatgta tgagttatga
       61 acccgatacc aacacgacca ctaccagcaa tcaggcaaaa ctaaatgcta tgggaaaaga
      121 aatttccatc atgactgaaa tcatcgcaga attcgctgat ttatatctaa aagatacagg
      181 cgttcttatc ggcacaaatt ctaaagtata tcaagaagtg aaagaaaaaa tcgaagctaa
      241 actaaatcca tcaaatcgaa atcaaccaaa gaatcatcaa aaaggaacaa acaaaacagt
      301 cacttctagc aatttcgacc caactaaatt tctaaaacga taaaaaacag ataggagtta
      361 ttcctatctg ttttttattt cccaatattc tattttttca ttccaagcag ttaactgaag
      421 ttttcgatat ttattcgacg tgtttattca cgccttcaat catttctcca gtttcagaat
      481 ctatcctttt tgcatattgc ggccgaaatc cgttctggta attagcatca aacatcatac
      541 ggaaaagatt gctgtttgaa gctatgacat caacaacatc tctttgatta gtgattccat
      601 actcttgacc tctccagtca agaaatgcag ctaactcttt catattgact attccacaat
      661 gattaacaag atcaaacaat tggtttctca actctttctt ttgactctcg tccaaagtta
      721 cataacgatc aatatcaaaa tcattaatat gcaagatatc ttttttatcg tatacatgtt
      781 tattcttttc ttttgcatct tttgattcat gcgtaagata ctcatacgag cctttgatat
      841 ggtcaattat ttctaagtga gcaaccgaat tatttcccaa ttttctcttg attttctttc
      901 ttacgctctc gattgttaca ggattgcgag caatataaag gacatgataa tgtggcttta
      961 cataatgctt accgtttctg ataacatcac tactagtcca atccttttta tttgtttttt
     1021 cgtccatatc gtgtaacgga ctaaccgcca ttgatactcc taagctctca agctgttctc
     1081 tccaattctc tggaatagat tcgggatata gtaaaaaacc aaaatgtcta gctttcgtta
     1141 tattcttatt catgatatac ttacctcaat tgaacactat cagttaagcg gaaacggtgc
     1201 gccaacacat atgtttctgc tctttttttg cgctcaattt cctttctctg attttttcaa
     1261 gtcttctgtt actagcaatt taacatatgt cgacatactc aaacttttgt cttttgcttt
     1321 ttcctcaagt tttcgcttaa tttcactcgg taaaattact accagtcttt ctgattccgc
     1381 catgcctttc agccccttta gttaattgtt aatatcatgg taaacttttg acaactgtat
     1441 tgtcaatatt tttttctatt tttcaaaacg gcggtcaaaa cggcggtcaa atggcggtcg
     1501 aaaaaaaaag gctctatcca ttggtacagt aaggataaag cactttttgg cacaaaaatt
     1561 ggcactcggc acactatggg ggggggtcgt agtacggaag caaaattcgc ttcctcgccc
     1621 cccagttgtc ccaaattcca aatttttttc aaaaattttc cagcgcttcc gctcggcaaa
     1681 atcgcaagcg attttaacac tgccttttta agggggtgtt caaattttga acatttaacc
     1741 gcctgttaga aatacggtta agtttttccc actcattctc aaagaaaaaa agagatatgc
     1801 tataatcaca catggcaact tgccccgaaa gggggtgttc tctttgctag aaaaactcat
     1861 cacgttagtt atcgcaccac tttttgtagg gttagtcatc gaactaattt ctcactggtt
     1921 agacgagaaa gacgataact aaagcaagtt gctttctaat ccacacgttt gtttccacca
     1981 caagcgcaaa aaaaatccca acctacggac ataggttggg attttgtgtt ctcttgctct
     2041 tgcaaaaact catcacgttt ccacactgct attataacaa gcaataactg aaaaatcaaa
     2101 gacacaagac cttggggaat gtcattcccc aaaccccttg atcctcctcc tgccgaaata
     2161 tttctacgct ctcgctcctc atttcattca gttctcggct ccacaatcta acacgccgtt
     2221 tcgctaccag tcgtctttca gactccattc tcgctcctct cacgtgtttt gacgattgcg
     2281 ccgataacta aacgaaataa acgctaaaac gtcttagaac gcaaaatatg agcttctaag
     2341 actattccat ttcagttaca tactctttat aatcgttcca tttgatttct ctttcgtgcc
     2401 attcattatc gcttttcgca aacagaacaa cacgaatcca tgtcactatt tttttgtttt
     2461 ttaaagagca taaggaaacg tggtatcact ttcttacgaa aggtgctaga taggctgtgc
     2521 ctatcacgtt tctttgaaaa aaatttgata tcactttttc gccatcgtgg atagcttatg
     2581 tatagtattt tggcaaaaaa cagctataca aatatagtat ttgtatggta tacataaatt
     2641 atacataatt gcaaaaggag attttttatg gacattttag ttcggaatat tgatccaaag
     2701 tttgttgcaa caatagacaa acgttgccaa gaactcacga ataaaacagg agaaaaatgg
     2761 agtcgaaata aatatctaaa agttttaatc gaaagtgatt ttgaccgtca acttacgact
     2821 tacaaaaaag accaattcga tttattgctc gataaattta ttgctatcca aacagaaaat
     2881 actcaaatat taagcgagta tgtctacaca aataatcaaa tcattgaaat gcttatcgga
     2941 ggaatgatat aaccatgaga aaaacttctg tccaaaaaca tgttactttg taccctagtc
     3001 atgttgacgt tttagattcc atcatcga
//
