LOCUS       CP063554                4372 bp    DNA     circular BCT 04-APR-2022
DEFINITION  Enterococcus faecium strain ICU-1-2 plasmid pZA1-2_05, complete
            sequence.
ACCESSION   CP063554
VERSION     CP063554.1
DBLINK      BioProject: PRJNA669626
            BioSample: SAMN16483165
KEYWORDS    .
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 4372)
  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 4372)
  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                   :: 261.8x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 10/27/2020 16:15:19
            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)                     :: 3,153
            CDSs (total)                      :: 3,063
            Genes (coding)                    :: 2,924
            CDSs (with protein)               :: 2,924
            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)              :: 139
            CDSs (without protein)            :: 139
            Pseudo Genes (ambiguous residues) :: 0 of 139
            Pseudo Genes (frameshifted)       :: 50 of 139
            Pseudo Genes (incomplete)         :: 75 of 139
            Pseudo Genes (internal stop)      :: 30 of 139
            Pseudo Genes (multiple problems)  :: 15 of 139
            CRISPR Arrays                     :: 1
            ##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..4372
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="ICU-1-2"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pZA1-2_05"
                     /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            complement(71..1477)
                     /locus_tag="IQN17_15740"
     CDS             complement(71..1477)
                     /locus_tag="IQN17_15740"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016173818.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid recombination protein"
                     /protein_id="UOC30540.1"
                     /translation="MGFSISFKKGTKNTSISHNNRELTDRQKTNDWHKHIDFTKSDENI
                     YLEQTNLADKYEELFGEVVEKYNAKQKRADRKIEDYLAKVRKDKKLEPQREFIVQIGIL
                     DDFQTNRADGSSTGISKQQAEQNRVIANKILVQYYKEFQERNPNLAVYNAVIHNDEISP
                     HLHLNIVPVAEGYKRGVQKQPSFNKALVQQGIHADKDNGRVLFNNFRNQEVDSIERLMN
                     DYGWKRDIVGTNKIKDIHEYKEIMSEISELRQTAVKERESVSDELRYIYRQREENERDK
                     ALMASERAKIEEEKKNMLNVKKEMAVIFQKDMVPLESFKRLPDGSYHLSGNDFVDLYQR
                     ATRATNAKRNADNMSEQYLQMLEQNTELNEYVATLEEERHLSGRKQLADLQVENKKLKE
                     ENRSLRQRLERLKNAFQKSITRLSIRFGLAEKDMGLSEELEVLEQEKTLFYRQNVSQHK
                     LERSENEIEW"
                     /name="plasmid recombination protein"
     gene            complement(1699..2061)
                     /locus_tag="IQN17_15745"
     CDS             complement(1699..2061)
                     /locus_tag="IQN17_15745"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016173819.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="UOC30541.1"
                     /translation="MGMTLADIKAQEEKLKKEQAKLRQQKKRLIEKENAAMGKALRKRF
                     GFETFADFERWLSSISDDQQHEKTVDNEWLADEKSAPSERDYPDESDDLFGVIPNKKSQ
                     MSESKFTSIFNDVNLR"
                     /name="hypothetical protein"
     gene            complement(2065..2403)
                     /locus_tag="IQN17_15750"
     CDS             complement(2065..2403)
                     /locus_tag="IQN17_15750"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002321903.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="UOC30542.1"
                     /translation="MVAILEVRCDMDKIDLREETVDRIELMYERLADYLNLPDEDNYSE
                     MLERIMDVLNSVINADLAKSSVLTNEFVHKHLAQTTDESEKEFWLKLMSHVMQLNQISV
                     INSKEKEM"
                     /name="hypothetical protein"
     gene            complement(2382..2801)
                     /locus_tag="IQN17_15755"
