LOCUS       NZ_CP045865             3306 bp    DNA     circular CON 23-JUN-2024
DEFINITION  Escherichia coli O157:H7 strain ATCC 43890 plasmid p2CFSAN076619,
            complete sequence.
ACCESSION   NZ_CP045865
VERSION     NZ_CP045865.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN10574722
            Assembly: GCF_009650175.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli O157:H7
  ORGANISM  Escherichia coli O157:H7
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3306)
  AUTHORS   Mafiz,A., Kastanis,G. and Gonzalez-Escalona,N.
  TITLE     Closed genomes of twenty-eight foodborne pathogens from the CFSAN
            verification set by a combination of long and short-reads
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3306)
  AUTHORS   Mafiz,A., Kastanis,G. and Gonzalez-Escalona,N.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-NOV-2019) ORS/DM/MMSB, Food and Drug
            Administration-College Park, 5001 Campus Drive, College Park, MD
            20740-3835, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SPAdes v. 3.12.0; CANU v. 1.7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 30.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_009650175.1-RS_2024_06_23
            Annotation Date                   :: 06/23/2024 04:09:07
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,399
            CDSs (total)                      :: 5,272
            Genes (coding)                    :: 4,990
            CDSs (with protein)               :: 4,990
            Genes (RNA)                       :: 127
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 98
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 282
            CDSs (without protein)            :: 282
            Pseudo Genes (ambiguous residues) :: 0 of 282
            Pseudo Genes (frameshifted)       :: 107 of 282
            Pseudo Genes (incomplete)         :: 160 of 282
            Pseudo Genes (internal stop)      :: 70 of 282
            Pseudo Genes (multiple problems)  :: 43 of 282
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP045865.1.
            Bacteria and source DNA available from Dwayne Roberson.
            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..3306
                     /organism="Escherichia coli O157:H7"
                     /mol_type="genomic DNA"
                     /strain="ATCC 43890"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /culture_collection="ATCC:43890"
                     /db_xref="taxon:83334"
                     /plasmid="p2CFSAN076619"
                     /geo_loc_name="USA:CA"
                     /collection_date="1987"
                     /collected_by="CDC"
     gene            255..578
                     /gene="mobA"
                     /locus_tag="GIX96_RS26685"
                     /old_locus_tag="GIX96_26685"
     CDS             255..578
                     /gene="mobA"
                     /locus_tag="GIX96_RS26685"
                     /old_locus_tag="GIX96_26685"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_000166966.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            complement(813..1193)
                     /gene="lsoB"
                     /locus_tag="GIX96_RS26690"
                     /old_locus_tag="GIX96_26690"
     CDS             complement(813..1193)
                     /gene="lsoB"
                     /locus_tag="GIX96_RS26690"
                     /old_locus_tag="GIX96_26690"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052605.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system antitoxin LsoB"
                     /protein_id="WP_000710826.1"
                     /translation="MKKDKKYQIEAIKNKDKTLFIVYATDIYSPSEFFSKIESDLKKKK
