LOCUS       NZ_CP075706             6335 bp    DNA     linear   CON 27-JUN-2023
DEFINITION  Escherichia coli strain STEC2018-607 plasmid pSTEC2018_607-i.
ACCESSION   NZ_CP075706
VERSION     NZ_CP075706.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16993387
            Assembly: GCF_016403625.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 6335)
  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  JOURNAL   Unpublished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 6335)
  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 6335)
  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                     :: STEC2018-607
            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 06:12:10
            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)                     :: 5,666
            CDSs (total)                      :: 5,550
            Genes (coding)                    :: 5,293
            CDSs (with protein)               :: 5,293
            Genes (RNA)                       :: 116
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 257
            CDSs (without protein)            :: 257
            Pseudo Genes (ambiguous residues) :: 0 of 257
            Pseudo Genes (frameshifted)       :: 100 of 257
            Pseudo Genes (incomplete)         :: 139 of 257
            Pseudo Genes (internal stop)      :: 55 of 257
            Pseudo Genes (multiple problems)  :: 37 of 257
            Pseudo Genes (short protein)      :: 4 of 257
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP075706.1.
            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..6335
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="STEC2018-607"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pSTEC2018_607-i"
                     /geo_loc_name="Switzerland: Zurich"
                     /lat_lon="47.40 N 8.55 E"
                     /collection_date="2018"
                     /collected_by="ILS/NENT"
     gene            complement(507..1517)
                     /locus_tag="JFX52_RS27910"
                     /old_locus_tag="JFX52_27910"
     CDS             complement(507..1517)
                     /locus_tag="JFX52_RS27910"
                     /old_locus_tag="JFX52_27910"
                     /inference="COORDINATES: protein motif:HMM:NF013603.2"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_001681832.1"
                     /translation="MKNPDSPILSLRDYSTQDSKWDSDRARADQVAKIYASDQAFFRRG
                     ERMFDCSQRLQFAPQSSRLTGEMRLALRHGEFCHVPFCPVCSRRRSLRWMRRLWEALPK
                     LLAEHPTASWLFLTLTVKNPPVGELRETLRQMNAAWERLIKRKAFAPVLGWLRSTEITY
                     GNVRGCCHPHFHVVLWVPSSWFTRDYVKHERWVEIWSECLRVDYAAGAHIKRVRPKRGK
                     VPEGASFAEVQRAALEAGVIETLKYTVKSSEIVRDPAWFLELARQTYGLRMIATGGRFR
                     EILQVEKPETDEDLIGADMPAKPDEFEEMAFWLAFDWRRDEKRYKRNPKADRRKE"
                     /name="protein rep"
     gene            2413..2667
                     /gene="mobC"
                     /locus_tag="JFX52_RS27915"
                     /old_locus_tag="JFX52_27915"
     CDS             2413..2667
                     /gene="mobC"
                     /locus_tag="JFX52_RS27915"
                     /old_locus_tag="JFX52_27915"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091747.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase accessory protein MobC"
                     /protein_id="WP_000091744.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVIVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     gene            3200..3901