     CDS             complement(2382..2801)
                     /locus_tag="IQN17_15755"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002351943.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="UOC30537.1"
                     /translation="MTDLPEKMTIKNLADELGISKNTVRNQLVNAGYDLARYKDNGVIM
                     LDKELIGVVRSIYRSKGGQLTGDLPVNDAGNDFPLEKENEFLREQLAEKDRHISELTEM
                     IRDQQKLTLLQQQKNDQLLLENQELKNRKWWQFWK"
                     /name="hypothetical protein"
     gene            complement(2794..3027)
                     /locus_tag="IQN17_15760"
     CDS             complement(2794..3027)
                     /locus_tag="IQN17_15760"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002298421.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="UOC30538.1"
                     /translation="MAEKQKHFGKKNWLVNLTGDNVVVVFLDSKKMSGKLLDVTQYELI
                     LKNNKIDSPIIIPKHAVKYVYGVAESNGEDND"
                     /name="hypothetical protein"
     gene            complement(3030..3998)
                     /locus_tag="IQN17_15765"
     CDS             complement(3030..3998)
                     /locus_tag="IQN17_15765"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002298422.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation factor domain-containing
                     protein"
                     /protein_id="UOC30539.1"
                     /translation="MSKKRTIVNEWEKLTALSNRRLNVQTLVQTIKLNWSIDRITIVGK
                     LNQNIFYHTQHDVLILDFEQLMRVNEGNGYLKAVGNNGWQLLDQHDENIAYIEISKWQE
                     GKGRIDFNPNKISRFLADSMKNFIHDLFLEPHFSRADVACDLIDVPDEFITQYRIIDPV
                     SFKLIYGRSGKLETVYWGSRASERQIRLYNKKIEQEMKRKVVPSEINTWWRLEMQLRRG
                     KATEWYAMVKESLDSFVSPHFLPTDIKPTDKVMIDGLLANHSNWAILSRNSKYKYRNLL
                     KRESQNDELTNHLRETFEESADDLKKELDTWLQGLDVTEEE"
                     /name="replication initiation factor domain-containing
                     protein"
     Typing          complement(3038..3907)
                     /name="rep_cluster_943"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="81.164"
                     /coverage="96.0"
                     /evalue="0.0"
     Typing          complement(75..1477)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.094"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tagtggttta gccgtcaact ccttatcctc ggcacaaacc gcctccggta ccgttgactg
       61 cacatcgtgg ctaccactca atctcattct cagaacgctc taatttatgc tgtgagacgt
      121 tttgacgata aaataaggtt ttctcctgct ctaatacttc taattcctca gaaagcccca
      181 tatccttttc tgcaagacca aaacggatag acaaacgagt gatcgatttt tgaaatgcgt
      241 tttttaatcg ctctaaacgc tggcgtaaag agcgattttc ttctttcagc tttttatttt
      301 ccacttgtaa atctgctaat tgttttctac cagacaaatg acgctcttct tccaatgtag
      361 ctacatactc atttaattct gtattttgct caagcatctg taaatattgc tcactcatgt
      421 tatcagcatt tctcttggca tttgttgctc tcgtagctcg ttgatacaaa tcaacaaaat
      481 cattcccaga taaatgatac gaaccatcag gaagcctctt gaaactttct aaaggaacca
      541 tatctttttg gaaaatgacc gccatctctt tttttacatt cagcatattt ttcttctctt
      601 cttcaatctt cgctctctca gaagccatca gagccttatc acgctcgttt tcttctcttt
      661 gcctataaat atacctcaac tcatcagaaa cgctctcacg ctcttttaca gccgtttggc
      721 gcaattcaga aatttcactc atgatttctt tgtattcgtg aatatcttta attttgttgg
      781 taccgacaat atcccttttc caaccgtaat cattcattaa tcgttctata gagtcaactt
      841 cttgatttct aaaattattg aaaagcactc gaccattatc tttatcagcg tgtatccctt
      901 gttgaaccag tgctttatta aagctcggct gcttttgaac accccgttta taaccttcag
      961 caaccggcac aatattcaag tgcaggtgcg gacttatttc gtcattatga ataacagcat
     1021 tataaacagc caaattaggg tttctctctt gaaactcctt gtaatactga accaaaattt
     1081 tattggcaat cactcgattt tgttcagctt gttgtttcga tatgccagta gaagaaccat
     1141 ctgctcgatt tgtctggaaa tcatctaaaa tgcctatttg cacaataaat tctcgttgag
     1201 gttccaactt tttatccttg cgcactttcg ctaaatagtc ctcgattttt ctatcggctc
