LOCUS       NZ_CP048365             3638 bp    DNA     circular CON 25-JUN-2024
DEFINITION  Escherichia coli strain 53 plasmid p53_F, complete sequence.
ACCESSION   NZ_CP048365
VERSION     NZ_CP048365.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN13951918
            Assembly: GCF_010365485.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3638)
  AUTHORS   Nuesch-Inderbinen,M., Stevens,M.J.A. and Stephan,R.
  TITLE     Environmental dissemination of Carbapenemase-producing
            Enterobacteriaceae in Switzerland
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3638)
  AUTHORS   Nuesch-Inderbinen,M., Stevens,M.J.A. and Stephan,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (31-JAN-2020) Institute for Food Safety and Hygiene,
            University of Zurich, Winterthurerstrasse 272, Zurich, Zurich 8057,
            Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 29-NOV-2019
            Assembly Method                   :: unicycler v. 0.4.8
            Assembly Name                     :: 53.fa
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 80x
            Sequencing Technology :: Oxford Nanopore/illumina minniseq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_010365485.1-RS_2024_06_25
            Annotation Date                   :: 06/25/2024 03:49:38
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,176
            CDSs (total)                      :: 5,058
            Genes (coding)                    :: 4,850
            CDSs (with protein)               :: 4,850
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 208
            CDSs (without protein)            :: 208
            Pseudo Genes (ambiguous residues) :: 0 of 208
            Pseudo Genes (frameshifted)       :: 75 of 208
            Pseudo Genes (incomplete)         :: 139 of 208
            Pseudo Genes (internal stop)      :: 42 of 208
            Pseudo Genes (multiple problems)  :: 43 of 208
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP048365.1.
            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/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..3638
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="53"
                     /isolation_source="environment"
                     /db_xref="taxon:562"
                     /plasmid="p53_F"
                     /geo_loc_name="Switzerland"
                     /collection_date="2019"
     gene            163..558
                     /locus_tag="GZS09_RS25520"
                     /old_locus_tag="GZS09_25520"
     CDS             163..558
                     /locus_tag="GZS09_RS25520"
                     /old_locus_tag="GZS09_25520"
                     /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="WP_094321956.1"
                     /translation="MRISNIDWLKKRIGFIRKLGEQTARQRQIIDLLDNEAGLTEQERK
                     LLHVLATAEKNELQAQENARKQANQKRMEGKTQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELRYQKDNILQKLKAIRLDLETSPDHH"
                     /name="hypothetical protein"
     gene            complement(1660..>1758)
                     /locus_tag="GZS09_RS26165"
                     /pseudo=""
     CDS             complement(1660..>1758)
                     /locus_tag="GZS09_RS26165"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221103.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /name="hypothetical protein"
     gene            <1757..1840
                     /locus_tag="GZS09_RS26170"
                     /pseudo=""