                     /locus_tag="JFX52_RS27920"
                     /old_locus_tag="JFX52_27920"
     CDS             3200..3901
                     /locus_tag="JFX52_RS27920"
                     /old_locus_tag="JFX52_27920"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /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_015059933.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCIGRLKSGADAESPKL
                     QKTMTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKDDEKREEFRWIQYRAQY
                     AKGEARAQITFSDAVMPYLTQLQGQFTRVVIKNISRLSRSYSIRIYELLQQFRSTGERI
                     IALDDFRSMLDIEHKYQTYKSLNQQLLRPCIDELNKKSDLVVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(4147..6294)
                     /gene="mobQ"
                     /locus_tag="JFX52_RS27925"
                     /old_locus_tag="JFX52_27925"
     CDS             complement(4147..6294)
                     /gene="mobQ"
                     /locus_tag="JFX52_RS27925"
                     /old_locus_tag="JFX52_27925"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /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_198777285.1"
                     /translation="MAIYHLSMKIISRNSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNGGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     SAWKLTSNAMSMMADMQATRRRWEELNTERKVAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQMAFEKQWQKWGESGLAALRAQL
                     LKREEELRRKEQEDTERSRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRARIFERVDLMRDRSGYICDRSEIGQRPLLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMQFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRTWDEW
                     RREEDARTHATVRRHDRGWSQ"
                     /name="mobQ"
     Typing          complement(2099..2181)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="84.706"
                     /coverage="93.0"
                     /evalue="7.11e-14"
     Typing          2261..2412
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.078"
                     /coverage="100.0"
                     /evalue="4.5e-64"
     Typing          complement(5937..6295)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.444"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          3201..3900
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.429"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(4151..6333)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.268"
                     /coverage="98.0"
                     /evalue="0.0"
ORIGIN
        1 agggcgcaca caatcgaaac ggagtggaga ttgtataagt gcgcatttca tgattttttt
       61 ccgcgcagca atctggcgct cgtgaggtcc aactcgttcg caaaaaccgc aaaatgattt
      121 gccgtcacat ttccgaaatg ttccgttacc acgccggaga aaatccaaaa aaccggaagc
      181 aaaaacggga caggatgtgt gtttgtcgga ccgcgcacgc gccatcaaac aaacaccatc
      241 tggtcagggc tgcgccccga caccctagac accgtgccag cgacacgcta aaacgacaaa
      301 cgcgcgtttc tggcacccca ggaaaccgga agtccagaga gagttacagt cgacaacgcc
      361 agaaacgcgc tcaaaacgct tctgagcgcc ttaaaacgaa aaaacgggca aatacttgcc
      421 cgtttctgaa aatcgcgtta gaacgcttct gagcgcgttt cacctccact accgcactat
      481 tcccacaatg tgcctctgaa acacgctcac tccttccgcc tgtctgcttt tggattccgc
      541 ttgtagcgtt tctcgtcacg tctccagtca aacgccagcc agaacgccat ctcctcgaac
      601 tcgtccggct tcgctggcat atcagcacca atcaaatcct cgtccgtttc cggcttctcg
      661 acctggagga tctcccgaaa ccgtcctccc gtggcaatca tccgcagccc gtaggtctgc
      721 ctcgccagct ccagaaacca cgccggatcg cgcacgattt ccgatgattt caccgtgtat
