LOCUS       NZ_CP067271             4664 bp    DNA     circular CON 18-JUN-2023
DEFINITION  Escherichia coli strain ABW_S38 plasmid pABW_S38f, complete
            sequence.
ACCESSION   NZ_CP067271
VERSION     NZ_CP067271.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN17214841
            Assembly: GCF_017639105.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4664)
  AUTHORS   Biggel,M.
  TITLE     Characterization of fosA carrying plasmids from multidrug resistant
            Enterobacteriaceae food and environmental isolates
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4664)
  AUTHORS   Biggel,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-JAN-2021) Institute for Food Safety and Hygiene,
            University of Zurich, Winterthurerstrasse 272, Zurich 8057,
            Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology :: Illumina MiniSeq, Oxford Nanopore MinIon
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/18/2023 04:00:56
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,122
            CDSs (total)                      :: 5,007
            Genes (coding)                    :: 4,821
            CDSs (with protein)               :: 4,821
            Genes (RNA)                       :: 115
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 186
            CDSs (without protein)            :: 186
            Pseudo Genes (ambiguous residues) :: 0 of 186
            Pseudo Genes (frameshifted)       :: 46 of 186
            Pseudo Genes (incomplete)         :: 129 of 186
            Pseudo Genes (internal stop)      :: 37 of 186
            Pseudo Genes (multiple problems)  :: 27 of 186
            Pseudo Genes (short protein)      :: 5 of 186
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP067271.1.
            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..4664
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="ABW_S38"
                     /isolation_source="waste water"
                     /db_xref="taxon:562"
                     /plasmid="pABW_S38f"
                     /geo_loc_name="Switzerland: Basel"
                     /collection_date="2015"
                     /collected_by="ILS, University of Zurich"
     gene            join(3822..4664,1..300)
                     /gene="wzz(fepE)"
                     /locus_tag="JJB13_RS25270"
                     /old_locus_tag="JJB13_25265"
     CDS             join(3822..4664,1..300)
                     /gene="wzz(fepE)"
                     /locus_tag="JJB13_RS25270"
                     /old_locus_tag="JJB13_25265"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010435173.1"
                     /GO_component="GO:0016020 - membrane [Evidence IEA]"
                     /GO_process="GO:0009103 - lipopolysaccharide biosynthetic
                     process [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="LPS O-antigen length regulator Wzz(fepE)"
                     /protein_id="WP_021544858.1"
                     /translation="MSAMDFKKNTDLDFPRYATPAVSTKEIDLLGLLDVLLAAKKRIVT
                     IVLAFAVVGLAIAFLIPQKWTSKAVITPAEQTQWNTLRQMMVTLQVLDVDAKVSRGDVF
                     NLFIKKFQSQSLLEEYMKTSPYVMSQLEGTEVDPLELHRAVVNIAEKMKATDNTQVKDA
