LOCUS       NZ_CP075858             4714 bp    DNA     circular CON 21-JUL-2023
DEFINITION  Escherichia coli strain S19-651 plasmid pS19_651-f, complete
            sequence.
ACCESSION   NZ_CP075858
VERSION     NZ_CP075858.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16993361
            Assembly: GCF_016404165.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4714)
  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  JOURNAL   Unpublished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 4714)
  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 4714)
  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
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 80.0x
            Sequencing Technology :: Oxford Nanopore MinION; Illumina MiniSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/21/2023 04:43:18
            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)                     :: 5,346
            CDSs (total)                      :: 5,228
            Genes (coding)                    :: 4,987
            CDSs (with protein)               :: 4,987
            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)              :: 241
            CDSs (without protein)            :: 241
            Pseudo Genes (ambiguous residues) :: 0 of 241
            Pseudo Genes (frameshifted)       :: 99 of 241
            Pseudo Genes (incomplete)         :: 130 of 241
            Pseudo Genes (internal stop)      :: 53 of 241
            Pseudo Genes (multiple problems)  :: 41 of 241
            Pseudo Genes (short protein)      :: 4 of 241
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP075858.1.
            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..4714
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="S19-651"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pS19_651-f"
                     /geo_loc_name="Switzerland: Zurich"
                     /lat_lon="47.40 N 8.55 E"
                     /collection_date="2019"
                     /collected_by="ILS/NENT"
     gene            join(3231..4714,1..736)
                     /gene="mobQ"
                     /locus_tag="JFY28_RS26500"
                     /old_locus_tag="JFY28_026500"
     CDS             join(3231..4714,1..736)
                     /gene="mobQ"
                     /locus_tag="JFY28_RS26500"
                     /old_locus_tag="JFY28_026500"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001029330.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /protein_id="WP_052995415.1"
                     /translation="MAIYHLSMKIISRKNGYSAVASAAYRSGSVIPDDRTGLIHDYTRK
                     RGVDDAVILTPANAPSWCGDRSVLWNAVEKAEQRRNSQLAREIELAIPREISREAAREA
                     VLAFVRENFVSRGMIADVAFHHMDRTNPHAHIMLTTRAVGETGFAGKVRDWNDRALAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKAPGLHLGKAACAMEKRGMETERGEQ
                     NRLINSLNLEIQVSRTRLAVIQVQENVRKRELSDAARRAAEALNLTIPAANASADTLRE
                     FIATLPQECGNAWEMTPEFVAMNGKANDIKREGNALVKERDILEKEMTGLRKARPVASI
                     LSELPLMTWAEPEYRKRQLRFWKLEKQIESLLRTYRAVKERDIPARRQAFETQWNTWIS
                     PGMAELKEKLSAREAERRREEAEAEARRKEQEYDARLKHHDNHRLSRETALAGVITELG
                     RAREPGTGRITRYMMLSNRAGEFTVWGDELAHYPQSVHDPVNVYLSPGGAVMVSDIREG
                     MPESHETMARPERVRMYSGATVRHVLEQMRQGWPSYGFPALPHHWPDNFYFSDDRRPAA
                     SPLPSAHRVDVTAYAAPEQLMPVVFSTERNSRTLNLLLCKGPEEMLVGFVRLEDELRPV
                     LALPSPDYSHLMVSIITENGIHLAGYGEAINRDADTPYPPEPKLMQFRLKGCQDTLFAA
                     INKPEEMPDYLFRQLGFNQTWHEWKRDEQHRQQQRRPGHYRGMSM"
                     /name="mobQ"
     gene            1039..1314
                     /locus_tag="JFY28_RS26505"
                     /old_locus_tag="JFY28_026505"
     CDS             1039..1314
                     /locus_tag="JFY28_RS26505"
                     /old_locus_tag="JFY28_026505"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001419705.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_052977602.1"
                     /translation="MAYDEHSIRVMSADEIEQRFDWLRLENLAKEHRLPVDWVRRGFEA
                     CWRLGIEPDYFIDRYIFKRDVPLVPEFEVVFREIVNENRYRDRMRF"