     1261 ttttttgttt cgcattatat ttttctacca cttcgccaaa caattcctca tatttatctg
     1321 ctagattcgt ctgctctaaa taaatatttt catccgattt cgtgaagtca atgtgcttat
     1381 gccaatcatt ggttttctgg cgatcagtta actcacgatt attatgagaa atacttgtat
     1441 tcttcgttcc ttttttaaat gaaatactaa accccaagtt aaaaccctcc ttcgcgctgt
     1501 cgctaataaa aagattgtaa acctttctgt tactctttgt caaagagtaa cattttccta
     1561 attgtgacat ggatgtcaca attccaaacg ctctccgagg gttttcgctg tcacaagtga
     1621 caacgaaaaa aggagccgaa agcgtatcac gctatcaact ccttttatgc tttattttgc
     1681 ttcacgcaaa ataatcgctt atcgtaaatt cacgtcatta aatattgacg taaatttact
     1741 ctcactcatc tgacttttct tattcggtat cactccgaat aagtcgtcag attcatcggg
     1801 ataatctcgt tcgcttggcg ctgatttttc atcagcaagc cactcattat ccactgtttt
     1861 ttcgtgttgc tgatcgtcag aaattgacga taaccaccgc tcaaaatcag caaaagtttc
     1921 aaacccaaaa cgcttgcgaa gagccttgcc cattgcagca ttttctttct caatcaagcg
     1981 ttttttctgt tggcgaagtt tcgcttgttc tttttttaat ttttcttctt gcgctttaat
     2041 atctgctaaa gtcattccca taaactacat ctccttttct ttggaattaa taacggaaat
     2101 ttggtttaac tgcataacat gactcattaa tttcaaccaa aattcttttt ctgattcatc
     2161 agttgtttgc gctaaatgct tatgaacaaa ttcattagtc aaaactgaag attttgctag
     2221 atcagcattg ataaccgagt tgagaacatc cataattcgt tcaagcattt cactataatt
     2281 atcttcatcc ggcaaattca aataatcagc taaccgttca tacatcaatt caattctatc
     2341 gactgtttct tctctcaaat caattttatc catgtcacac ctcacttcca gaattgccac
     2401 cattttcgat tttttaattc ttgattttct agtaacaact gatcgttttt ttgttgctga
     2461 agcaaagtca atttttgttg gtcacgaatc atttccgtta attcagaaat atgcctatct
     2521 ttttccgcta attgttcacg caaaaattca ttttcttttt ctaacgggaa atcattgcct
     2581 gcatcattga ccggtaaatc accagtcaat tgaccacctt ttgaccgata aattgaccgc
     2641 acaacaccaa tcaattcctt gtctaacatg ataaccccat tatctttata ccgagcaagg
     2701 tcataacctg cattgaccag ttgattgcgc actgtatttt tagatatacc caactcatca
     2761 gcaaggtttt ttatggtcat tttttctggc aaatcagtca ttatcttctc cgttactttc
     2821 agctacccca taaacatatt taacagcatg cttagggata atgattgggg aatcaatttt
     2881 attatttttc aaaatcaact catactgcgt tacatcaagt aacttaccgg acattttttt
     2941 gctatccaaa aaaacaacga caacgttatc acctgttaaa ttcaccaacc aatttttctt
     3001 accaaaatgc ttttgttttt ctgccattac tattcctcct ctgtcacatc aagtccctgt
     3061 aaccaagtat ccaattcttt ttttaaatca tctgctgatt cttcaaatgt ttctcgtaaa
     3121 tgattcgtca actcatcatt ttgactttct cgctttaata aatttcgata tttatatttc
     3181 gagtttcttg acaaaatcgc ccaattagaa tgattagcta acaatccatc aatcataact
     3241 ttatccgtag gttttatatc agttggtaaa aaatgtggac tcacaaagct atccaaactt
     3301 tctttcacca tagcatacca ttccgtagct ttaccacgtc ttaactgcat ttctaaccgc
     3361 caccaagtat taatttctga aggcaccacc tttcttttca tttcttgctc tattttttta
     3421 ttgtacaaac gaatttgccg ctcgcttgcc cgactacccc aatacaccgt ttccagtttt
     3481 cctgagcgtc cataaattaa tttaaatgaa actggatcaa taattcgata ttgcgtgata
     3541 aactcatcag gcacatcaat aagatcgcag gcaacatccg ctcgtgaaaa atggggctct
     3601 aaaaataaat catgaataaa atttttcatg gaatccgcta aaaatcgact gattttatta
     3661 ggattaaaat caatccgccc ttttccttct tgccatttag aaatttcaat ataggcaata
     3721 ttttcgtcat gttggtctaa tagctgccaa ccattatttc caaccgcttt taaatagcca
     3781 ttgccttcat ttacccgcat aagctgttca aaatctaata ttaatacatc atgttgagta
     3841 tgataaaaaa tattttgatt caactttcca acaatggtaa ttcggtcaat cgaccaattt
     3901 aattttatag tttgtaccaa agtttgaaca tttaaccgcc tgttagacag ggctgttaat
     3961 ttttcccact cattcacgat tgttcttttt ttactcatat tcagttcctc ctcaaagaaa
     4021 aaagagattt ttggaaagaa tttccagagt tcacgtaact ctaaaaattc ataaccatca
     4081 atctctagtc ttgaagaaac ctaaaaatat tcgtataatg aatttgagtt acggaactag
     4141 tgtggttagt ttccgtaaag gtcgagaacg ttggtagcgt tgctcgactt atttttttgc
     4201 tctttttcca gttcatttgt ttgctaactc aataatagca cttctcttta gctatgcaaa
     4261 taccaaaaaa ataaaaccgc accctttgaa aagggcgccc ccaaacttcg ctaacgctaa
     4321 gttggccaaa aaatggactt gccatttttt agcaaatgtc agcttcaggg gc
//
