LOCUS       NZ_CP075672             2682 bp    DNA     linear   CON 27-JUN-2023
DEFINITION  Escherichia coli strain STEC2018-553 plasmid pSTEC2018_553-g.
ACCESSION   NZ_CP075672
VERSION     NZ_CP075672.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16993384
            Assembly: GCF_016403675.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2682)
  AUTHORS   Nusch-Inderbinnen,M., Stevens,M.J.A., Cernela,N., Muller,A.,
            Biggel,M. and Stephan,R.
  TITLE     Distribution of virulence factors, antimicrobial resistance genes
            and phylogenetic relatedness among Shiga toxin-producing Escherichia
            coli serogroup O91 from human infections
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2682)
  AUTHORS   Nusch-Inderbinnen,M., Stevens,M.J.A., Cernela,N., Muller,A.,
            Biggel,M. and Stephan,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (15-MAY-2021) Institute for Food Safety and Hygiene,
            University of Zurich, Winterthurerstrasse 272, Zurich, Zurich 8057,
            Switzerland
REFERENCE   3  (bases 1 to 2682)
  AUTHORS   Stevens,M.J.A., Stephan,R. and Nusch-Inderbinnen,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-DEC-2020) Institute for Food Safety and Hygiene,
            University of Zurich, Winterthurerstrasse 272, Zurich, Zurich 8057,
            Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: MAY-2021
            Assembly Method                   :: unicycler v. 0.4.9b
            Assembly Name                     :: STEC2018-553
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 80.0x
            Sequencing Technology :: Illumina MiniSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/27/2023 06:09:25
            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)                     :: 5,752
            CDSs (total)                      :: 5,624
            Genes (coding)                    :: 5,342
            CDSs (with protein)               :: 5,342
            Genes (RNA)                       :: 128
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 98
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 282
            CDSs (without protein)            :: 282
            Pseudo Genes (ambiguous residues) :: 0 of 282
            Pseudo Genes (frameshifted)       :: 118 of 282
            Pseudo Genes (incomplete)         :: 157 of 282
            Pseudo Genes (internal stop)      :: 61 of 282
            Pseudo Genes (multiple problems)  :: 52 of 282
            Pseudo Genes (short protein)      :: 4 of 282
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP075672.1.
            Bacteria and source DNA available from Institute Food Hygiene and
            Safety, University Zurich.
            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..2682
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="STEC2018-553"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pSTEC2018_553-g"
                     /geo_loc_name="Switzerland: Zurich"
                     /lat_lon="47.40 N 8.55 E"
                     /collection_date="2018"
                     /collected_by="ILS/NENT"
     gene            89..454
                     /locus_tag="JFY30_RS28495"
                     /old_locus_tag="JFY30_28495"
     CDS             89..454
                     /locus_tag="JFY30_RS28495"
                     /old_locus_tag="JFY30_28495"
                     /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_000091308.1"
                     /translation="MSRSAKPRKRKPAPQRSKLPRYVVKLHDDDFFDEEDAEALRFDNF
                     DDAVECCADLNIPFFVDAGNKKLVFWFVRVDDEGYPEIARCTEREFATILAGISAGGMY
                     CPECGTVHWPDGVPPPF"
                     /name="hypothetical protein"
     gene            454..1641
                     /locus_tag="JFY30_RS28500"
                     /old_locus_tag="JFY30_28500"
     CDS             454..1641
                     /locus_tag="JFY30_RS28500"
                     /old_locus_tag="JFY30_28500"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_013747467.1"
                     /GO_function="GO:0004803 - transposase activity [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="IS91 family transposase"
                     /protein_id="WP_198779709.1"
                     /translation="MLPRFADIFQQGNRWLNWLEKQPEGSVRPVVIESVTKIMACGTTL
                     MGYTQWCCSSPDCSHIKKVCFRCKSRSCPHCGVKAGAQWIQYLLSLVPDCPWQHIVFTL
                     PCQYWSLVFHNRWLLAEMSRIAADVIQEICLQADLVPGIFTVIHTWGRDQQWHPHIHLS
                     TTAGGVTPDHTWKNLHFYARKVMSMWRYRITRLLSRKYPELVIPDALAVEGSSRRDWNR
                     FLDSHYRRGWNVNVSRVMDNATHVAVYFGSYLKKPPVPMSRLEHYAGQDEIGLRYNSHR
                     TKREEYLVMSGDEFMERFSWHVADKGFRMVRYYGFLSPVKRRLLEEVVYVITETVRKTA
                     MQIRWRGMYQRLLKVDPLKCILCGCQMRFTGLKRGYRLTELVLMHEPLAQQRVCG"
