LOCUS       CP063645                5779 bp    DNA     circular BCT 04-APR-2022
DEFINITION  Enterococcus faecium strain ICU-2-1 plasmid pZA2-1_06, complete
            sequence.
ACCESSION   CP063645
VERSION     CP063645.1
DBLINK      BioProject: PRJNA669626
            BioSample: SAMN16483150
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                   :: 336.3x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 10/27/2020 18:41:31
            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)                     :: 3,018
            CDSs (total)                      :: 2,927
            Genes (coding)                    :: 2,804
            CDSs (with protein)               :: 2,804
            Genes (RNA)                       :: 91
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 69
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 123
            CDSs (without protein)            :: 123
            Pseudo Genes (ambiguous residues) :: 0 of 123
            Pseudo Genes (frameshifted)       :: 44 of 123
            Pseudo Genes (incomplete)         :: 70 of 123
            Pseudo Genes (internal stop)      :: 23 of 123
            Pseudo Genes (multiple problems)  :: 13 of 123
            ##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-2-1"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pZA2-1_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            complement(join(5652..5779,1..841))
                     /locus_tag="IQN02_15055"
     CDS             complement(join(5652..5779,1..841))
                     /locus_tag="IQN02_15055"
                     /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="UOC57250.1"
                     /translation="MANEIVKYHHELNTIPLRKFTSVEMNLFFSIISRMRDVGDKKVQF
                     TFEQLKDLSNYKATANVRFIDDLETTYDKLMDLRFGRRSADGLQRERFVLFNQFKIDGK
                     ADIPFAEIQVHEKALPLLNNLEEWVRYSLQQFNELESSYSKTMFRLLKQYRTKGIANFS
                     KEDFHELLDIPKSYRESDINKKIIKPIRQELTAIFKGLTIQKRYGKGRGKPVIGYQFTF
                     KPEIKKSDDFNKHAPTKEEQNKALELANQQVQSEKEPTSLQEKIKEQKRKLELLQQLAE
                     LERKQNTPSKKINKQIADNNSDITPEFKENLLDNLQNLFKE"
                     /name="replication initiation protein"
     gene            complement(1975..2397)
                     /locus_tag="IQN02_15060"
     CDS             complement(1975..2397)
                     /locus_tag="IQN02_15060"
                     /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="UOC57252.1"
                     /translation="MVNKLIALVMGLVLVLFLTSCSKKQEIQKTDLIPFLGTWQTKDHS
                     ERLVITNLNTSKNIEQYTILVKENNHKIQIIDKNLNINEQVFIYKATNNLLTLRSNKKQ
                     LDYTFSLDSPKKLVFILTTNDGTEGTAKPIEFFKAD"
                     /name="hypothetical protein"
     gene            complement(2391..3545)
                     /locus_tag="IQN02_15065"
     CDS             complement(2391..3545)
                     /locus_tag="IQN02_15065"
                     /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="UOC57251.1"
                     /translation="MIILKPKKKIYLGLLFSLMIGIFSIGITNTYASENSNFNINSQPI
                     EEQAINFAKTDFEHSITSILLMENNTETDINYTLGSPFKMLDGENTANSSIFFPVFSDA
