LOCUS       NZ_CP048315             4417 bp    DNA     circular CON 25-JUN-2024
DEFINITION  Escherichia coli strain 32-4 plasmid p32-4_E, complete sequence.
ACCESSION   NZ_CP048315
VERSION     NZ_CP048315.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN13951925
            Assembly: GCF_010365345.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4417)
  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  JOURNAL   Unpublished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 4417)
  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                     :: 32-4.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_010365345.1-RS_2024_06_25
            Annotation Date                   :: 06/25/2024 03:42:36
            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)                     :: 5,109
            CDSs (total)                      :: 4,987
            Genes (coding)                    :: 4,642
            CDSs (with protein)               :: 4,642
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 345
            CDSs (without protein)            :: 345
            Pseudo Genes (ambiguous residues) :: 0 of 345
            Pseudo Genes (frameshifted)       :: 151 of 345
            Pseudo Genes (incomplete)         :: 215 of 345
            Pseudo Genes (internal stop)      :: 53 of 345
            Pseudo Genes (multiple problems)  :: 66 of 345
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP048315.1.
            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..4417
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="32-4"
                     /isolation_source="environment"
                     /db_xref="taxon:562"
                     /plasmid="p32-4_E"
                     /geo_loc_name="Switzerland"
                     /collection_date="2019"
     gene            complement(314..958)
                     /locus_tag="GZS16_RS24685"
                     /old_locus_tag="GZS16_24685"
     CDS             complement(314..958)
                     /locus_tag="GZS16_RS24685"
                     /old_locus_tag="GZS16_24685"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017900990.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="quinolone resistance pentapeptide repeat protein
                     QnrB19"
                     /protein_id="WP_012954666.1"
                     /translation="MTLALVGEKIDRNRFTGEKVENSTFFNCDFSGADLSGTEFIGCQF
                     YDRESQKGCNFSRAMLKDAIFKSCDLSMADFRNVSALGIEIRHCRAQGADFRGASFMNM
                     ITTRTWFCSAYITNTNLSYANFSKVVLEKCELWENRWMGTQVLGATFSGSDLSGGEFST
                     FDWRAANFTHCDLTNSELGDLDIRGVDLQGVKLDSYQASLLMERLGIAVIG"
                     /name="quinolone resistance pentapeptide repeat protein
                     QnrB19"
     gene            complement(1052..>1207)
                     /locus_tag="GZS16_RS24690"
                     /old_locus_tag="GZS16_24690"
                     /pseudo=""
     CDS             complement(1052..>1207)
                     /locus_tag="GZS16_RS24690"
                     /old_locus_tag="GZS16_24690"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_309907.2"
                     /GO_function="GO:0043565 - sequence-specific DNA binding
                     [Evidence IEA]"
                     /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="helix-turn-helix domain-containing protein"
                     /name="helix-turn-helix domain-containing protein"
     gene            2274..2510
                     /locus_tag="GZS16_RS24695"
                     /old_locus_tag="GZS16_24695"
     CDS             2274..2510
                     /locus_tag="GZS16_RS24695"
                     /old_locus_tag="GZS16_24695"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016230891.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_016230891.1"
