LOCUS       NZ_CP075651             5928 bp    DNA     circular CON 27-JUN-2023
DEFINITION  Escherichia coli strain STEC17-190 plasmid pSTEC17_190-b, complete
            sequence.
ACCESSION   NZ_CP075651
VERSION     NZ_CP075651.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16993369
            Assembly: GCF_016403975.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5928)
  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  JOURNAL   Unpublished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 5928)
  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 5928)
  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                     :: SEC17-190
            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 05:54:48
            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)                     :: 4,972
            CDSs (total)                      :: 4,854
            Genes (coding)                    :: 4,698
            CDSs (with protein)               :: 4,698
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 156
            CDSs (without protein)            :: 156
            Pseudo Genes (ambiguous residues) :: 0 of 156
            Pseudo Genes (frameshifted)       :: 59 of 156
            Pseudo Genes (incomplete)         :: 95 of 156
            Pseudo Genes (internal stop)      :: 42 of 156
            Pseudo Genes (multiple problems)  :: 38 of 156
            Pseudo Genes (short protein)      :: 3 of 156
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP075651.1.
            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/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..5928
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="STEC17-190"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pSTEC17_190-b"
                     /geo_loc_name="Switzerland: Zurich"
                     /lat_lon="47.40 N 8.55 E"
                     /collection_date="2017"
                     /collected_by="ILS/NENT"
     gene            join(5607..5928,1..323)
                     /locus_tag="JFX56_RS24680"
                     /old_locus_tag="JFX56_24680"
     CDS             join(5607..5928,1..323)
                     /locus_tag="JFX56_RS24680"
                     /old_locus_tag="JFX56_24680"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /GO_function="GO:0004518 - nuclease activity [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="Eco29kI family restriction endonuclease"
                     /protein_id="WP_001529705.1"
                     /translation="MHNKKFDRSEHVYRNDSFLELIKDAVRFFSGTPVHSLPPPERFQG
                     AGVYALYYTGHYSLYDEYSRINRLAYNLPIYVGKAVPAGWRQSRISDHETRAGSELSNR
                     IREHGRNIAKTSNLDLCDFSCRFVIFEATGSDMISTVEAALIKIYKPLWNTVVDGFGNH
                     TPGAGRFAQAKSDWDVIHPGREWAEKCTGVHSEPYFIEERIKQYFSKSNFT"
                     /name="Eco29kI family restriction endonuclease"
     gene            323..1471
                     /locus_tag="JFX56_RS24685"
                     /old_locus_tag="JFX56_24685"
     CDS             323..1471
                     /locus_tag="JFX56_RS24685"
                     /old_locus_tag="JFX56_24685"
                     /EC_number="2.1.1.37"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_003801590.1"
                     /GO_function="GO:0003886 - DNA
                     (cytosine-5-)-methyltransferase activity [Evidence IEA];
