LOCUS       CP063616                5779 bp    DNA     circular BCT 04-APR-2022
DEFINITION  Enterococcus faecium strain ICU-1-1 plasmid pZA1-1_05, complete
            sequence.
ACCESSION   CP063616
VERSION     CP063616.1
DBLINK      BioProject: PRJNA669626
            BioSample: SAMN16483154
KEYWORDS    .
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 5779)
  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 5779)
  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                   :: 85.9x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 10/27/2020 18:01:07
            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)                     :: 3,192
            CDSs (total)                      :: 3,099
            Genes (coding)                    :: 3,002
            CDSs (with protein)               :: 3,002
            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)              :: 97
            CDSs (without protein)            :: 97
            Pseudo Genes (ambiguous residues) :: 0 of 97
            Pseudo Genes (frameshifted)       :: 29 of 97
            Pseudo Genes (incomplete)         :: 58 of 97
            Pseudo Genes (internal stop)      :: 20 of 97
            Pseudo Genes (multiple problems)  :: 9 of 97
            ##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..5779
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="ICU-1-1"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pZA1-1_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(join(5747..5779,1..936))
                     /locus_tag="IQN06_15925"
     CDS             complement(join(5747..5779,1..936))
                     /locus_tag="IQN06_15925"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002338009.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="UOC51511.1"
                     /translation="MANEIVKYHHELNTIPLRKFTSVEMNLFFSIISRMRDVGDKKVQF
                     TFEQLKDLSNYKATANVRFIDDLETTYDKLMDLRFGRRSADGLQRERFVLFNQFKIDGK
                     ADIPFAEIQVHEKALPLLNNLEEWVRYSLQQFNELESSYSKTMFRLLKQYRTKGIANFS
                     KEDFHELLDIPKSYRESDINKKIIKPIRQELTAIFKGLTIQKRYGKGRGKPVIGYQFTF
                     KPEIKKSDDFNKHAPTKEEQNKALELANQQVQSEKEPTSLQEKIKEQKRKLELLQQLAE
                     LERKQNTPSKKINKQIADNNSDITPEFKENLLDNLQNLFKE"
                     /name="replication initiation protein"
     gene            complement(2070..2492)
                     /locus_tag="IQN06_15930"
     CDS             complement(2070..2492)
                     /locus_tag="IQN06_15930"
                     /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="UOC51513.1"
                     /translation="MVNKLIALVMGLVLVLFLTSCSKKQEIQKTDLIPFLGTWQTKDHS
                     ERLVITNLNTSKNIEQYTILVKENNHKIQIIDKNLNINEQVFIYKATNNLLTLRSNKKQ
                     LDYTFSLDSPKKLVFILTTNDGTEGTAKPIEFFKAD"
                     /name="hypothetical protein"
     gene            complement(2486..3640)
                     /locus_tag="IQN06_15935"
     CDS             complement(2486..3640)
                     /locus_tag="IQN06_15935"
                     /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="UOC51512.1"
                     /translation="MIILKPKKKIYLGLLFSLMIGIFSIGITNTYASENSNFNINSQPI