                     DNTIKYIYTVKKNTNGEYSGSISQFLAKELQNLVDSNITDTTLFFQDNSIYYSDNGQIK
                     LLWKSPLSTEKNGVSSLTEKNDLISVNIKNKIKNFSKKQNFPAVKRVKSVSSGDNFIMI
                     NWRIAETQTSFPWCAAYVEAAILCNKTDVRATSARAIMHYTYPNLNNSQIESKSLNQDQ
                     IIKYANYCGVYPKKIARILNLSEVQTQLRKGNAIYMGTAGYGNYSNSRHALALFGWVNQ
                     GGYQTYYVWNPWYNYPTVISANAGPVTIPVPGGGFTWDNTITNW"
                     /name="peptidase C47"
     gene            complement(4159..4575)
                     /locus_tag="IQN02_15070"
     CDS             complement(4159..4575)
                     /locus_tag="IQN02_15070"
                     /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="UOC57247.1"
                     /translation="MRKTSVQKHVTLYPSHIDVLDSIIEKNPDINNYSEAIRFLCMSYE
                     PNTNTTTTSNQAKLNAMGKEISIMSEIIAEFADLYLKDTGVLIGTNSKVYQEVKEKIEN
                     QLNPSRRNQPKNRQKETNQTFTSRNFDPTNFLKR"
                     /name="hypothetical protein"
     gene            complement(4577..4858)
                     /locus_tag="IQN02_15075"
     CDS             complement(4577..4858)
                     /locus_tag="IQN02_15075"
                     /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="UOC57248.1"
                     /translation="MDILVRNIDPKVISEIDRRCQELTTKTGKKWSRNAYLKVLIENDF
                     DQALRHYKKDQFDLLLEKFIDIQAKNTETLNDYVHTNNQLIETLIGGI"
                     /name="hypothetical protein"
     gene            complement(5154..5642)
                     /locus_tag="IQN02_15080"
     CDS             complement(5154..5642)
                     /locus_tag="IQN02_15080"
                     /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="UOC57249.1"
                     /translation="MTDKTIKELADILGVSKDKVKYQLRKLPSNFTYKKGNITYLKKEA
                     VTTITKVLSGNESGNLPSELPDSLPTDYLLKEIETKNNHIEEKDRQIEKLQIALETQQK
                     LLDQQQQLTLQANQQIKKLHEQLQLTYAEESSEKEPLSVTEETQKGQNKEKKWWQFWQ"
                     /name="DUF536 domain-containing protein"
     Typing          complement(2..841)
                     /name="rep_cluster_1093"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ctgctaactg ttgtaaaagt tctaattttc gtttttgttc tttgattttt tcttgtaatg
       61 aagtaggttc tttttcagat tgaacctgtt gattagctag ttccaaagct ttattttgtt
      121 cttctttggt tggagcatgt ttgttaaagt cgtctgattt ttttatctca ggtttaaatg
      181 taaattgata gccaatgaca ggctttcccc gtccttttcc gtatctcttt tggattgtca
      241 aacctttgaa gattgcggtt agttcttggc gaataggctt tataattttt ttatttatat
      301 cactttctct ataactttta gggatatcaa gtaattcatg aaagtcttct tttgaaaaat
      361 tggcaattcc tttggttctg tattgtttta ataatctaaa catggttttg gaataactgc
      421 tttctaattc attgaattgt tggagagaat atcgaaccca ttcttcaaga ttattaagta
      481 agggtaaggc tttctcatgg acttgtattt cagcaaaagg aatatcagct tttccatcga
      541 ttttaaattg attaaataaa acaaatcgtt cacgttgcaa accgtcagca cttcttctac
      601 caaaacgtaa atccattaat ttgtcatacg ttgtttctaa atcatctatg aatcgaacat
      661 ttgcagttgc tttataattg cttaaatctt ttaattgttc gaatgtaaat tgtacttttt
      721 tatcgcctac atcacgcatt ctagatatta tagagaagaa taaattcatt tctactgacg