                     /translation="MTRLTNLTPAEKKFIDDAIAAAERAAGKKLNQPNRHIVLNRARAQ
                     IESQRYADRQRALREDERQQSDFAWSRPRAPRR"
                     /name="hypothetical protein"
     gene            2724..3128
                     /locus_tag="GZS16_RS24700"
                     /old_locus_tag="GZS16_24700"
     CDS             2724..3128
                     /locus_tag="GZS16_RS24700"
                     /old_locus_tag="GZS16_24700"
                     /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_061604172.1"
                     /translation="MKILAAMEIADCDFEHMDMDVLVGALLKLKLWDSHHHNLNMQGKR
                     SFLDDLRADGIEAIKKYEAEIESENESFAEERLILRIYQNELGLWLGRLFCGEAEIGQC
                     GVYGSADEVRTAARQSGILCDSIEIFQKDA"
                     /name="hypothetical protein"
     gene            3993..4229
                     /locus_tag="GZS16_RS24705"
                     /old_locus_tag="GZS16_24705"
     CDS             3993..4229
                     /locus_tag="GZS16_RS24705"
                     /old_locus_tag="GZS16_24705"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001676031.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_012772745.1"
                     /translation="MARLTNLTPAEKKFLDDAVAAAERASGKKLNQPNRHIVLNRARAQ
                     IELQRYADRQRALREDERQQSDFAWSRPRAPRR"
                     /name="hypothetical protein"
     ARG             complement(318..958)
                     /name="qnrB19"
                     /gene="qnrB19"
                     /gene_name="quinolone resistance pentapeptide repeat
                     protein QnrB19"
                     /tool="amrfinderplus"
                     /drug_class="QUINOLONE"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          1937..2110
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.5600000000000002e-86"
     Typing          3723..3828
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="91.589"
                     /coverage="100.0"
                     /evalue="1.65e-33"
     Typing          complement(1467..1958)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.51"
                     /coverage="81.0"
                     /evalue="0.0"
ORIGIN
        1 gatgttatgt ttaatcggtc tgaccgtcag gtacaaaaaa aagcccttag ggggcttttt
       61 ttttgctatg agttagccat attttcgtta agacatggct tcatgattcg ggagtggtta
      121 ttcgttgttc tcgcgaaaat gaattggtta gatattcatc aaattcctgt ccagaatgca
      181 gcattagatg gcatgtcgtt gatgcggtag gtcaggatat tcgtccactg gagaaaacgt
      241 ttcacaatgc ttgccaggag tcgtactggt taaaagtaaa tcgtcaaacg catctcccgg
      301 tgtaaacgct gaactaacca atcacagcga tgccaagccg ctccatgagc aacgatgcct
      361 ggtagctgtc taacttaacg ccttgtaaat caacaccccg aatatctaag tcacctaact
      421 ccgaattggt cagatcgcaa tgtgtgaagt ttgctgctcg ccagtcgaaa gtcgaaaact
      481 cgccgccgga gagatctgaa ccactgaacg tcgcacccag tacctgagtc cccatccagc
      541 ggttttccca cagctcacac ttttccaaca cgactttcga aaaattggcg tagcttagat
      601 tagtattagt gatatatgcg ctgcaaaacc aggtgcgcgt ggtgatcata ttcataaagc
      661 ttgcaccgcg gaaatctgcg ccttgtgcgc ggcagtggcg aatttcaatg cccaaggcac
      721 tgacgttgcg gaaatctgcc attgataaat cacagctttt gaaaatggca tctttcagca
      781 ttgcgcgact aaaattgcac cctttctgac tttcgcgatc atagaactgg cagccgataa
      841 attcagtgcc gctcaggtcg gcacctgaaa aatcgcagtt aaaaaatgta ctattttcaa
      901 ctttctcacc ggtgaagcga tttctgtcaa ttttttcgcc aactaatgcc agagtcatat
      961 ctatgcctgt gtttttatac agtaatgacg ccatggtaaa ccttatgacg ttatgcgtca
     1021 aacccgccag tatgacacct gcaaatgcgt attagatctg gtgtttcttc agcaaggcac
     1081 gtagctgatg ataagtcaga cccagtaatt cagcggcttt tttctggtta aatttagcct
     1141 gctgtaagct ggtttgtaga aagtctttct cttgctgctg ctggaattca cgcagatcca
     1201 gcgttataac gatgtgtatc ctatgtgctc ggattggata gatttccatt acggtgaagg
     1261 atcttcttga gatcctttct gtggcgtcgt aatctcttgc tctgtaaacg aaaaaaccgc
     1321 cctgcaaggc ggtttttcga aggttctcag agcagcaact ctttgaaccg tggtaactgg