      781 ttcagcgtct cgatcacgcc cgcttccagc gctgcccgct gcacctcagc aaaacttgcc
      841 ccttccggca ctttcccccg ttttggccgc acgcgcttga tgtgcgcgcc agctgcgtaa
      901 tccacccgca ggcattcact ccagatttcc acccagcgct catgtttcac gtaatcccgc
      961 gtgaaccatg acgaaggaac ccagagcacc acatggaagt gcgggtgaca acatccgcgc
     1021 acattcccgt aggtaatttc cgtactccgc agccatccca gaacaggcgc aaacgctttg
     1081 cgcttgatta aacgctccca agccgcattc atctgcctga gtgtctcgcg caactcacca
     1141 acgggaggat tttttacagt cagggtcagg aataaccaac tcgcagtagg gtgctcagcc
     1201 agtagtttcg gtagcgcctc ccacagacga cgcatccagc gtaacgagcg gcgacggcta
     1261 cacaccggac aaaacgggac atgacagaat tcaccatgac gcagtgcaag tcgcatctcg
     1321 cctgtaagac gggaactctg tggagcgaac tgtaaacgct gactgcaatc aaacatcctc
     1381 tcgccgcgac ggaaaaatgc ctggtctgac gcgtaaatct ttgccacctg gtcagccctc
     1441 gcgcgatcgc tgtcccattt tgaatcctgc gtgctgtagt cacgcagtga gaggatcgga
     1501 ctatctggat ttttcatgac ctgccctcag taggcagggg cagaaatctt gtgttagcat
     1561 gttcttacca cctgtgcttg gcttaccgaa ttttaccttt caggtggtcg cccccggagt
     1621 ggtagcacac tgccggggaa cctcaccaac ctgttgctca cactgtagcc aaaaaaagtt
     1681 gtaaaaacaa tttaacaacc atctacaact aaaaaacccc tcaaacccgc gccattactg
     1741 ggctgaaagg caaaaatgca tccgcgagtt gttgcctata gtataaatac aaggcgcacc
     1801 ccaaaatcgc tcaatatttg cgcagatttt cagcaccgca aaaccccgtt tttcgcgcct
     1861 gttacaccca ccccatccac aaccttttca cccgaatctg tgaacaacaa aaaaccgtcc
     1921 ggcaggtggt tggcctcact gcgtgacacc aaccaccact cccagtgttt ttatccgcca
     1981 tgtcgtcaat cacaaaatcg gaacccacgc cggaggcgcg ggaccccgcg attttctgtt
     2041 tgacgagtca gggaacggcg aacgctgaca gatttcaatc tggctgtgtg agacgttggc
     2101 ggggtgtcgg ggcgcagccc tgaccagatg gtgtttgttt gatggcgcgt gcgcggtccg
     2161 acaaacacac attctgtccc gattttttcg cctgaacgct ggcagatggg cagatgaggc
     2221 tcggcatttt cgacgaccgg acaacaaatc attttgccgt ttctttgagc gtcgcagacc
     2281 gcacacaatc ggaacggagt ggagattgta taagtgcgca cttcgtgatt tgccgtgcat
     2341 tatgccagct cagtttttaa actaccagtg acgcgctaaa atgcgatttt tcatcgcgca
     2401 cggagttaca tcatgagcag aacactcgaa cagaagattg ctgatgctga ggccagatta
     2461 cagcgcctga aggcgaagag caggagtctg gacacagcgc agaaggtcat tgtgggtgca
     2521 gcattgctgg caaaggtcag aaagccggag gaggtgcagt tgcgtgcctg gttactccag
     2581 ttcctgaagg cagaggtgac acgacaggct gatgtgacgc gcatactgcc gctgattaac
     2641 gagctggaag cgctgccaga acagtgattg tatcgtccgc tcgccgcagt cccagcgacc
     2701 gagcgttagc gagcgagtgg gcgaggaagc ggaagtgaat ccgtcgcctg attgagcaca
     2761 tacgcacggt ttttcgggag gtgatatgcg ctgaacccgc atgaatactg gatttccaca
     2821 gggttggagg gggtgtattc ggaacttgca attctgcttt tttgcaacgc attgttttta
     2881 ttggtttttt gttttcagca ctccaagtta tccacaggct cgtcgttaag tttttagatc
     2941 ttgtttttaa gatcttgttt ttaatacttg ttttagtgcc aaaattcctt atagaaaaca
     3001 aaatgttaca acgctatagg taatatgatt taaggtaaag gtaatatgat ttaaggtgtt
     3061 taggtaatat gatttaaggt aaaggtaata tgatttaagg taatattcac agaaaaaggg
     3121 atattaaaat aaaaaggcat tgcctttcgc taggggtatg tttatctttt attcattacc
     3181 ttttggggag ggatgctcta tgtcggatct aattgcctat aaatctaatg cgctggttga
     3241 agccagttat aaattgaccc tacaggaaca gcgatttttg ttactttgca tcggtcgatt
     3301 gaagtctggg gctgatgcag aatctccaaa attgcaaaag acaatgacca ttacagctgc
     3361 ggaatatttc gattcattcc ctgacatggg gcggaaaaat gccgaggttc agttacagga
     3421 agcaattgat cgtttgtggg acaggtcaat cattctcaag gatgacgaga aacgtgagga
     3481 gttccgctgg atccagtatc gggcacagta cgctaaaggc gaggccagag cacaaataac