      781 taaatttgcg taaaggaatc gtatttaatt catggtggta tttcacaatt tcatttgcca
      841 taaaatcctc cttcaagatt aactacttaa caaaattata aagagctttc taatgggggt
      901 caacccccta attaaagacc cctaaaaaca gacaaaaaga cccctaaaaa cagacaaaaa
      961 gacccctaaa aacagacaaa aagaccccta aaaacagaca aaaagacccc taaaagattc
     1021 tgcacacctt gggagagtaa ggatacagcc gacggtaaag aggtttaaaa agaggttata
     1081 aaagagatta taaaagaggg gggcaaaatt tcccgcctaa aattttccta ctttttttct
     1141 ccaaacaggt tcgcgaaatt tcctaaactg ggaatctgct ccctacggtc gctttaaagg
     1201 tgtgatcgct acgctctcac attaaactgc gcagtcgcct aaaggctcct ttgcttaaaa
     1261 acagttcgta aggagtcctt ttagaagctc tgagcgctca tctacggcgt tttaagacaa
     1321 gtctagataa aatcccttat cttgttttta aagcgcctta caggcggtca gggcaagccc
     1381 taacaaccct aaaacgttct acagaacctc taaaattcgt tttaaggcgt tttaaagtcg
     1441 ctttggtata attacatacc agaacgttta aaacgcctta aaacgcaaat tagagcccta
     1501 tgtatatatc gactaatgtt acctagactt ttacggaagc cggcacactc atttgcaaag
     1561 cttcagagtt gcaaatttgg attcgctcac tcgaaaactg atttattttg actctgatca
     1621 ataggtgtat tttttagaag gattgctagc caaattttgc tttaatttgc tcataagtcc
     1681 cacccttttg atacgtccta tggacgtatc gtttgtaatg tgaaagtgac tataaggtcc
     1741 ctttctacaa aacacactaa agggcttggc aagctctata tttgctagcc aaatacctac
     1801 gtatttggtg caaataaccg cttgtcaaag gggcgcaagc tcccccttga atccccctca
     1861 aaacccacgc tccacaatac aaaaaaggct agcaaatgct agccactttt tgtaaagttt
     1921 cgcttgtttc accttcggtg aaattattgt tttgtaatat caaacaacta ttcatcaatc
     1981 agctttaaaa aattcaattg gtttagctgt cccttctgtc ccatcattcg ttgtcaaaat
     2041 aaatacgagc ttttttggag aatccaaact aaaagtgtaa tctaattgtt ttttattcga
     2101 gcgcagtgtt agtaaattat ttgttgcttt gtaaatgaaa acttgttcat ttatatttaa
     2161 atttttatca atgatttgaa ttttatgatt gttctctttt actaagatgg tatattgttc
     2221 tatatttttt gaagtattta aattagtgat tactagacgt tctgaatgat ctttagtttg
     2281 ccaagttcct agaaaaggaa tcagatcagt cttttgtatt tcttgttttt ttgaacaact
     2341 agttaagaaa agaactaaca ctagacccat aactaaagca atgagtttat ttaccaattt
     2401 gtaatggtat tgtcccaagt aaaaccacct ccaggtacag gaattgtaac tggtcctgca
     2461 tttgcactta ttacagttgg gtagttatac caaggattcc acacatagta agtttgataa
     2521 ccaccttgat tgacccaccc aaataatgca agtgcatgac ggctgttact ataatttcca
     2581 taaccagcag ttcccatata aatggcattt ccttttctta gttgtgtttg gacctctgaa
     2641 aggtttagta ttcgtgctat ttttttagga taaacaccac agtaatttgc atattttatt
     2701 atttgatctt gattaagact ttttgattca atttgactgt tgtttaaatt aggataggta
     2761 taatgcataa tggctctagc tgaagtagca cgtacatctg ttttgttaca taagatagca
     2821 gcttctacgt aagcagcgca ccacggaaaa cttgtttggg tttctgctat acgccaatta
     2881 atcataataa agttatctcc ggaggagaca ctttttacac gtttaaccgc aggaaaattt
     2941 tgttttttag aaaaattttt aattttattt tttatattta cggatataag atcatttttt
     3001 tctgtaaggg aagaaacacc atttttttct gtacttaaag gtgatttcca aagtagttta
     3061 atttgtccat tatcggaata ataaatgcta ttatcttgaa aaaataaggt tgtatctgtt
     3121 atattactat ctactagatt ttgaagttct tttgctaaaa attgtgaaat acttcctgaa
     3181 tattctccat ttgtattttt tttgacggta taaatatatt taatcgtatt atcagcgtct
     3241 gaaaatactg gaaagaaaat agaactattt gccgtatttt ctccatcgag cattttaaat