     1381 cttacgagga gcgcagtaac caaatctgtt ctttcagttt agccttaaca ggcgcataac
     1441 ttcaagacta actcctctaa atcagttacc agtggctgct gccagtggcg ataagtcgtg
     1501 tctttccggg ttggactcaa gatgatagtt accggataag gcgcagcagt cggactgaac
     1561 ggggggttcg tgcatacagt ccatccagga gcgaactgcc ttcgcggaac tgagtgtcag
     1621 gcgtggaatg agataaacgc ggccataaca gcggaatgac accggtaaac cgaaaggcag
     1681 gaatgcgggg gagcacgagg gagccaccag ggggaaacgc ctggtatctt taagccgcat
     1741 cgggtttcgc caccactgat ttgagcgtca gatttcatga tgtttgtcag gggggcggag
     1801 cctatggaaa aacggcttcg ccgcggcctt atctcttccc tgttaagctc cttcctggta
     1861 tctcccagga aatttccgcc ccgcctgtaa gccggcaccg ctcgccgcag ccgaacgacc
     1921 gagcgcagcg agtcagtgag cgaggaagcg gaatatatcc tgtactacat atcctgctga
     1981 cgcgctggtg ccgccttttt tctcctgcta catgaagcac ttcactgatt tccacatccg
     2041 tgccaacata gtcagccagt atacactccg ctagcgctac gtgactggtt cagggctgcg
     2101 ccccgaaacc cgctaaatcc actgacgcgc ctgcggcttg tccaacgcct cacagcaccg
     2161 gattaaaatc cgctcccgtt caccgtttct gactgccttt caccgtcgct tacgcttcat
     2221 cgttcctact gtgtctggca gactgcaggg gctattctca tacggagata aacatgacga
     2281 gactgacaaa cctgaccccc gctgagaaaa agtttatcga cgacgctata gccgctgccg
     2341 aacgtgcggc cgggaagaag ctcaatcagc ctaaccggca catcgtcctg aacagagcgc
     2401 gtgcgcagat tgagtcgcag cgttacgccg accgccagcg tgcattacgt gaggatgagc
     2461 ggcagcagtc cgattttgcc tggtcacgtc cgcgcgcgcc gcgccgctga ttgcggattt
     2521 tggcggttta gtggtgctga tgctgcgaaa tcacctgcgg ttcacccgcg tgcatagcta
     2581 tgcagtcgcg cagaaatcat caggggcgtt tttccgggat gtgggtgagg aaatgtgccg
     2641 gaaacggctc tgatgcgtca gaattgcgct gagggcctgt cagggggtgc tgataacgga
     2701 tgttatggta aatcggaggg tgtatgaaga ttttggctgc aatggaaata gctgattgtg
     2761 attttgaaca tatggatatg gatgtcttag taggggcttt actgaaatta aaattgtggg
     2821 atagccacca tcacaacttg aacatgcaag gtaagaggag ctttctcgat gatttaagag
     2881 cggatggtat tgaggctatt aagaaatacg aggctgaaat tgaatctgag aatgagtcct
     2941 ttgcggagga gcgattaata ctgaggatct atcagaacga gcttggctta tggttaggga
     3001 ggctcttttg tggtgaggct gagatcggtc agtgtggtgt ttatggatcg gctgatgagg
     3061 ttcgaacagc tgcgcgtcaa agcggtattt tgtgcgatag catcgaaatt tttcaaaagg
     3121 atgcctaatg cccccgtggt gggtacacca gaaaacgggg agcggagcga ccagcgtcag
     3181 gtcgttctat gttgttctga ttgtgtgggt gttgtgccag actgggcaat cgcatttcac
     3241 cgcaactcct gccttgaatc tcactttatc aggtgcctgt tatcgtacag cgagacgggg
     3301 tagagcttaa ctctttcgcg gctaagttac gtttccaccg tttgcctgtt tatcctgccg
     3361 gagtccgggg cgtagacctg agtttcaagg gtgcagatat gattttaatg tcgttgaatg
     3421 gtattaagct ggtagtgaca aggctagcca gccctgctag gataggattg ctacgtctga
     3481 tcctggcagg tatctgcgaa gaattagagt accgaagccc tgtgattctg tcacggggct
     3541 tttgtacatc tgtagcctga tttttcaaca agatccccgt cacacctcac ttcatgtatg
     3601 tgaaaaaagt tgtagtgccc gccgcagtct cacgtccgga gcgtagcgac cgagtgagcg
     3661 aggaggcatc atttcactat tcgggcatgg tattgcggac gcttctgagc cacatatcac
     3721 acctgccaca tgacgcactt tcctgataac cgcacctatg ccaacatatt aagccagtat
     3781 acactccgct agcgctacgt gactggttca gggctgcgcc ccgaaaccgg ctaaaagcta
     3841 atgacgcgcc tgcggcttgt ccaacgcctc acggcaccgg attaaaatcc gctcccgttc
     3901 accgtttctg actgcctttc accgtcgctg gcgcttcatc gtttctactg tgtctggcag
     3961 actgtgctga tttattctga ctggagaacg ttatggccag actgacaaac ttgacgcctg
     4021 cagagaaaaa atttcttgat gatgctgttg ccgcagctga aagagcgtca ggtaaaaagc
     4081 taaatcagcc taaccggcac atcgtcctga acagagcgcg tgcgcaaatt gagttgcagc
     4141 gttacgccga ccgccagcgt gcattacgtg aggatgagcg gcagcagtcc gattttgcct
     4201 ggtcacgtcc gcgcgcgccg cgccgctgat tttggctttt ggcggtttag tggtgctgac
     4261 gctgcgaaat cacctgccat tcacctgcgt gcatagccat gcagtcgcgc agaaatcatc
     4321 aggggcgttt ttccgggata ctggtgagga aaggtgctgg aaacggccct gatgcagcag
     4381 gattgcgctg agggcgcctg cgggggtgcg ggcaagg
//