                     GO:0008168 - methyltransferase activity [Evidence IEA];
                     GO:1904047 - S-adenosyl-L-methionine binding [Evidence
                     IEA]"
                     /GO_process="GO:0006304 - DNA modification [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DNA cytosine methyltransferase"
                     /protein_id="WP_001529706.1"
                     /translation="MRSLEIFSGAGGLAKGLELAGFQHVGFVELNKHACDSLRLNFDEE
                     KVFQGDIKNYDLSSLDKIDIVAGGPPCQPFSLGGKHKAHDDSRDMFPFAIKAIEVLQPK
                     AFIFENVKGLLRKSFADYFEYIILRLTYPCLSLSNVSDWRIHLDVLRKARKDKHCGCTY
                     DVSFKLINAADYGVPQIRERVIIVGVRSDLNKKWSFPSVTHTQEKLLWEQHVTGDYWRK
                     HNIDAVIDKGISERLMKRFGIFPPSGKSWVTVRDALKNVPQPYESHGIGDHIFKDGARV
                     YPGHTGSYIDLPSKTLKAGAHGVPGGENMIRYEDGTVRYFTVYEGKLLQTFPREFLIAG
                     AWGEAMRQIGNAVPVLLAQKIGQQLYNLLNEEVEPLLCSNFN"
                     /name="DNA cytosine methyltransferase"
     gene            complement(2530..2724)
                     /locus_tag="JFX56_RS24690"
                     /old_locus_tag="JFX56_24690"
     CDS             complement(2530..2724)
                     /locus_tag="JFX56_RS24690"
                     /old_locus_tag="JFX56_24690"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041629.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_044808339.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLEALDADEQAAMCERLHELA
                     EELGNSIQTHFEAQYGTEP"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3268..3462
                     /locus_tag="JFX56_RS24695"
                     /old_locus_tag="JFX56_24695"
     CDS             3268..3462
                     /locus_tag="JFX56_RS24695"
                     /old_locus_tag="JFX56_24695"
                     /inference="COORDINATES: protein motif:HMM:NF033650.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ANR family transcriptional regulator"
                     /protein_id="WP_001367294.1"
                     /translation="MNQDKAIYLENKYFSPANEAVRLEREGDYIGAWKKWNDALHYAKG
                     ENIGWCIARAEYCKKTGRF"
                     /name="ANR family transcriptional regulator"
     Typing          2363..2447
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.837"
                     /coverage="100.0"
                     /evalue="1.41e-35"
     Typing          complement(4228..4306)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.5"
                     /coverage="87.0"
                     /evalue="1.57e-30"
     Typing          complement(1794..2340)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.374"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 atggccgaaa tatagcaaaa acatcgaatc tagatttgtg tgatttttca tgtcgctttg
       61 ttatctttga ggctacgggg tctgatatga ttagtacagt tgaggccgct cttattaaaa
      121 tttataagcc tttgtggaat acagttgttg atggctttgg aaatcatacc cctggtgccg
      181 ggcgatttgc gcaagctaaa tctgattggg atgtaataca tcctggcagg gagtgggctg
      241 agaaatgtac aggtgttcat tctgagccat actttattga ggagagaatc aaacagtatt
      301 tttctaagag taattttaca taatgagatc attagagatt ttttcaggag ccggcggctt
      361 ggctaaaggt ctagagttgg caggatttca gcatgtagga tttgttgagt taaacaagca
      421 tgcatgtgat tctttgcgac ttaattttga tgaggagaag gtatttcagg gagatattaa
      481 aaattatgac ctttcatctc tagataaaat agatattgtt gctggcgggc ctccttgcca