                     DKAPYTSWTLSFTAPTAGDAQTVLEGYINYISRIVEQETMENIRNQITLKTKVVQQQLE
                     LDRVRLTNIHNTNLQRLNYSLEVANAAGIKKPVYSNGQAVKDDPDYSVALGADGIAQKL
                     QIEKNLKDVAELNADFQNREYYLTQLQKLSVEDVKLEPFRYQLSPSLPVKKDGPGKALI
                     VLLAGILGGLFACGSVLLREAMLSRNPLPEPITAVTPATE"
                     /name="wzz(fepE)"
     gene            complement(338..>580)
                     /locus_tag="JJB13_RS25275"
                     /old_locus_tag="JJB13_25270"
                     /pseudo=""
     CDS             complement(338..>580)
                     /locus_tag="JJB13_RS25275"
                     /old_locus_tag="JJB13_25270"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_003862821.1"
                     /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="cupin domain-containing protein"
                     /name="cupin domain-containing protein"
     gene            <577..759
                     /locus_tag="JJB13_RS25280"
                     /old_locus_tag="JJB13_25275"
                     /pseudo=""
     CDS             <577..759
                     /locus_tag="JJB13_RS25280"
                     /old_locus_tag="JJB13_25275"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007798797.1"
                     /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="NINE protein"
                     /name="NINE protein"
     gene            1945..2058
                     /locus_tag="JJB13_RS25285"
                     /old_locus_tag="JJB13_25280"
     CDS             1945..2058
                     /locus_tag="JJB13_RS25285"
                     /old_locus_tag="JJB13_25280"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_071778980.1"
                     /translation="MHEPPVQSDRCVFSGNYRLESKPERHDKAPLAAATGN"
                     /name="replication initiation protein"
     gene            2366..>2497
                     /locus_tag="JJB13_RS25700"
                     /pseudo=""
     CDS             2366..>2497
                     /locus_tag="JJB13_RS25700"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_013578013.1"
                     /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="zinc-ribbon domain-containing protein"
                     /name="zinc-ribbon domain-containing protein"
     gene            complement(2646..3627)
                     /locus_tag="JJB13_RS25290"
                     /old_locus_tag="JJB13_25285"
     CDS             complement(join(2646..2834,2836..3627))
                     /locus_tag="JJB13_RS25290"
                     /old_locus_tag="JJB13_25285"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_048909999.1"
                     /ribosomal_slippage=""
                     /GO_function="GO:0004803 - transposase activity [Evidence
                     IEA]"
                     /note="programmed frameshift; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="IS5-like element IS5 family transposase"
                     /protein_id="WP_225899375.1"
                     /translation="MSHQLTFADSEFSSKRRQTRKEIFLSRMEQILPWQNMVEVIEPFY
                     PKAGNGRRPYPLETMLRIHCMQHWYNLSDGAIEDALYEIASMRLFARLSLDSALPDRTT
                     IMNFRHLLEQHQLARQLFKTINRWLAEAGVMMTQGTLVDATIIEAPSSTKNKEQQRDPE