                     EEQAINFAKTDFEHSITSILLMENNTETDINYTLGSPFKMLDGENTANSSIFFPVFSDA
                     DNTIKYIYTVKKNTNGEYSGSISQFLAKELQNLVDSNITDTTLFFQDNSIYYSDNGQIK
                     LLWKSPLSTEKNGVSSLTEKNDLISVNIKNKIKNFSKKQNFPAVKRVKSVSSGDNFIMI
                     NWRIAETQTSFPWCAAYVEAAILCNKTDVRATSARAIMHYTYPNLNNSQIESKSLNQDQ
                     IIKYANYCGVYPKKIARILNLSEVQTQLRKGNAIYMGTAGYGNYSNSRHALALFGWVNQ
                     GGYQTYYVWNPWYNYPTVISANAGPVTIPVPGGGFTWDNTITNW"
                     /name="peptidase C47"
     gene            complement(4254..4670)
                     /locus_tag="IQN06_15940"
     CDS             complement(4254..4670)
                     /locus_tag="IQN06_15940"
                     /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="UOC51508.1"
                     /translation="MRKTSVQKHVTLYPSHIDVLDSIIEKNPDINNYSEAIRFLCMSYE
                     PNTNTTTTSNQAKLNAMGKEISIMSEIIAEFADLYLKDTGVLIGTNSKVYQEVKEKIEN
                     QLNPSRRNQPKNRQKETNQTFTSRNFDPTNFLKR"
                     /name="hypothetical protein"
     gene            complement(4672..4953)
                     /locus_tag="IQN06_15945"
     CDS             complement(4672..4953)
                     /locus_tag="IQN06_15945"
                     /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="UOC51509.1"
                     /translation="MDILVRNIDPKVISEIDRRCQELTTKTGKKWSRNAYLKVLIENDF
                     DQALRHYKKDQFDLLLEKFIDIQAKNTETLNDYVHTNNQLIETLIGGI"
                     /name="hypothetical protein"
     gene            complement(5249..5737)
                     /locus_tag="IQN06_15950"
     CDS             complement(5249..5737)
                     /locus_tag="IQN06_15950"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002347002.1"
                     /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="UOC51510.1"
                     /translation="MTDKTIKELADILGVSKDKVKYQLRKLPSNFTYKKGNITYLKKEA
                     VTTITKVLSGNESGNLPSELPDSLPTDYLLKEIETKNNHIEEKDRQIEKLQIALETQQK
                     LLDQQQQLTLQANQQIKKLHEQLQLTYAEESSEKEPLSVTEETQKGQNKEKKWWQFWQ"
                     /name="DUF536 domain-containing protein"
     Typing          complement(2..936)
                     /name="rep_cluster_1093"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 taagttttct ttaaattctg gggtaatatc ggaattgtta tctgctattt gtttgttaat
       61 tttcttactt ggggtatttt gttttctttc taattctgct aactgttgta aaagttctaa
      121 ttttcgtttt tgttctttga ttttttcttg taatgaagta ggttcttttt cagattgaac
      181 ctgttgatta gctagttcca aagctttatt ttgttcttct ttggttggag catgtttgtt
      241 aaagtcgtct gattttttta tctcaggttt aaatgtaaat tgatagccaa tgacaggctt
      301 tccccgtcct tttccgtatc tcttttggat tgtcaaacct ttgaagattg cggttagttc
      361 ttggcgaata ggctttataa tttttttatt tatatcactt tctctataac ttttagggat
      421 atcaagtaat tcatgaaagt cttcttttga aaaattggca attcctttgg ttctgtattg
      481 ttttaataat ctaaacatgg ttttggaata actgctttct aattcattga attgttggag
      541 agaatatcga acccattctt caagattatt aagtaagggt aaggctttct catggacttg
      601 tatttcagca aaaggaatat cagcttttcc atcgatttta aattgattaa ataaaacaaa
      661 tcgttcacgt tgcaaaccgt cagcacttct tctaccaaaa cgtaaatcca ttaatttgtc