     CDS             <1757..1840
                     /locus_tag="GZS09_RS26170"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_463203.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /name="hypothetical protein"
     gene            complement(1837..2154)
                     /gene="sugE"
                     /locus_tag="GZS09_RS25525"
                     /old_locus_tag="GZS09_25525"
     CDS             complement(1837..2154)
                     /gene="sugE"
                     /locus_tag="GZS09_RS25525"
                     /old_locus_tag="GZS09_25525"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_463202.1"
                     /GO_component="GO:0016020 - membrane [Evidence IEA]"
                     /GO_function="GO:0022857 - transmembrane transporter
                     activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="quaternary ammonium compound efflux SMR
                     transporter SugE"
                     /protein_id="WP_000118520.1"
                     /translation="MSWIVLLIAGLLEVVWAIGLKYTHGFTRLTPSIITIAAMIVSIAM
                     LSWAMRTLPVGTAYAVWTGIGAVGAAITGILLLGESASPARLLSLGLIVAGIIGLKLST
                     H"
                     /name="sugE"
     gene            complement(<2265..2696)
                     /locus_tag="GZS09_RS25530"
                     /old_locus_tag="GZS09_25530"
                     /pseudo=""
     CDS             complement(<2265..2696)
                     /locus_tag="GZS09_RS25530"
                     /old_locus_tag="GZS09_25530"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221103.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /name="hypothetical protein"
     gene            complement(2699..3625)
                     /locus_tag="GZS09_RS25535"
                     /old_locus_tag="GZS09_25535"
     CDS             complement(2699..3625)
                     /locus_tag="GZS09_RS25535"
                     /old_locus_tag="GZS09_25535"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_001314449.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTAEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     LTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQNRTEPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     Typing          complement(2703..3625)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.052"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 cgcaggagcg cactgtttct cgacgaagga gagaaacata taagtgcgct tccttctaat
       61 tttacgaatt agcacggaag ataccccctg cacccaccga ccgcaagcga tatactgcac
      121 aaccccaaca caccgcaaaa aacaccaggg agcatcccaa acatgcgcat cagcaacatc
      181 gactggttga agaaacgaat cggctttatc aggaagctcg gagaacagac cgcacgacag
      241 aggcagatca ttgacctgct cgataacgaa gccggactaa cagaacagga gcgcaaacta
      301 ctccacgtcc tggcaaccgc agaaaaaaac gagctacagg cacaggagaa cgcacgcaaa
      361 caggccaacc aaaaacggat ggaggggaaa acacaacgac gggaacgcaa tcaccgcctg
      421 tttcttgcgg cggggttact gatcgaggcc ggactagtgg acacaaaaac aggcgaactg
      481 agataccaaa aagacaatat attacagaaa cttaaggcaa tcaggctcga tcttgaaaca
      541 agcccagatc atcattaatt ccgctgcgtg gtggtgcgtt tgcctgccgg tgttcaatgt
      601 tttcgatttc gcgacgcgct acgcgcggat ctggcatagg tgcgtacgtg ctcaatgtgg
      661 tttccggttc acttccgctt cctcgcccac tcgctcacta cgttcggtcg ctggggctgc
      721 ggcgagcggt gggatcactc tcacatgatg cagatccttt ttttttttgc tctggagtta
      781 tcagttgttg cggtgctcat gggatcgtgc gatatgctgg atggtggaag gtcggaggga
      841 acggcaacaa ctcacccctc ccagtgaagg gacgggtagt ttgccgctct cgatatgccg