                     SKGDVFFDLIIPNGGKKDRYVYTSFNGEKFSSYTLNKVTKTDEYNDLSELSASFFKKNF
                     DKINVNLLSKATSFALKKGIPI"
                     /name="lsoB"
     gene            complement(1190..2230)
                     /gene="lsoA"
                     /locus_tag="GIX96_RS26695"
                     /old_locus_tag="GIX96_26695"
     CDS             complement(1190..2230)
                     /gene="lsoA"
                     /locus_tag="GIX96_RS26695"
                     /old_locus_tag="GIX96_26695"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052606.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system mRNA
                     endoribonuclease LsoA"
                     /protein_id="WP_000068433.1"
                     /translation="MAQNPFKALNINIDKIESALTQNGVTNYSSNVKNERETHISGTYK
                     GIDFLIKLMPSGGNTTIGRASGQNNTYFDEIALIIKENCLYSDTKNFEYTIPKFSDDDR
                     ANLFEFLSEEGITITEDNNNDPNCKHQYIMTTSNGDRVRAKIYKRGSIQFQGKYLQIAS
                     LINDFMCSILNMKEIVEQKNKEFNVDIKKETIESELHSKLPKSIDKIHEDIKKQLSCSL
                     IMKKIDVEMEDYSTYCFSALRAIEGFIYQILNDVCNPSSSKNLGEYFTENKPKYIIREI
                     HQETINGEIAEVLCECYTYWHENRHGLFHMKPGIADTKTINKLESIAIIDTVCQLIDGG
                     VARLKL"
                     /name="lsoA"
     gene            complement(2495..2608)
                     /locus_tag="GIX96_RS27450"
     CDS             complement(2495..2608)
                     /locus_tag="GIX96_RS27450"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001459398.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPVRHDLSPLAAAIGN"
                     /name="hypothetical protein"
     gene            2719..2967
                     /locus_tag="GIX96_RS26995"
                     /old_locus_tag="GIX96_26700"
     CDS             2719..2967
                     /locus_tag="GIX96_RS26995"
                     /old_locus_tag="GIX96_26700"
                     /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_000919062.1"
                     /translation="MAGSEQESARGSFRGETPGIFIVLSGFATSGLSVDFCDARQGGGA
                     YGKTPAVLASSGALLFAHMFFPALSPDSVDNRITAFE"
                     /name="hypothetical protein"
     gene            complement(3095..3289)
                     /locus_tag="GIX96_RS26705"
                     /old_locus_tag="GIX96_26705"
     CDS             complement(3095..3289)
                     /locus_tag="GIX96_RS26705"
                     /old_locus_tag="GIX96_26705"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041624.1"
                     /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_001041624.1"
                     /translation="MNKQQQTALNMAGFIKSQSLTLLEKLDALDADEQATMCEKLHELA
                     EELQNSIQTRFEVENSTEI"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          21..246
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="89.583"
                     /coverage="99.0"
                     /evalue="1.05e-76"
     Typing          complement(2537..3066)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.413"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          256..575
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="7.58e-63"
ORIGIN
        1 tctgtctgtc atctgcgtcg tgtgattata tcgcgcacca cttttcgacc gtcttaccgc
       61 cggtattctg ccgacggaca tttcagtcag acaacactgt cactgccaaa aaacagcagt
      121 gctttgttgg taattcgaac ttgcagacag gacaggatgt gcaattgtta taccgcgcat
      181 acatgcacgc tattacaatt accctggtca gggcttcgcc ccgacacccc atgtcagata
      241 cggagccatg ttttatgaca aaacgaagtg gaagtaatac gcgcaggcgg gctatcagtc
      301 gccctgttcg tctgacggca gaagaagacc aggaaatcag aaaaagggct gctgaatgcg