     3541 attttctgac gcagtaatgc cttatttgac acaactacaa gggcaattta ctagagttgt
     3601 aatcaagaat atatctagat tatcaagaag ttacagtata aggatatacg aactcctcca
     3661 gcagttccgc agtactggcg aacgtattat cgctctcgat gattttcgct caatgcttga
     3721 tatagagcat aaatatcaaa catataaatc acttaaccag caattattaa gaccctgcat
     3781 tgacgaactg aacaaaaaaa gcgatctggt tgtaacggtt gagacgatca aaaaggggcg
     3841 cacggttgta gccctgcatt ttcgcttcaa ggaagacaaa cagatcaaga tgacgatcta
     3901 gaatcgattt taaggcctct aaaacgttct ctggtgcgtt tttttggtgt caggtatgcg
     3961 atggtactgc tttggcaata aattgcgtca gaattgattt gagaggccaa aaaggaaccc
     4021 ccaattttgg gggcggaaaa acaaaactat gtttgcgtta tgtgagtgtg cttcttgcat
     4081 tcatccctgt cgatgaacat cggcgaacat aacacgatgt tacacaaaac aaaatattgt
     4141 tcacattcac tgtgaccaac cgcgatcatg tctcctcacg gtggcgtgtg ttcgtgcatc
     4201 ttcctcgcgc cgccattcgt cccaggtacg attaaaaccc agcgagcgga acagatgatc
     4261 cggctgtttt tctggtgtgt tgacggcagc aaaaagcggt gcctcacggg ttttcagatg
     4321 aaactgcatc agttctggtg caggtgatat gtggctgtct gcatcgtgat ttacggcaac
     4381 accataccct gcataccgta accccttatc ggtcagtgca ctgatgacca gctggctgtt
     4441 atcggctgag ggaacggcaa acgcgggata cagcgtacca ttaagccgga caacaccgcc
     4501 cagagagtca tccacgccca tgaccagcaa aagctgaagt tgtcgggttt cccggtctac
     4561 agaactcatt accggcatca gcgtcggtgg cagacgtccc tgcgtaaaat ccaccttcct
     4621 tgctgccagt gatggcatgg ctggctggcg gtcttctcca agacagaaag actccggcca
     4681 tgtcttcggc tggcggagat tgcgggtatg ttgcggccat gtctggcaaa cctgcgtcag
     4741 cagttgctca aaggtcgcag aggaataaac acgttgcagt agcggacgtt ggccgatttc
     4801 gcttcggtca cagatataac cactcctgtc acgcattaaa tcaacacgct caaagattct
     4861 ggcgcggtat ttctccagtt cgttccccca gagcgtatat tctccgttcc ggttgtgaag
     4921 cagaaggtaa caggtcattt ccccgttacc aggcatgggg gcctcgccat accccgtaac
     4981 gactgcgctc agtacccctg aatccataac ggcattgtca tttttcctga gctgctccgc
     5041 gcgactacgt tcagtatctt cctgttcctt ccggcgcaat tcctcttcac gtttaagcaa
     5101 ctgggctctg agagctgcaa ggccggattc cccccacttc tgccactgtt tttcaaatgc
     5161 catctgactc gcgggaatgt cctgtttctc caccttccgg taatgctgtc gcaatttttc
     5221 catttgctgg ctcagagact ggatttttcc ctgctcacta cggtattccg gtgccgccca
     5281 ttgcatcagg ggaatacggg aaaaaccgga cgaaaacggc gatgattttt tcaggctggc
     5341 agcatggctc atcgctacct ttcgttcggt gttcagctct tcccagcgtc tgcgcgtcgc
     5401 ctgcatatct gccatcatcg acatggcatt actggtgagt ttccatgccg agttactgtc
     5461 cttcggcaac gcttcgatga tgtcacgtag tgtgtacgaa gttgcgttgt caggaagccc
     5521 gatattcaga aggtcagcca cacggcgggc aggctctgtc agccctccgt tcctgagttc
     5581 ggtgcgggaa atctgtattt ccaggttaag cctgttaatc agacgattct gttcgccgcg
     5641 ttctgtttcg ataccgcgtg tttccatcgc acaggcagac tttccgaggt gaataccagg
     5701 cgttttctca agcccctgtc gctcgtatga acgatggtct atctcttcct gataaccggc
     5761 gttcgccagt gccctgtttg catggtcagc ccatgatgcc cgccacgtct cggcatgtgt
     5821 ccggtcgttc cagtccctga cctttccacc gaatccagca ggtccgacag ctctcgtggt
     5881 cagcatgatg tgcgcatggg gatttgtttt atccatgtga tggaacgcca catcagcaat
     5941 catgccctga ctgacaaagt tttctctgac aaaggcgaga acggtttccc gtgcggcatc
     6001 ctgcggcagt tcgtggggga tggcgagttc aatttcccgc gcaagttgtg agttcttccg
     6061 gcgttcggcc ttctcaacgg cattccagag ttcggcacgg ttcgtacacc aggcaggggc
     6121 tgtcgcggga gtcagaatca cagcttcagc cacaccgctt ttgcgggtgt agtcgtgagt
     6181 cagtccggta cgctcatcaa gcatcagtga accggaacga taggcagcag aagcaacggc
     6241 gctgtagccg ctgtttctgg agatgatttt catgctgaga tgataaatcg ccatttctgc
     6301 cgtaatgcct ttttgtggtt ttctttcagc cccgc
//