                     /name="hypothetical protein"
     gene            1646..2560
                     /locus_tag="JFY28_RS26510"
                     /old_locus_tag="JFY28_026510"
     CDS             1646..2560
                     /locus_tag="JFY28_RS26510"
                     /old_locus_tag="JFY28_026510"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001738986.1"
                     /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_001277132.1"
                     /translation="MSAVLQRFREKLPHKPYCTNDFAYGVRILPKNIAILARFIQQNQP
                     HALYWLPFDVDRTGASIDWSDRNCPAPNITVKNPRNGHAHLLYALALPVRTAPDASASA
                     LRYAAAIERALCEKLGADVNYSGLICKNPCHPEWQEVEWREEPYTLDELADYLDLSASA
                     RRSVDKNYGLGRNCYLFEKGRKWAYRAIRQGWPAFSQWLDAVIQRVEMYNASLPVPLSP
                     PECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQATRGRKGGSKSKRGTVATSARTL
                     KPWEKLGISRAWYYQLKKRGLVE"
                     /name="replication initiation protein"
     gene            complement(2777..3052)
                     /locus_tag="JFY28_RS26515"
                     /old_locus_tag="JFY28_026515"
     CDS             complement(2777..3052)
                     /locus_tag="JFY28_RS26515"
                     /old_locus_tag="JFY28_026515"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091757.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000091752.1"
                     /translation="MSRTLEQKIAEAEARLQRLKAKSRSLDTAQKVIVGAAMLARVRRP
                     EEAQLRAFLLQFLRKEVTRQADVNRLQPLINELEKLPRPPAKPQNH"
                     /name="hypothetical protein"
     Typing          complement(3057..3230)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.0"
                     /coverage="100.0"
                     /evalue="1.21e-74"
     Typing          complement(3231..3589)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          1647..2560
                     /name="rep_cluster_2134"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          3..733
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="89.344"
                     /coverage="99.0"
                     /evalue="8.64e-143"
     Typing          3232..4712
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.142"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 tcatgacccg gtgaatgttt acctgtcgcc aggcggggct gtgatggtct cggatatacg
       61 tgagggaatg ccagaatctc atgagacgat ggcgcggcct gagcgtgtga gaatgtattc
      121 cggtgcgacg gtccggcatg tactggaaca gatgcgccag gggtggccct cttacggttt
      181 tccggcgctg ccgcatcact ggccggataa tttttatttc agcgacgacc gcaggcccgc
      241 agcctctccg ctgccgtcag cgcaccgggt ggacgtcacc gcttatgcgg caccggagca
      301 actcatgccc gttgtctttt cgacagagcg aaacagcagg acgctgaatc tgctgttgtg
      361 caaagggccg gaggaaatgc ttgtcggttt tgtgcgcctg gaggacgagc tgcgtcccgt
      421 tcttgcgctt ccgtcgccgg attacagtca tctgatggta agcatcatca cagagaacgg
      481 gatacacctg gcaggctacg gtgaggccat aaaccgtgat gctgatactc cgtacccacc
      541 ggaaccgaag ctgatgcagt tcaggcttaa gggctgtcag gacacgcttt ttgctgccat
      601 caacaaaccg gaagagatgc cggattatct cttccgtcaa ctcggattta atcagacctg
      661 gcatgaatgg aagcgggacg aacagcacag gcaacaacaa cgacgccccg gacattaccg
      721 gggcatgagt atgtgatatc cggggctgca ccccgaaccc cgccaacgtc tcacgggaca
      781 cgaaaaaatt ccgcgtcccg tgaggcgttt tctggatgag aaagtttgcc gttttgaccc
      841 gttcgcgctt ctgaacggtc gaaaccgatc gcgcatcgct ttcgtgaata gttatgcaga
      901 cccctgaaaa cgattctgac gcgtttttct ggtttggcct ggtgttttct tgtctttttg
      961 tgttttttgc gtcagaacgc gtctgagagc gttttaaggg gtacgtacaa caggagttat
     1021 ggtaaatcgg aggtgtttat ggcttacgac gaacattcga ttcgcgtgat gtctgctgac
     1081 gagatcgagc aacgttttga ctggttgcgc ctggagaacc tggcgaagga gcatcgccta
     1141 cccgttgact gggtccgacg gggatttgaa gcctgctggc gactgggtat cgagccggat
     1201 tatttcatcg acaggtatat cttcaaacgg gatgtgccac tggtgccgga gtttgaggtc
     1261 gtgttcaggg agatcgtgaa cgaaaaccga tacagggatc ggatgcgttt ctgatatgcc
     1321 tctaaaaacg cctgtaagcg attctgacgc gtttttctga tttgggtgag gttttttacg
     1381 tccatatcca cttttttgcg tcacagagcg attgagagcg ttttagaggg tacgtacaac