                     MHQTKKGNQWHFGMKAHIGVDAKSGLTHSLVTTAANEHDLNQLGNLLHGEEQFVSADAG
                     YQGAPQREELAEVDVDWLIAERPGKVRTLKQHPRKNKTAHQHEYMKASIRAKVEHPFRI
                     IKRQFGFVKARYKGLLKNDNQLAMLFTLANLFRADQMIRQWERSH"
                     /name="IS5-like element IS5 family transposase"
     Typing          1674..2062
                     /name="rep_cluster_2373"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.153"
                     /coverage="91.0"
                     /evalue="1.04e-173"
ORIGIN
        1 cagattgaaa agaatctgaa ggacgtggcc gagctgaatg cggatttcca gaaccgtgaa
       61 tactatctga ctcagttgca aaaactgtcc gtggaagacg tgaagcttga acccttcagg
      121 tatcagcttt caccgtcact gccggtgaaa aaagacggtc cgggcaaagc cctgattgtg
      181 ctgctggcag ggattctggg cggcctgttt gcctgcggca gcgtgctgct gcgtgaggca
      241 atgctctcgc gtaatccgtt gccagagccg ataacggccg taacgccagc aacagagtaa
      301 cgacgatatt aaaaaggcgc tgattcagcg ccttttttta tttcaggaaa tcgtcgcgca
      361 ccggcgtaaa ggtatccaga agggtgccgg gcttcaggca aatgcagccg tgcatcacgt
      421 gcggcgcttt atagagcgta tcgcccgccg tcacgatctg cttttcttca cctatcgtaa
      481 actcgaactc cccggagagc acataggtaa gctgttcatg cgggtgattg tgcatcgggc
      541 caatcgcacc ctgctcaaaa ttgacctcca ccgccatcat ctttcttagc attcttcctt
      601 ggtggatttg gcgtacataa attttactta ggtaaaatag gacagggatt cctgtatcta
      661 attttttgct ggacattcat acccgcgatc atcgcgttta ttgagtttat tatttatcta
      721 tgcgattccg atgaaaaatt cgcaagaaaa tatggctaac tcatagcaaa aaagccctgc
      781 ggggcttttt ttgtaccagt ctgtgaggca gatttaccat aacatccgtt gcgtgcaccg
      841 cctgagaggc tctcagggcg tttctggttc ttcctgcctg tttccgacac ttccctgtgc
      901 ctatatcgtg aaaaaacgcg cctgatgatt ctggcgcgtc tgcatggcta tgcacacaca
      961 tgcatggccg ggattttagc ggctaaaatc cggctggacg cccaaaagca ccactgaacc
     1021 tcacgaataa cgcctcacgg gtgtgcagtt tactgtgcgg ccgtgaggcg ttggccaggc
     1081 cgtcaggcat ggctggattt attgctaagg gggtcggatt taacgtggat gaatcagcac
     1141 gcagtgatga acgggattcg gaaggggcac ccttgcggcg cggcgatgta tacatcgcta
     1201 acgtgccttg gtcatttatt gcaagaaggg agaggtagca ttttgatagc aaaaaagtag
     1261 caaaaggata gcaaccgaaa gaccagaaga ctctggagat agcaaaaaag tagcaaaatg
     1321 gtagcaaaaa gatagcaaac atgcgggagc taaccaggag tctttagcgg gccggcggta
     1381 ctccaaaaac acatcttgtc ccgctgtttt gtgaataagc cagcatagct gtgggcacaa
     1441 aacatttcct gtccgctgct ttaacctttg taatccagga acgtcaggtg acgtcacttt
     1501 gcggcgttag ccctatcctg catcgtatta aaaaatgcag cactggcgcg tacggtgccg
     1561 aagataagtc cggggatatt ccgcttcctc gctcactgac tcgctacgct cggtcgttcg
     1621 gctgcggcga gcggagggaa cggagacatt aaggcacagg caatgagaga ggatcgagag
     1681 gcaaaagaaa aggccgcggc gttgccggtt ttccataggc tccgcccccc tgacaagcat
     1741 cacagaatct gacgctcaaa tcagtggtgg cgaaacccga caggacttaa agataccagg
     1801 cgtttccccc tggtggctcc ctcgtgcgct ctcctgttcc tgcctttcgg tttaccggtg
     1861 tcattccgct gttatggccg cgtttatctc attccacgcc tgacactcag ttccgggtag
     1921 gcagttcgct ccaagctgga ctgtatgcac gaaccccccg ttcagtccga ccgctgcgtc
     1981 ttctccggta actatcgact tgagtccaag ccggaaagac acgacaaagc gccactggca
     2041 gcagccactg gtaactgatt tagaggagtt agtcttgaag ttatgcgcct gttaaggcta