      541 accattttca ttgggcggaa aacataaagc tcatgatgac tctagggata tgtttccatt
      601 tgcaataaaa gcaattgaag tattgcaacc aaaagctttt atttttgaaa atgttaaagg
      661 gttgcttaga aaatcatttg cggactattt tgaatacata attcttcgtt tgacttatcc
      721 ttgtttatcg ttaagtaatg taagtgattg gagaatacat ctagatgtat taagaaaagc
      781 tcgcaaggat aaacactgtg ggtgtacata tgatgtcagt tttaaattaa tcaatgcagc
      841 tgattatgga gttccacaaa ttagggaacg ggtcataatt gttggtgttc gaagtgattt
      901 gaataaaaaa tggtcttttc caagcgtaac gcatactcaa gaaaaattgc tgtgggaaca
      961 gcatgttact ggtgactatt ggcgaaagca taatattgat gcggttatag ataaaggtat
     1021 ttctgagcgt ttaatgaaac gttttggtat tttcccccca tcggggaaaa gctgggttac
     1081 tgttagggac gcattaaaga atgttcctca accgtatgag tcacatggta ttggagatca
     1141 tatctttaaa gatggcgctc gagtttatcc tggtcatact ggaagttata tcgatttgcc
     1201 ttcaaaaaca cttaaggctg gcgctcatgg cgtacctgga ggtgaaaata tgattaggta
     1261 tgaggatggg actgttcgtt attttacggt ttatgaaggg aagcttcttc agacttttcc
     1321 tcgagagttt ctgattgcag gagcttgggg ggaggctatg aggcagattg gtaatgcagt
     1381 tcctgtgttg ctagctcaga agatagggca gcaattgtat aacttattga atgaagaggt
     1441 tgagccgtta ttgtgctcta acttcaatta aaagtttgtg tctctatggt ggtgatacag
     1501 ccatagaggc aatttgcaaa aaaagatcaa aggatcttct tgagatcctt tttttctgcg
     1561 cgtaatctgc tgcctgtaaa caaaaaaacc accgctacca acggtggttc gtttgccgga
     1621 atcaagagct accaactctt tttcccgaag gtaactggct tggtggagcg cagataccaa
     1681 atactgtcct tctagtgtag cctcagttag gccaccactt caagaactct taatatctca
     1741 atccaccttg tccagttacc aatggctgct gccagtggcg ttaaggcgtg tcttaccggg
     1801 ttggactcaa gacgatagtt accggataag gcgcagcggt cgggctgaac ggggggttcg
     1861 tgcacacagc ccagcttgga gcgaacgacc tacaccgaac tgagatacca acagcgtgag
     1921 ctatgagaaa gcgccacgct tcccgaaggg agaaaggcgg agaggtatcc ggtaagcggc
     1981 agggtcggaa caggagagcg cacgagggag cttccagggg gaaacgcctg gtatctttat
     2041 agtcctgtcg ggtttcgcca cctctgactt gagcgtcgat ttttgtgatg ctcgtcaggg
     2101 gggcggagcc tatggaaaaa cgcctgcgtc gctggcttct tccggtgctt tgctttttgc
     2161 tcacatgttc tttccggctt tatctcttga ttctgtggat aacagtatca ctgcttttga
     2221 gtgagcagac accgctcgcc gcagccgaac gaccgagcgt agcgagtcag tgagcgagga
     2281 agcggaagag cgccggaagc tgcattttct ccttacgcat ctgtgcggca tttcacaccg
     2341 tatatggtgc acttttcata caatccgcac tgatgtcgca tggttaagcc agtatacact
     2401 ccgctatcgc tacgtgactg ggtcagggct tcgccccgac acccgctaaa acccgctgac
     2461 gcgccctgac gagcttgtct gctggcgaaa acactcacgg acaagccgcg accgctttcg
     2521 ccagcccctt tatggttccg tgccgtactg cgcttcaaag tgtgtctgta tgctgttacc
     2581 gagttcttcc gccagttcgt gcagtcgttc gcacatggcg gcctgttcgt ctgcatccag
     2641 tgcctccagt ttttcgagca acgtcaggct ctggcttttg ataaatcgcg ccatgttgag
     2701 cgcggtctgc tgctgtttgt tcacgttctc ccttctccgt tactggtgtt tacgtccggc
     2761 tgtgcgtcac ctggcgtgat gaccaggtga cgtcactgaa aattatcaca caagccccgt
     2821 cgtgtgtggg ctgcgcgaca ttaacacccc gtgacgctta ttttttgctg aatatgtgcg
     2881 cgattttctg tctgcgttgt gtgcagttgt cgtcataaac atgaacgttc cgccggttcc
     2941 tgatgtgcgt cactttgacg ttttgacaaa gtgacccggc gtgatggcca gttctggcca
     3001 gagacgttcg cggggtgtcg gggcgcagcc atgaccgggt ggcgtttgtc cggtcgtgtg
     3061 tgcgcggtcc gacaaatgca catcctgtcc cgtttttcgc ttggttttta ttgattaccg
     3121 gacagacgaa cccggattgc catattgcga aaatcacgtt aaaacgatta cgagcgtgca
     3181 gttgggctga tatatcaaca gtcatgccaa tatgtattaa cccgacaggc cgctcttttt