     1441 gggagttatg gtaaatggat cggtttttcg ggaaggatcg acaggatttg ccgttgggtg
     1501 tagtgtaagc gactgaaaaa caaacgcccc gtaaatcgtg ctctcaccgc caagattgat
     1561 cacgaaatta cagggcgccg ggttccgcgt ttcccgatgg gaaagcgcgg ttagttaaac
     1621 tgtgtaccga gagaaatcgt atcacatgag cgccgtactt caacgcttca gggaaaaatt
     1681 accgcacaaa ccgtactgta cgaacgattt cgcgtacggc gttcgcattc tgccgaaaaa
     1741 cattgccatt cttgcccgtt tcatccagca gaaccagcca catgcactgt actggcttcc
     1801 ctttgacgtg gaccggacgg gggcatcaat cgactggagc gaccggaatt gtccggcccc
     1861 gaacatcacc gtaaaaaatc cccgtaacgg gcacgcgcat ctgctctacg cgctcgccct
     1921 tcctgtgaga actgcgccgg atgcatcggc ttcggcgctc agatacgctg ccgctattga
     1981 gcgtgcgttg tgtgaaaaac tgggcgcgga tgtgaattac agcggcctga tctgcaaaaa
     2041 tccgtgccac cctgaatggc aggaagtgga atggcgcgag gaaccctaca ctctcgacga
     2101 actggctgat tatctcgatt tgagcgcctc agcgcgccgt agcgtcgata aaaattacgg
     2161 gctggggcga aactgctatc tgttcgaaaa gggccgtaaa tgggcttacc gggctattcg
     2221 tcagggctgg ccggcattct cacaatggct tgatgcggtg attcagcgtg tcgaaatgta
     2281 caacgcatcg ctccccgttc cgctttcacc tcctgaatgt cgggctattg gcaagagtat
     2341 tgcgaaatac acgcacagga acttcacgcc ggaaactttc gcacagtatg tggctgatac
     2401 gcacacgcca gaaattcagg ctacacgcgg tcgcaagggc ggttctaagt ctaagcgcgg
     2461 cacagtagct acatcagcac gcacgctgaa accttgggag aaattaggga tcagtcgcgc
     2521 ctggtattac caactgaaaa aacgaggtct cgtagagtag accaaataag cctatatcag
     2581 ataacagcgc ctttttggcg tctttttgag cagcttggtt tgttgctatt tccctcgttg
     2641 aatcccgcaa tggtgtggct ttccgcatga ttgaggtggt agcgctcgcc gcagtctcat
     2701 gtccgagcgt agcgagcgaa tgagcgagga agcgcaaagg cgtccggtgg tgcatgtggc
     2761 acttacgcgc cggggcttag tggttctgcg gtttcgccgg tggtctgggt agcttctcca
     2821 gctcgttaat cagcggttgt agtcggttca catccgcctg tcttgtgact tcctttcgca
     2881 gaaactggag caggaacgca cgcagttgcg cttcttccgg cctccgtacc cttgccagca
     2941 tggctgcccc cacaatgact ttttgcgccg tgtccaggct tcggctcttc gccttcaggc
     3001 gctgtaatct ggcctcagct tcggcaatct tctgttcgag tgttctgctc atttcgtgac
     3061 tccgtgcgcg gtgaaaaatc gcattttagc gcgtcactgg tagttgcaaa actgaactgg
     3121 cataatgcac ggcacatcac gaagtgcgca cttatacaat cttcacttcg tttcgattgt
     3181 gtgcgccctg cggggctgaa agaaaacggc aaaaaggcat tacggaagaa atggcgattt
     3241 atcatctcag catgaaaatc atttcgcgaa aaaacggcta cagtgccgtt gcttctgctg
     3301 cctaccgttc cggctctgtc atacccgatg accgtaccgg attaatccac gattacaccc
     3361 gtaaacgcgg cgttgatgat gcggtcattc tcacccctgc gaatgcaccg tcctggtgtg
     3421 gtgaccgttc cgttctctgg aatgcggtcg agaaagccga acagcgccgg aactcccagc
     3481 tggcaaggga gattgaactc gccattcccc gtgagatttc ccgcgaggcc gcacgggagg
     3541 ccgttctcgc ttttgtccgg gaaaactttg tcagtcgggg catgattgcc gatgtggcgt
     3601 tccatcatat ggaccggacc aacccccatg cacacatcat gctgaccacg agagctgtcg
     3661 gggaaacggg attcgcagga aaggtcaggg actggaacga ccgggcactc gccgagacgt
     3721 ggcgcgcatc atgggctgac catgcgaaca gagcgcttgc gaacgccggc taccaggaag
     3781 agatagacca tcgttcatac gagcgtcagg gactggagaa agcgccgggc cttcacctcg
     3841 gaaaggctgc ctgtgcgatg gaaaaacggg gcatggaaac agaacgcggt gagcagaacc
     3901 gcctgattaa cagccttaac ctggaaatac aggtttcccg cacaaggctg gcagtcatcc
     3961 aggtacagga gaacgtgcgg aaacgggaac tcagcgatgc cgcacgtcgt gcagcggaag
     4021 cccttaatct gaccattccc gccgcgaatg cctcagcgga taccctgcgg gaattcattg
     4081 ccacactgcc gcaggaatgc gggaacgcat gggagatgac accggagttc gtggcgatga
     4141 acgggaaggc aaacgacatc aaacgtgagg ggaatgcgct ggtgaaagag cgggatattc
     4201 tcgaaaaaga gatgaccgga ctcagaaaag cccgtccggt agcgtccatc ctgtcagagc
     4261 ttcccctgat gacatgggct gaaccggaat accgcaaaag acaactccgc ttctggaaac
     4321 tcgagaaaca gattgaatct cttctccgca cctacagggc cgtgaaagaa cgggacattc
     4381 ccgcccgtcg tcaggccttt gaaacgcagt ggaatacgtg gatttcgccg ggaatggcag
     4441 agctgaaaga aaaactgtca gcacgggaag cggagcggcg cagggaggaa gccgaagcgg
     4501 aagcgcgccg gaaggaacag gaatatgacg cacggctgaa acaccatgat aaccatcgcc
     4561 tgagccgtga aacggcatta gccggggtta ttacggagct ggggcgtgcc agagagccgg
     4621 gaacgggcag gataacccgc tacatgatgc tgagtaacag agccggagaa ttcacggtat
     4681 ggggtgatga gctggcgcat tacccccaga gtgt
//