                     /name="IS91 family transposase"
     gene            complement(1853..2134)
                     /locus_tag="JFY30_RS28505"
                     /old_locus_tag="JFY30_28505"
     CDS             complement(1853..2134)
                     /locus_tag="JFY30_RS28505"
                     /old_locus_tag="JFY30_28505"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019077272.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix transcriptional regulator"
                     /protein_id="WP_000780223.1"
                     /translation="MKLVSHKELHNEWMQDDEYRAAWQEEERKEKLRELLAEWRKHDNL
                     TKAQVAERMGVTPPVISRLENNITKASIDTLTRYAHACGIKKPVITLY"
                     /name="helix-turn-helix transcriptional regulator"
     gene            complement(2115..2444)
                     /locus_tag="JFY30_RS28510"
                     /old_locus_tag="JFY30_28510"
     CDS             complement(2115..2444)
                     /locus_tag="JFY30_RS28510"
                     /old_locus_tag="JFY30_28510"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001647051.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WP_000493283.1"
                     /translation="MFSVVYHPEAREEATALPIKIRVKFDRLISKLEYDARLLREPDTK
                     PLGDGLFEIRTMGTDIARGIWVYHKGNTIIMLRVFIKKSQKTPAKEIDLAKKRLAEVLN
                     ETGKP"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
ORIGIN
        1 cgagtaggca gcctggcggc tgcggcttgt catggcctga aattaccgtt ataaaaacag
       61 acaatatcat tgtctttcag gtagttatat gtcccgttca gctaaacccc gtaaacgaaa
      121 acctgcccct caaagaagca aacttccccg ctatgtcgtg aagcttcacg acgatgactt
      181 ctttgacgaa gaagacgcag aagctctgcg ctttgataat tttgacgatg ccgttgagtg
      241 ctgcgcagac ctgaatattc ccttctttgt ggatgccgga aacaaaaagc tggtcttctg
      301 gtttgttcgt gttgatgacg aagggtatcc tgaaatagcc cgctgcacgg agcgggagtt
      361 tgcgaccatt cttgccggta tcagcgccgg cggcatgtac tgcccggagt gtggcacggt
      421 tcactggccg gacggagtcc ccccgccctt ctgatgcttc cccgttttgc cgacattttt
      481 cagcagggaa accgctggct taactggctg gagaaacaac cggaaggttc agtgcgtccg
      541 gtagtcattg agtctgtgac aaaaatcatg gcctgcggga ccacgctgat ggggtacaca
      601 cagtggtgct gttcatctcc ggactgcagc cacataaaaa aggtctgctt ccggtgtaaa
      661 agtcgctcct gcccgcactg cggagtgaag gctggcgcac agtggataca gtatctgctg
      721 agtctggttc ccgactgtcc gtggcagcat attgtgttca cacttccctg ccagtactgg
      781 tccctggtgt tccacaaccg gtggttactg gcagagatga gccgcattgc tgcggatgtg
      841 atacaggaaa tctgcctcca ggcagatttg gtgccgggga tattcacggt gatccacaca
      901 tggggacgtg accagcagtg gcatccgcac attcacctgt cgacaacggc cggcggcgtg
      961 acaccagacc acacctggaa aaaccttcat ttttacgccc gtaaggtgat gagcatgtgg
     1021 cgttaccgga taacacggtt gctgtcacgg aaatacccgg agctggtgat accggatgcg
     1081 ctggcagttg aaggaagcag cagacgggac tggaatcgct tcctggacag tcattaccgg
     1141 cggggctgga atgtcaacgt atcccgggtg atggataacg ccacacatgt ggcggtatac
     1201 ttcggctctt acctgaaaaa accgccggtg ccgatgagcc gtctggagca ctatgctggt
     1261 caggatgaaa ttggtctgcg ttacaacagt caccggacaa aacgggaaga atacctggtg
     1321 atgagtggtg atgagtttat ggaaaggttc tcctggcatg tggcggataa ggggttccgt
     1381 atggtgaggt actacggttt cctgagtccg gtgaagcgcc ggttactgga agaagtggtg
     1441 tacgtcataa cggagacggt gagaaagacg gcgatgcaaa tcaggtggag agggatgtat
     1501 cagcggttac tgaaggttga cccgctgaag tgcatcctgt gcggatgtca gatgcgtttt
     1561 acggggctga agcggggcta ccgtctgaca gagctggtcc tgatgcatga gccactggcg
     1621 caacagcggg tgtgcggctg agagccgcat cggggaagtt gcgtccattt tcaggggaat
     1681 ggagtaaaaa acctgaggtg atatacagta tcaatcgata agatccattt aattgacggc
     1741 ggtgcactca tggcacgcag gcagtgttga ataaacatcc gtttttgggt gtttttttaa
     1801 tctttttggg ttttaaattc ctatcgatga actggcagcc atagagcaga gttcagtaca
     1861 gcgtaataac aggttttttg ataccgcacg catgggcata gcgagtcagg gtgtcgatgc
     1921 tggctttagt gatgttgttt tccaggcggg aaataacagg aggagtaacc cccatgcgtt
     1981 cagcaacctg cgcttttgtc aaattgtcat gcttacgcca ttctgcaagc aactccctga
     2041 gtttctcctt acgttcttct tcctgccatg cagcgcgata ttcgtcgtcc tgcatccact
     2101 cgttatgcag ttctttatgg cttaccagtt tcattaagta cctccgctaa ccgctttttg
     2161 gcgagatcga tttcttttgc tggcgttttc tgagacttct tgatgaaaac ccggagcatg
     2221 atgatggtat tgcctttgtg gtatacccag atacctctgg ctatgtccgt ccccatcgtg
     2281 cggatctcaa aaagtccatc ccccaggggc tttgtatccg gttcccgcag taatcgggcg
     2341 tcatattcca gtttgctgat gagacggtca aacttcaccc tgatttttat gggtaatgct
     2401 gtggcttctt ccctggcttc cgggtgataa acaacgctaa acatatgacc tcccatttcg
     2461 ataaacatta atctatatgc taatcttatg caaggtgaat taacctgtaa gctaatgtag
     2521 caacttgttg tttatgcgcg tcagcgcatg taaggcggca cgctgtggtt acatgtgata
     2581 ccggagtaaa accgccgaag cccggcgtaa gccggtactg attgatagat ttcaccttac
     2641 ccatccccac cctgcaaagc catacccgct gtcagccatg at
//