      721 atacgttgtt tctaaatcat ctatgaatcg aacatttgca gttgctttat aattgcttaa
      781 atcttttaat tgttcgaatg taaattgtac ttttttatcg cctacatcac gcattctaga
      841 tattatagag aagaataaat tcatttctac tgacgtaaat ttgcgtaaag gaatcgtatt
      901 taattcatgg tggtatttca caatttcatt tgccataaaa tcctccttca agattaacta
      961 cttaacaaaa ttataaagag ctttctaatg ggggtcaacc ccctaattaa agacccctaa
     1021 aaacagacaa aaagacccct aaaaacagac aaaaagaccc ctaaaaacag acaaaaagac
     1081 ccctaaaaac agacaaaaag acccctaaaa gattctgcac accttgggag agtaaggata
     1141 cagccgacgg taaagaggtt taaaaagagg ttataaaaga gattataaaa gaggggggca
     1201 aaatttcccg cctaaaattt tcctactttt tttctccaaa caggttcgcg aaatttccta
     1261 aactgggaat ctgctcccta cggtcgcttt aaaggtgtga tcgctacgct ctcacattaa
     1321 actgcgcagt cgcctaaagg ctcctttgct taaaaacagt tcgtaaggag tccttttaga
     1381 agctctgagc gctcatctac ggcgttttaa gacaagtcta gataaaatcc cttatcttgt
     1441 ttttaaagcg ccttacaggc ggtcagggca agccctaaca accctaaaac gttctacaga
     1501 acctctaaaa ttcgttttaa ggcgttttaa agtcgctttg gtataattac ataccagaac
     1561 gtttaaaacg ccttaaaacg caaattagag ccctatgtat atatcgacta atgttaccta
     1621 gacttttacg gaagccggca cactcatttg caaagcttca gagttgcaaa tttggattcg
     1681 ctcactcgaa aactgattta ttttgactct gatcaatagg tgtatttttt agaaggattg
     1741 ctagccaaat tttgctttaa tttgctcata agtcccaccc ttttgatacg tcctatggac
     1801 gtatcgtttg taatgtgaaa gtgactataa ggtccctttc tacaaaacac actaaagggc
     1861 ttggcaagct ctatatttgc tagccaaata cctacgtatt tggtgcaaat aaccgcttgt
     1921 caaaggggcg caagctcccc cttgaatccc cctcaaaacc cacgctccac aatacaaaaa
     1981 aggctagcaa atgctagcca ctttttgtaa agtttcgctt gtttcacctt cggtgaaatt
     2041 attgttttgt aatatcaaac aactattcat caatcagctt taaaaaattc aattggttta
     2101 gctgtccctt ctgtcccatc attcgttgtc aaaataaata cgagcttttt tggagaatcc
     2161 aaactaaaag tgtaatctaa ttgtttttta ttcgagcgca gtgttagtaa attatttgtt
     2221 gctttgtaaa tgaaaacttg ttcatttata tttaaatttt tatcaatgat ttgaatttta
     2281 tgattgttct cttttactaa gatggtatat tgttctatat tttttgaagt atttaaatta
     2341 gtgattacta gacgttctga atgatcttta gtttgccaag ttcctagaaa aggaatcaga
     2401 tcagtctttt gtatttcttg tttttttgaa caactagtta agaaaagaac taacactaga
     2461 cccataacta aagcaatgag tttatttacc aatttgtaat ggtattgtcc caagtaaaac
     2521 cacctccagg tacaggaatt gtaactggtc ctgcatttgc acttattaca gttgggtagt
     2581 tataccaagg attccacaca tagtaagttt gataaccacc ttgattgacc cacccaaata
     2641 atgcaagtgc atgacggctg ttactataat ttccataacc agcagttccc atataaatgg
     2701 catttccttt tcttagttgt gtttggacct ctgaaaggtt tagtattcgt gctatttttt
     2761 taggataaac accacagtaa tttgcatatt ttattatttg atcttgatta agactttttg
     2821 attcaatttg actgttgttt aaattaggat aggtataatg cataatggct ctagctgaag
     2881 tagcacgtac atctgttttg ttacataaga tagcagcttc tacgtaagca gcgcaccacg
     2941 gaaaacttgt ttgggtttct gctatacgcc aattaatcat aataaagtta tctccggagg
     3001 agacactttt tacacgttta accgcaggaa aattttgttt tttagaaaaa tttttaattt
     3061 tattttttat atttacggat ataagatcat ttttttctgt aagggaagaa acaccatttt
     3121 tttctgtact taaaggtgat ttccaaagta gtttaatttg tccattatcg gaataataaa
     3181 tgctattatc ttgaaaaaat aaggttgtat ctgttatatt actatctact agattttgaa