     3241 aattccagta aaaatataaa tacgagtatg aatcaggaca aagcaattta tttagaaaat
     3301 aaatattttt cacccgcaaa cgaagctgtc agactggagc gtgaaggtga ttacattgga
     3361 gcatggaaaa aatggaatga tgcgcttcat tatgccaaag gagaaaatat aggttggtgt
     3421 atagccagag ctgaatattg taaaaagaca ggccggtttt aattcttgcg gggtttcaaa
     3481 ggggcgctcc ctttggcacc tcgacgtatc aaaatgcgcc agcattttgt atacagtcgg
     3541 tcacgtgcct ccagaattta ccctcaaaac gcctctgtaa ctgacgcaca acaaaagtat
     3601 aactaaaata taattaacat ataactaaag tataactaac ggtttaccaa cggatcgcat
     3661 gtagtagacg ctacataaaa aatcatgaaa tggaggattc gtcataaaga gattcctgta
     3721 tttaccgttc tgatgcagga cagggcaaac actgcaaaaa tgatgaaaaa ctgattaacc
     3781 atactgtctg tattctgaat gaattacgaa gcatagcgat aaattaaaaa atccccctgg
     3841 attacagggg gaagccatca gagtttgagt aatgagaaat attattctgg agagagcacc
     3901 acaaatgcgc tcttttccaa tctgccgtaa ccatcggcaa aagacaatca ggacaggcga
     3961 aaaaatcccc ctatatggca agggggtgtc aatgaggaca tggcaattgt gagttttgtg
     4021 tgtgttttat gtgttgcagt ttgcaacgtc agaaatttgc cgtagttcgt catgagagac
     4081 aacaaaaaaa tcccccgtga ctggtggagg ccagggcaag gggggtagca aatgcctgaa
     4141 taattttcgt agttttgata tacccatcgt tgcaaccgca acggggtgaa tttgccgcag
     4201 ttgtgcgcga aaaacaatcc tgattccggg acaggatgtg taatcgtata accgcgcacg
     4261 cacggctatg cgattaccac ctggtcaggg ctttgccccg acaccctcga caccgttccc
     4321 gcgatacgat agaacatcag ggcgcgtttc cgggtaaacg catgttaatg accgggaatt
     4381 cattgatcag ggaccggaga tgcgctacaa aactcctgcg cgtttctggc atcaactgac
     4441 catggggatg gtttggcagt agcagcaagc gccagaaacg cgctcaaaac gcctctggcg
     4501 gcaaaaccat tgcccgatgc aaaaaagtgc gttagaaagc gtctgagcgc gtttcctgcc
     4561 acctgaacgt catctccgag attcgtgctc actccatcaa ataacaaata aacttcaaag
     4621 tctgataatg ggttccccct gtaatccagg ggattttttt cgctcactca ttaccgcaca
     4681 actcgacatc atgccggaga cacgctaaaa cacacctgcg cgtttctggc gtcttttttg
     4741 ttgctgtgtc gctatactcg ttgtcagatt cgcgctcaat catcactgat taatctgcgc
     4801 ttatccttcg actgatcacg ctggtatttt ttgacaaccg gttcccatga aaacgccaga
     4861 cgggaaccgt catccgcacc ctctgacatg ctggggatta aaaatccccg tgcagcacag
     4921 ccggcgttgc ataaaattcc gctctgcggt gagtattgtt taatcaaaaa tccccgcagt
     4981 tcttccggaa aaacgcgagt ctgttctcat gcatgaaatg cccacacact acgcaaaacc
     5041 aactttttgc tgatttgctt tttaaatcat gtcgttatgg ttctaaaaat atattttctt
     5101 attcaggtgt atacaaaagc gagtcgtcgg cgactactgg atgattcggc aacgagtcgt
     5161 cggtgattta tcgatgactc aacacactgt ctctctggtg ttcagagaag gcgagtcgcc
     5221 agagagtcgc gaggaaaata ctggatgact cccggggtga atcgctcacg actcgtctgt
     5281 aactactgtc tgatttcttc tcatcagggc tgaaaacgtc cgaaaatgcg ccttatgggc
     5341 atcaggcgcg cccaaaccga tcgccattca gtttcatgca tagtcatgca acgcgctgaa
     5401 aacgttcctg acgcattttt ccggtttgcc ccggggaaaa catccctttt tgcggttttt
     5461 gcgccagaaa cgcgctgagc gcgttttaac ggtgcgtaca atgcgacgtt atggtaaatg
     5521 cgtatgggtt ggggtatcag ctttatgatc gtatcatagg tgatgttgag taggagtgtt
     5581 aatataaaga cctttcggaa aacataatgc acaataagaa atttgataga tctgagcatg
     5641 tttatagaaa tgactctttc ctagagttaa taaaagatgc cgttcgtttt tttagtggta
     5701 cgcctgttca ttcattacca ccaccggaac ggtttcaagg tgctggggtg tatgctcttt
     5761 actatacagg acattattca ttatatgatg aatattctcg tataaatagg ttggcatata
     5821 accttcctat ttatgttggc aaggctgttc ctgctggttg gcgtcagtct agaattagtg
     5881 atcatgaaac tagggctggt tctgaactat ctaatagaat tagagaac
//