     3301 ggcgaaccaa gagtatagtt aatatcagtt tcggtgttat tttccattaa aagaattgaa
     3361 gttatggagt gttcaaaatc agttttcgca aaattaattg cttgttcttc aattggttgg
     3421 gagttgatat tgaaattaga attttctgaa gcataggtat ttgtaattcc tatactaaaa
     3481 attccaatca tcaaggaaaa gaggagacct agataaattt tctttttggg tttcaaaata
     3541 atcacgcctt tgtgttaaat ttaagtggta tacacctata attaaaatat acaatatgcg
     3601 ataacaaatt tttgttatag ttcataaaat attgttttgg gaacataatc gttatttata
     3661 gcgttagtta acataatgta cactatgcca agtagcccct ctaccaaccg atccagccgc
     3721 tcactttgtg atttttcatt ggtctagcta aaaggtacgt tcggaagctt gattttccgc
     3781 tattgtctgt ttacgattct ttgtgaatct taaccgattc ctttttagaa acttgttatt
     3841 tttcataaaa tatggtaaat ttttggcagc gcttcataag cgcgctgctt tttcaagaat
     3901 aaacgctcat tattttttat tggctgctcg ttagagcagt ctttttttat ttcagagtac
     3961 gttctatttt tttgagttac cacgctatta aataaccgat atttggagat tggggcagcg
     4021 ccccaaaatg caaaaagaag gattcgcaca agcggatttt tctttttttg tgcaagttac
     4081 cggtaacttg caaatcttgc tggaagactg ccccctaaaa aagaaactga gaaatagaaa
     4141 aaattttcgg tttctttttc atctttttag aaagtttgtt gggtcaaaat ttctagaagt
     4201 gaatgtttga ttggtttctt tttgacgatt tttgggttga tttcgtcggg agggattgag
     4261 ttgattttca attttttctt tcacttcttg atatacttta gaatttgtac cgataagaac
     4321 accagtatct tttagatata aatcagcaaa ttctgcaatg atttcggaca taatagaaat
     4381 ttcttttccc atcgcattta gttttgcttg gttgctggta gttgtcgtat tagtattagg
     4441 ttcataactc atacatagaa aacgaatggc ttccgagtag ttattgatat ctggattttt
     4501 ttcgatgatg gaatctaaaa cgtcaatgtg actgggataa agggtaacgt gtttttgaac
     4561 agaagttttt ctcatgttat attcctccga taagtgtttc aatgagttgg ttgtttgtat
     4621 gaacatagtc gttcaatgtt tcagtatttt ttgcttgtat atcgataaat ttttcgagta
     4681 ataaatcgaa ttgatctttt ttgtaatgcc taagtgcctg gtcaaaatcg ttttcgatta
     4741 gaacttttag gtacgcatta cggctccatt ttttgccagt ttttgttgtg agttcttggc
     4801 aacgtctatc tatttctgaa ataacttttg gatcaatatt ccgaactaaa atgtccatag
     4861 aagaattcct ttcgcatttg tgtataattt atgtatatca tacaaatata gtatttgtat
     4921 agctgttttt tgccgaaaca ctatacataa gctatccaca atgacgaaaa agtgatagca
     4981 aatttttttc ttagaaacgt ggtaggcaca gcctacctag cacctttcgt aagaaagtga
     5041 taccgcgttt ccttatgctc tttaaaaaat agcgacgtga gatcatgtcg ctatgcttgt
     5101 aaaagcaaaa aaagaaagta acccaacaat ttttatgaat aaaaattgtt gggttattgc
     5161 cagaattgcc accatttttt ctccttgttt tgtccttttt gagtttcttc agtaacagaa
     5221 aggggttctt tttctgaaga ttcttctgca taggttagct ggagttgttc gtgaagtttt
     5281 ttgatttgtt gattggcttg tagggtgagt tgttgttgct ggtcgagtaa tttttgctgc
     5341 gtttctaaag ctatttgaag tttttcaatt tgcctatctt tttcttcaat atgattattc
     5401 ttagtttcaa tctccttgag taggtaatcg gtaggtaatg aatcgggtaa ttcactaggt
     5461 aagttacccg attcattacc tgataaaacc tttgtaattg ttgttactgc ttcttttttc
     5521 aggtaggtaa tatttccttt tttgtaggta aaattactag gtaatttcct cagttgatac
     5581 ttcactttat cttttgaaac acctagaata tctgctaatt ctttgatagt tttatctgtc
     5641 ataaaaaccc cttattcttt aaataagttt tggagattat ctagtaagtt ttctttaaat
     5701 tctggggtaa tatcggaatt gttatctgct atttgtttgt taattttctt acttggggta
     5761 ttttgttttc tttctaatt
//
