LOCUS       NZ_CP075673             2630 bp    DNA     linear   CON 27-JUN-2023
DEFINITION  Escherichia coli strain STEC2018-553 plasmid pSTEC2018_553-h.
ACCESSION   NZ_CP075673
VERSION     NZ_CP075673.1
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 2630)
  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  JOURNAL   Unpublished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 2630)
  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 2630)
  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
            CP075673.1.
            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..2630
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="STEC2018-553"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pSTEC2018_553-h"
                     /geo_loc_name="Switzerland: Zurich"
                     /lat_lon="47.40 N 8.55 E"
                     /collection_date="2018"
                     /collected_by="ILS/NENT"
     gene            <1..321
                     /locus_tag="JFY30_RS28515"
                     /old_locus_tag="JFY30_28515"
     CDS             <1..321
                     /locus_tag="JFY30_RS28515"
                     /old_locus_tag="JFY30_28515"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001107325.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="mobilization protein"
                     /protein_id="WP_215744941.1"
                     /translation="NEGLTISEYIRTASLNNEIKQRVPSKYLDELIRLGRTQKKLFDKG
                     KRPKDKEYLDVMHKIISLCSEMKVVTQRITDIYNEMDLLKQEIKIIKRHHKNKYPGSNI
                     FS"
                     /name="mobilization protein"
     gene            complement(402..941)
                     /locus_tag="JFY30_RS28520"
                     /old_locus_tag="JFY30_28520"
     CDS             complement(402..941)
                     /locus_tag="JFY30_RS28520"
                     /old_locus_tag="JFY30_28520"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001279566.1"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA];
                     GO:0006276 - plasmid maintenance [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication/maintenance protein RepL"
                     /protein_id="WP_198789137.1"
                     /translation="MSKSKALNKRFSENPFIKDLIIPVKNKQVRISRLGEDNNIMINQS
                     TGEVLGGTSVVTYKKVDSDNFIKLFTQNIKLAFELTQAGQKALFVLFWAVQNKTNNDLV
                     LLDQYTLNDFISENKGLNMSLPTFKRGLGELVKSQILAMNKRKGFYYINPNFVFNGDRV
                     AFTTVLEMNKSSHKDK"
                     /name="replication/maintenance protein RepL"
     Typing          1352..1610
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="85.448"
                     /coverage="100.0"
                     /evalue="6.949999999999996e-69"
ORIGIN
        1 aacgaaggac tgacaatttc agaatatatc aggacggcaa gtttaaataa tgaaataaaa
       61 cagcgcgtac cttccaagta tttagatgaa ttaatccgac ttggtcggac gcagaagaaa
      121 ttatttgata aagggaagag accgaaggac aaagagtacc tcgatgtgat gcataaaata
      181 atttcacttt gttctgaaat gaaagtagta acacagcgaa ttactgatat atataatgaa
      241 atggatttat taaagcagga aataaaaata ataaaacggc atcataaaaa taaataccct
      301 ggctcaaaca tatttagcta aaatcttcgg tgctagccgt tacgaatatt aaaacccgcc
      361 aataaatttg aaattttcct ttgacgggtc ttaatacatt gtcatttgtc tttatgactc
      421 gatttattca tttcaagaac tgttgtgaat gcaactctat caccattaaa aacaaaatta
      481 ggatttatat aataaaatcc ctttcgctta ttcattgcta atatttgtga ttttaccaac
      541 tccccaagtc cacgcttgaa tgttggaaga gacatgttta accctttgtt ttcacttata
      601 aaatcattta gcgtgtattg atctaataag actagatcat tatttgtttt attttgtact
      661 gcccaaaata aaacaaatag tgctttttga ccagcttgtg ttaactcgaa tgccaatttt
      721 atattttggg taaacaattt aataaaatta tcactatcaa cttttttata agttactacc
      781 gaggttcccc ctaaaacctc cccagttgat tggttaatca ttatgttatt atcttctcct
      841 aatcgcgata ttcttacttg tttgtttttt acaggaatta tcaaatcttt gatgaaagga
      901 ttttcactaa atcgtttgtt taaagcctta ctcttgctca ttattttaca ctctcaggta
      961 tcaataaact gataccttga ctatcaataa aaaatctcca aatgtcaata aaccgatccg
     1021 cctagtatca taattttgat accttaaaca tcaaataaat cacatccgcg atgagcaaaa
     1081 aacaaacaat caatatttta aatatcaact aattgatatg ttagatgctc tattctgata
     1141 cgttagatca atatcctgat cattagattc taggattggc gcggtttatc gcgatttccc
     1201 ttcttaattc ttattaaacg cgtgcacgga cgtgggcgcg taggccaaat tctgtgcgta
     1261 actgcactat gccaatacag gttcccttcc gcttcctcgc ccactcgcga gcctggcggc
     1321 tcggtcgctg gggctgcggc gagcggtgcc acctctcgca tatcgttgat gatcccgatt
     1381 tgatctctgg cgatcgagtc gctggccatc tgttaaacgc gctcagaact tcccagacgc
     1441 acaaaacggg gtctaaatgc ccgtcagggc atggaaggcg cgaaaaacgc ttacagaggc
     1501 tctcaggagg tcaggcgcgc cgatacccct aaccaagggc tttcaggtcg ccaggaaccg
     1561 cgccagcccc ctgcaaagcc catttgcacg gtacaggcag tcactcggtt ggtaggtggt
     1621 cgtagaccgt cggtgttaca gcgatggggg gctggggttc tccccagacg gtttccggtt
     1681 gcgctcaagg cgcagccgga accgtggcgg ctgtttatgg tgaagggatg agcgcgtctc
     1741 cagaggtttt ccaagcaatg gaatgactga actgaacaga ttgaacgagg aagaaacgcg
     1801 ctcagaggct ttctaacgca cttttttgta tcaggcaatg ttttatatgt ttttggggct
     1861 tcaggctgct gagacgtttt gagcgcgttt ctggctgttt ggtgatgcta ctgtgcaacg
     1921 caaaccatct tctggtcagt tgatggccag aaacgcgccc tgatgttcta tcgtatcgat
     1981 ggttatatgt cgaggttgtc agcagctggc ggagcactgc acggggatta atgctcccat
     2041 tgccaggaca aaataaatat taagagcaat gttaagttat atttttaata tataaacgcg
     2101 atatcaataa ctcacggatt tatattttat gtacatacta ctatcttgct cttccgcttc
     2161 ctgttccttg gacatactcc gtatcgctaa caggcaatgt attatataac gaggaagatc
     2221 taatctttat tcttccaata atccacaaac aacagacaac aaagacatca attaattcgg
     2281 tgctatttat taaataacaa acaataattt ttaaaatctg tgtaaataat attgaatgaa
     2341 gcatcatttt tttgtattag aaataccaga ttacgacgcg gtattttatt tttgtcgaaa
     2401 agttgtagcg gaaaatggga caggatgtgt attcgtcata ccgcgaatac attcgcttgt
     2461 atgagaatac ctcctgtcag ggcaagcccc gacaccccga acgtgcaaaa tggagagtca
     2521 ttgcgatggc taaaaataaa cgtagtggtt cagaagtacg gcagaggact aaggttatca
     2581 cccttagagt aaataacaga atcgcaaacg aaatcagacg gcgagcgaag
//