      361 gcaagaccgt ttctggtttt ttacgggcgg cagctctcgg taagaaagtt aactcactga
      421 ctgatgaccg ggtgctgaaa gaagttatgc gactgggggc gttgcagaaa aaactcttta
      481 tcgacggcaa gcgtgtcggg gacagagagt atgcggaggt gctgatcgct attacggagt
      541 atcaccgtgc cctgttatcc aggcttatgg cagattagct tcccggagag aaactgtcga
      601 aaacagacgg tatgaacgcc gtaagccccc aaaccgatcg ccattcactt tcatgcatag
      661 ctatgcagtg agctgaaagc gatcctgacg catttttccg gtttaccccg gggaaaacat
      721 ctctttttgc ggtgtctgcg tcagaatcgc gttcagcgcg ttttggcggt gcgcgtaatg
      781 agacgttatg gtaaatgtct tctggcttga tattatattg gaatgccttt tttcaaagca
      841 aatgatgtgg ctttggatag aaggtttacg ttgatcttat caaagttttt tttaaagaac
      901 gaagccgaga gctcagataa atcattatat tcatcagttt tcgtaacttt gtttaatgtg
      961 taacttgaaa acttctcgcc attaaatgac gtatagacgt aacgatcttt ttttccaccg
     1021 ttaggaatta ttaaatcaaa aaaaacatca cccttgcttt tctttttctt caagtcggat
     1081 tcgatttttg agaaaaattc gctcgggcta taaatatcag tagcatagac aataaataaa
     1141 gttttatctt tattttttat tgcttctatt tgatattttt tatctttttt cataatttca
     1201 acctagctac gccaccatct attaattggc aaacggtatc gatgattgcg attgattcta
     1261 atttgttaat tgtcttcgtg tcagctattc ctggtttcat atgaaacaaa ccatgcctgt
     1321 tctcatgcca gtaagtgtag cattcacaca aaacttccgc tatttcacca tttatagttt
     1381 cttggtgtat ttctctgatt atatatttgg gtttgttttc agtgaagtat tcgccaaggt
     1441 tctttgatga tgatggattg caaacatcat taagtatttg atatataaag ccttctatgg
     1501 ctcttaatgc agagaagcag tatgttgagt aatcttccat ttcgacatct atttttttca
     1561 ttattagcga gcatgatagc tgttttttga tatcttcatg gattttatcg atgctttttg
     1621 gtagtttgct atgcaactcg gactcaatag tttctttttt tatgtcaaca ttaaattctt
     1681 tatttttttg ttcgacaatc tctttcatgt ttagtattga gcacatgaaa tcgttaatca
     1741 aactcgcgat ttgaaggtat tttccttgga attgaataga gccgcgcttg taaatttttg
     1801 ccctgaccct gtcaccattg ctggtggtca taatatattg gtgtttacaa ttaggatcgt
     1861 tattattatc ttctgttatt gttatcccct cttcagaaag aaattcaaat agatttgccc
     1921 tgtcatcatc actgaatttt ggaatggtgt attcaaagtt ctttgtgtct gaatacaaac
     1981 agttttcttt tataatcaag gcgatttcat caaagtaagt gttattttgc ccagacgctc
     2041 ttccgatagt ggtatttccg cctgatggca ttagttttat taagaagtct attcctttat
     2101 atgtgccaga tatgtgagtt tctctttcgt tttttacatt agaggaatag tttgtgacgc
     2161 cattctgcgt cagagcagac tcaatcttgt caatattgat atttagtgct ttaaacgggt
     2221 tctgtgccat tgggtcaatc cgttgttttt tttgaatatg tacagatctt gtttttttgt
     2281 caacggaata gctgttcgtt gacttgatag accgattgat tcatcatctc ataaataaag
     2341 aaaaaccacc gctaccaacg gtggttttct caaggttcgc tgagctacca actctttgaa
     2401 ccaaggtaac tggcttggag gagcgcagtc accaaaatct gttctttcag tttagcctta
     2461 acaggtgcat aacttcaaga caaactcctc taaatcagtt accaatggct gctgccagtg
     2521 gcgataagtc gtgtcttacc gggttggact caagacgata gttaccggat aaggcgcagc
     2581 ggtcgggctg aacggggggt tcgtgcacac agcccagctt ggagcgaacg acctacaccg
     2641 aactgagata ccaacagcgt gagctatgag aaagcgccac gcttcccgaa gggagaaagg
     2701 cggacaggta tccggtaagt ggcagggtcg gaacaggaga gcgcacgagg gagcttccgg
     2761 ggggaaacgc ctggtatctt tatagtcctg tcgggtttcg ccacctctgg cttgagcgtc
     2821 gatttttgtg atgctcgtca ggggggcgga gcctatggaa aaacgcctgc ggtgctggct
     2881 tcttccggtg ctttgctttt tgctcacatg ttctttccgg ctttatcccc tgattctgtg
     2941 gataaccgta ttaccgcctt tgagtgagct gacaccgctc gccgcagtcg aacgaccgag
     3001 cgtagcgagt cagtgagcga ggaagcggaa gagcgcctta tgtgacattt tctccttacg
     3061 ctctgttgtg ccgttcggca tcctgccctg agcgttatat ctctgtgcta ttttctactt
     3121 caaagcgtgt ctgtatgctg ttctggagtt cttctgcgag ttcgtgcagc ttctcacaca
     3181 tggtggcctg ctcgtcagca tcgagtgcgt ccagtttttc gagcagcgtc aggctctggc
     3241 tttttatgaa tcccgccatg ttgagtgcag tttgctgctg cttgttcatc tttctgtttt
     3301 ctccgt
//