     3241 gttcttttgc taaaaattgt gaaatacttc ctgaatattc tccatttgta ttttttttga
     3301 cggtataaat atatttaatc gtattatcag cgtctgaaaa tactggaaag aaaatagaac
     3361 tatttgccgt attttctcca tcgagcattt taaatggcga accaagagta tagttaatat
     3421 cagtttcggt gttattttcc attaaaagaa ttgaagttat ggagtgttca aaatcagttt
     3481 tcgcaaaatt aattgcttgt tcttcaattg gttgggagtt gatattgaaa ttagaatttt
     3541 ctgaagcata ggtatttgta attcctatac taaaaattcc aatcatcaag gaaaagagga
     3601 gacctagata aattttcttt ttgggtttca aaataatcac gcctttgtgt taaatttaag
     3661 tggtatacac ctataattaa aatatacaat atgcgataac aaatttttgt tatagttcat
     3721 aaaatattgt tttgggaaca taatcgttat ttatagcgtt agttaacata atgtgtacta
     3781 tgccaagtag cccctctacc aaccgatcca gccgctcact ttgtgatttt tcattggtct
     3841 agctaaaagg tacgttcgga agcttgattt tccgctattg tctgtttacg attctttgtg
     3901 aatcttaacc gattcctttt tagaaacttg ttatttttca taaaatatgg taaatttttg
     3961 gcagcgcttc ataagcgcgc tgctttttca agaataaacg ctcattattt tttattggct
     4021 gctcgttaga gcagtctttt tttatttcag agtacgttct atttttttga gttaccacgc
     4081 tattaaataa ccgatatttg gagattgggg cagcgcccca aaatgcaaaa agaaggattc
     4141 gcacaagcgg atttttcttt ttttgtgcaa gttaccggta acttgcaaat cttgctggaa
     4201 gactgccccc taaaaaagaa actgagaaat agaaaaaatt ttcggtttct ttttcatctt
     4261 tttagaaagt ttgttgggtc aaaatttcta gaagtgaatg tttgattggt ttctttttga
     4321 cgatttttgg gttgatttcg tcgggaggga ttgagttgat tttcaatttt ttctttcact
     4381 tcttgatata ctttagaatt tgtaccgata agaacaccag tatcttttag atataaatca
     4441 gcaaattctg caatgatttc ggacataata gaaatttctt ttcccatcgc atttagtttt
     4501 gcttggttgc tggtagttgt cgtattagta ttaggttcat aactcataca tagaaaacga
     4561 atggcttccg agtagttatt gatatctgga tttttttcga tgatggaatc taaaacgtca
     4621 atgtgactgg gataaagggt aacgtgtttt tgaacagaag tttttctcat gttatattcc
     4681 tccgataagt gtttcaatga gttggttgtt tgtatgaaca tagtcgttca atgtttcagt
     4741 attttttgct tgtatatcga taaatttttc gagtaataaa tcgaattgat cttttttgta
     4801 atgcctaagt gcctggtcaa aatcgttttc gattagaact tttaggtacg cattacggct
     4861 ccattttttg ccagtttttg ttgtgagttc ttggcaacgt ctatctattt ctgaaataac
     4921 ttttggatca atattccgaa ctaaaatgtc catagaagaa ttcctttcgc atttgtgtat
     4981 aatttatgta tatcatacaa atatagtatt tgtatagctg ttttttgccg aaacactata
     5041 cataagctat ccacaatgac gaaaaagtga tagcaaattt ttttcttaga aacgtggtag
     5101 gcacagccta cctagcacct ttcgtaagaa agtgataccg cgtttcctta tgctctttaa
     5161 aaaatagcga cgtgagatca tgtcgctatg cttgtaaaag caaaaaaaga aagtaaccca
     5221 acaattttta tgaataaaaa ttgttgggtt attgccagaa ttgccaccat tttttctcct
     5281 tgttttgtcc tttttgagtt tcttcagtaa cagaaagggg ttctttttct gaagattctt
     5341 ctgcataggt tagctggagt tgttcgtgaa gttttttgat ttgttgattg gcttgtaggg
     5401 tgagttgttg ttgctggtcg agtaattttt gctgcgtttc taaagctatt tgaagttttt
     5461 caatttgcct atctttttct tcaatatgat tattcttagt ttcaatctcc ttgagtaggt
     5521 aatcggtagg taatgaatcg ggtaattcac taggtaagtt acccgattca ttacctgata
     5581 aaacctttgt aattgttgtt actgcttctt ttttcaggta ggtaatattt ccttttttgt
     5641 aggtaaaatt actaggtaat ttcctcagtt gatacttcac tttatctttt gaaacaccta
     5701 gaatatctgc taattctttg atagttttat ctgtcataaa aaccccttat tctttaaata
     5761 agttttggag attatctag
//