     2101 aactgaaaga acagatttgg ttactgcgct cctcataagc cagttaccac ggttcaaaga
     2161 gttgcagctc tgagaacctt cgaaaaaccg ccttgctggg cggttttttc gtttactgag
     2221 caagagatta cgacgctaca gaaaggatct caagaagatc cttcaccata atggaaatct
     2281 atcccacccg agcatatagg atgcatatcg ttataaaaca tcggatatta tgcatcccaa
     2341 ctaaaaataa gctcgaggat aaaaaatgag ttcaatggtt tactgccgag gatgcggcaa
     2401 ggaaatacac gaaacagcaa agtcatgccc acactgcgga gccacaaacg cctcttcagg
     2461 ttcaggtgaa aaaagtagaa tcgcagccgc gctattaggg aaggtgcgaa taagcgggga
     2521 aattcttctc ggttgactca gtcatttcat ttcttcatgt ttgagccgat ttttttctcc
     2581 cgtaaatgcc ttgaatcagc ctatttagac cgtttcttcg ccatttaagg cgttattccc
     2641 agtttttagt gagatctctc ccactgacgt atcatttggt ccgcccgaaa caggttggcc
     2701 agcgtgaata acatcgccag ttggttatcg tttttcagca accccttgta tctggctttc
     2761 acgaagccga actgtcgctt gatgatgcga aatgggtgct ccaccttggc ccggatgctg
     2821 gctttcatgt attcgatgtt gatgggccgt tttgttcttg cgtggatgct gtttcaaggt
     2881 tcttaccttg ccggggcgct cggcgatcag ccagtccaca tccacctcgg ccagctcctc
     2941 gcgctgtggc gccccttggt agccggcatc ggctgagaca aattgctcct ctccatgcag
     3001 cagattaccc agctgattga ggtcatgctc gttggccgcg gtggtgacta ggctgtgggt
     3061 caggccactc ttggcatcga caccaatgtg ggccttcatg ccaaagtgcc actgattgcc
     3121 tttcttagtc tgatgcatct ccggatcgcg ttgctgctct ttgttcttgg tcgagctggg
     3181 tgcctcaatg atggtggcat cgaccaaggt gccttgagtc atcatgacgc ctgcttcggc
     3241 cagccagcga ttgatggtct tgaacaattg gcgggccagt tgatgctgct ccagcaggtg
     3301 gcggaaattc atgatggtgg tgcggtccgg caaggcgcta tccagggata accgggcaaa
     3361 cagacgcatg gaggcgattt cgtacagagc atcttcgatc gcgccatcgc tcaggttgta
     3421 ccaatgctgc atgcagtgaa tgcgtagcat ggtttccagc ggataaggtc gccggccatt
     3481 accagccttg gggtaaaacg gctcgatgac ttccaccatg ttttgccatg gcagaatctg
     3541 ctccatgcgg gacaagaaaa tctcttttct ggtctgacgg cgcttactgc tgaattcact
     3601 gtcggcgaag gtaagttgat gactcatgat gaaccctgtt ccatggctcc agatgacaaa
     3661 catgatctca tatcagggac ttgttcgcac cttccctaaa tctgatagtc ggtctacaga
     3721 tagatcaatc tggcgttcag attattctta ctttcttgta tcatccgacc actgcaacca
     3781 atcaggcaga aatttactgc gctccaaaaa gaagaacggt tatgtcagcg atggatttca
     3841 agaaaaacac ggacctcgat tttccccgtt atgccactcc ggcggtaagc accaaagaga
     3901 tagatctcct ggggttgtta gacgtacttc tggcagccaa aaaacgtatt gtgacgatcg
     3961 tcctggcgtt cgccgtagta gggttggcca ttgcgttttt aatcccgcaa aaatggacca
     4021 gtaaagccgt gatcacgccg gccgagcaga cgcagtggaa cacgctgcgc cagatgatgg
     4081 tgacgctgca ggtgctggac gtcgacgcga aggtgagccg tggagacgtg tttaacctgt
     4141 tcatcaaaaa gtttcagtcg cagtcgctgc tcgaagagta catgaaaacc tccccgtacg
     4201 tgatgtctca gctggaaggc accgaggtag acccgctgga gctgcatcgc gcggtggtga
     4261 atattgctga gaaaatgaaa gcgacagata acacgcaggt taaagacgca gacaaagcgc
     4321 cgtatacctc atggacgctg agctttaccg ccccgacggc gggagacgcg cagacggttc
     4381 tggaaggtta catcaactat atctcccgca ttgttgagca ggagacgatg gaaaatatcc
     4441 gtaaccagat cacgctgaaa acgaaagtcg ttcagcagca gctggagctg gatcgcgtgc
     4501 gtctgaccaa tatccacaac accaacctgc agcgcctcaa ctattcgctg gaagtggcga
     4561 acgcggcagg cattaagaag ccggtttaca gcaacggaca ggcggtaaaa gacgatcctg
     4621 actactccgt ggcgctgggt gctgacggta ttgcgcaaaa gctg
//