      901 gacggagcca aggccatcga tcacggggcg cgtcggtgga agaacccgcg cctgcgtgac
      961 gtatgcgtct tcgccgcacc atctcacccg tcacgccacc acataccggg aactgccgcc
     1021 aaggtctaac tcaaccaatc tagccgcgct acatacggtt tttgtggcaa ctcatcaggt
     1081 gtccgctgtc gatgaaactc tctgcgccgg tagcggaact ctcacgcgtg cggttgccgt
     1141 cgtcacagct cccccaaccg caaacggtct ttgcaaacac gcaatcatct gcaaaaacag
     1201 gattttttcg ggattctggg gaggctgtgc ggtcggtaat gcttgaagaa tacagaaggt
     1261 tcatgcaaac tgaatgaact ggtttccgtt gtcactgcaa cagactccac aggaacattg
     1321 aggaggtcga aaacctcaat gaacccgaag aagctcgcct aacggcgggc ttttttcgtt
     1381 ctacgctccc tgacgaaaga tcgcaagcac aataacgcga tttttcacgc ttttacgctc
     1441 aaaacatcaa aaaaccatgc tttcccccac ccctacctca aaaaacgcgt cagaaacgtt
     1501 tccaggggct tgcataacta ttcacaaaag tgattcggaa tcaatttcgc caaatctgag
     1561 caccgaacgg gtcaaaacgg caaactttct catcagaaaa cggtgaacgg gacgcggaat
     1621 tttttcgcgt cccgtgaggc gttggacaag cgaagcgcgt cagtttttcc ggctcttccc
     1681 tgttgctggt ttctccgcca gtttatcttc cagtgtcaca actttctgat acaccgccgc
     1741 tgtggcgttg tagttcctga aacagcaaat gttagccatc gcgacccggg aagggtttga
     1801 agtgaataaa ctgatttggg tgaaacagcc tggcgcttag tgagtgctca gcttcagacc
     1861 aataatgcca gcaacgatca gcccaaggct cagcaaacgt gccgggctgg cagactcacc
     1921 cagcagcaaa atccctgtaa tggccgcccc aacagcgcca ataccggtcc agaccgcata
     1981 agcggttcct acaggcaacg tgcgcattgc ccaagagagc atggcgatac tgacgatcat
     2041 cgccgcaata gtgataatgc ttggcgtaag acgcgtaaaa ccgtgggtgt atttcaggcc
     2101 aatcgcccag acaacttcga gcaaacctgc aattaataaa acgatccagg acatatcagg
     2161 ctccagaaca atgggtccgt ccccggtgaa agaagcgttt gcaggtcgtc ctgcaaagct
     2221 aatgtgtgaa atggcatttt tgcccggaag aaaatgaatt tcaagagcat tgttttcatt
     2281 ccccatccaa gcacacagaa cataaccaga aaagccactg acaccccacc cagccatttc
     2341 cagctatacc ctttaagggt gttgtattcc tgcacgatat tgctgtgaat tgtcgcaata
     2401 tccctgttca gggcatccgc gtttgccttc atgtttgcga ctgactcttc cagccgctga
     2461 aaatcctggc tgatgcgctc acctatcagc cctgcaacat ccagcttctg cacctcgttt
     2521 ctgacttcat ccctgacctg ttttgccaca ccgtcagaaa tatcccgata tccgcgaagt
     2581 gtttcccttg ccacagccag agaatcagca acagctttct gttgctccat tgcggtatgt
     2641 tgcagatgct ccaccgataa caggagcgtg agtaattttt cttctgtgct ggccatgttc
     2701 agaatcccat agaaaatcca cgtgacggtg atttaacccg ttcaggttca gttcggttct
     2761 gtctgctcac tctgtctctc atgtcaaagc catgctcccg cgcaacatca tgttgcagcc
     2821 ttctgaccag ttcatgttgc ttaaccggag tgtccagcca ttccctgatg tcatgcccga
     2881 ccgttcgcgc ctgttcaaga tggcgggaat agtccggttc agaccgtttt tgcatgatgt
     2941 catgacgctg ggcatcatca agccgtccgg cagcttcaaa acccagatgc acttcgggac
     3001 gtcgttcaat gccctgttct ttcagcgtcc ggcagtcaat gaagcccctt tcaaagccat
     3061 gctttctcat atgttcgttg tgcttcacct cccagcgttt tcgcaattcc cgcaactgct
     3121 ctttttgctg agtgagagtc aggcttccgg aatccttttt cgcacctccc cgctcgggat
     3181 acctggcgtt atagcgccgg aaatactgtt ccggtgtacg ttcaatgcca tcattcacac
     3241 gctggctcat catgatatgc gcatgaggct gttcgccgcc gtcaatgctc gctttcggat
     3301 tgtgaatggc aaaactccag gcgtgccgtt cgccagcttc ctgacgtaca aaatcctgca
     3361 ccagttcaag gcgctgttcc gctgtcagtt cacggggtaa tgcaatttca agttcccgat
     3421 aggtcgaacc gttcgcacgt tcaaactggt cagccgcctg ccagaaatgt gagggattat
     3481 ctcgcgccca ttccggcatg tttccgtgtg cggaatattc caaatcctga cggtcgcggt
     3541 atttctcttt gcgctcgatg taatcggcgt ggtttgcagc ctgccccttg ccaccaaatt
     3601 taacgctgag gtgataggtt gccacggttt cagccctc
//
