LOCUS       NC_013363               5686 bp    DNA     circular CON 16-JUN-2024
DEFINITION  Escherichia coli O26:H11 str. 11368 plasmid pO26_3, complete
            sequence.
ACCESSION   NC_013363
VERSION     NC_013363.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00060955
            Assembly: GCF_000091005.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli O26:H11 str. 11368
  ORGANISM  Escherichia coli O26:H11 str. 11368
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1
  AUTHORS   Ogura,Y., Ooka,T., Iguchi,A., Toh,H., Asadulghani,M., Oshima,K.,
            Kodama,T., Abe,H., Nakayama,K., Kurokawa,K., Tobe,T., Hattori,M. and
            Hayashi,T.
  TITLE     Comparative genomics reveal the mechanism of the parallel evolution
            of O157 and non-O157 enterohemorrhagic Escherichia coli
  JOURNAL   Proc Natl Acad Sci U S A 106 (42), 17939-17944 (2009)
   PUBMED   19815525
REFERENCE   2  (bases 1 to 5686)
  AUTHORS   Hattori,M., Toh,H., Oshima,K., Yamashita,A., Hayashi,T., Ogura,Y.
            and Ooka,T.
  TITLE     Direct Submission
  JOURNAL   Submitted (21-DEC-2008) Contact:Masahira Hattori University of
            Tokyo, Graduate School of Frontier Sciences; 5-1-5 Kashiwanoha,
            Kashiwa, Chiba 277-8562, Japan URL
            :http://www.cb.k.u-tokyo.ac.jp/hattorilab/
COMMENT     ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_000091005.1-RS_2024_06_16
            Annotation Date                   :: 06/16/2024 13:50:41
            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)                     :: 6,020
            CDSs (total)                      :: 5,886
            Genes (coding)                    :: 5,560
            CDSs (with protein)               :: 5,560
            Genes (RNA)                       :: 134
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 101
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 326
            CDSs (without protein)            :: 326
            Pseudo Genes (ambiguous residues) :: 0 of 326
            Pseudo Genes (frameshifted)       :: 116 of 326
            Pseudo Genes (incomplete)         :: 200 of 326
            Pseudo Genes (internal stop)      :: 80 of 326
            Pseudo Genes (multiple problems)  :: 61 of 326
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP010956.1.
            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..5686
                     /organism="Escherichia coli O26:H11 str. 11368"
                     /mol_type="genomic DNA"
                     /strain="11368"
                     /serovar="O26:H11"
                     /db_xref="taxon:573235"
                     /plasmid="pO26_3"
                     /note="enteropathogenic Escherichia coli"
     gene            complement(6..197)
                     /locus_tag="ECO26_RS30575"
                     /old_locus_tag="ECO26_p3-2"
     CDS             complement(6..197)
                     /locus_tag="ECO26_RS30575"
                     /old_locus_tag="ECO26_p3-2"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165985.1"
                     /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_000165974.1"
                     /translation="MTKQEKTALNMARFIRGQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            262..585
                     /locus_tag="ECO26_RS30580"
                     /old_locus_tag="ECO26_p3-3"
     CDS             262..585
                     /locus_tag="ECO26_RS30580"
                     /old_locus_tag="ECO26_p3-3"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_000956000.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGDELRRLRLAVREQGTR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            794..>1225
                     /locus_tag="ECO26_RS35585"
                     /pseudo=""
     CDS             794..>1225
                     /locus_tag="ECO26_RS35585"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            1263..1781
                     /locus_tag="ECO26_RS34590"
     CDS             1263..1781
                     /locus_tag="ECO26_RS34590"
                     /function="essential for mobilization of the plasmid"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001447511.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_031942530.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNNEFRRLGESVSEAVTSNE
                     TKIRDAIALFTASTEKSLEKHREGVKEAMMQHRKDVLKLAGNTGMMLLGIVFLLFTASG
                     GTLWYLGGRIQANLEEIRKQEETLQKLNAKTWGVEFVQDGNRKFLVLPYGKSAEVIPFQ
                     GKEWVHLKE"
                     /name="MbeB family mobilization protein"
     gene            1788..2021
                     /locus_tag="ECO26_RS34595"
     CDS             1788..2021
                     /locus_tag="ECO26_RS34595"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_000137445.1"
                     /translation="MTELETHLLNALEQLQQDYMQRLSEWESAFVELQKMFSLTQRDNA
                     MLNERVMQLSQQVQHLSEQTERLSQLYSENWR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(2405..3535)
                     /locus_tag="ECO26_RS30595"
                     /old_locus_tag="ECO26_p3-5"
     CDS             complement(2405..3535)
                     /locus_tag="ECO26_RS30595"
                     /old_locus_tag="ECO26_p3-5"
                     /EC_number="2.1.1.-"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000216732.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0008170 - N-methyltransferase activity [Evidence IEA]"
                     /GO_process="GO:0009307 - DNA restriction-modification
                     system [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="site-specific DNA-methyltransferase"
                     /protein_id="WP_000216732.1"
                     /translation="MTVKNNYLNRGYLVTSTTQAKKIAKLHLEKLDLADKFSFGLPEVD
                     DRYHVWRVPLVATGHRIGEIVINSKTSTIDYKKSSKSPFLIKKAMEVVHTPKKVKKEKK
                     IISKSPLNNMLLQGNCAETLKKLPDESVNLVFTSPPYYNAKPEYSEYHTYDEYLSLLRS
                     VIKECHRVLSEGRFFVINVSPVLIRRASRNEASKRIAVPFDLHRLFIEEGYEFIDDIHW
                     VKPEGAGWALGRGRRFAADRNPLQYKPVPVTEYILVYRKKTDKLIDWNIRNHHSKEDVF
                     DSKIGDDYEKTNLWKINPSRNRKHPATFPYGLAERVIKYYSFKNDVILDPFAGSGTTAK
                     AAIDLGRRFVMCEISKQYIDLIIEGTMLGGDLKIIN"
                     /name="site-specific DNA-methyltransferase"
     gene            3612..4679
                     /locus_tag="ECO26_RS30600"
                     /old_locus_tag="ECO26_p3-6"
     CDS             3612..4679
                     /locus_tag="ECO26_RS30600"
                     /old_locus_tag="ECO26_p3-6"
                     /EC_number="3.1.21.-"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001009472.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="CfrBI family restriction endonuclease"
                     /protein_id="WP_001009472.1"
                     /translation="MNFKDKNCFPNELIALAKISKNDVLDKFGTDVFKKVVYDVLTGKN
                     VREFTEILTRTRLLESNLSFFDFFVDKMKEGITPKQLYLYAKNALSNKSYVKSNQPVLE
                     WMVMMTNKQTQNVLRDEHGDGFDRLALRTQEEILKIKNGYEDKIGEISIGGQKVSLEDF
                     CYIILSLGSQTLTIRGSEKSLHGKYFEKLILGSLFTIMGFEYKEKIEEGLNAKCFTLST
                     RADDRESDATLVFNGKAIRVDIGFIGRGNTEISLDKVSRFRRMDDIGGVMHNISTMVIV
                     DVIGDRSRIVNMAEEIDGKVVAMSDPYWVAKVSSYISSKLNVDDLLEDKPQLKDIQSFI
                     SDALENVDLEKYIKL"
                     /name="CfrBI family restriction endonuclease"
     gene            5226..5540
                     /locus_tag="ECO26_RS30605"
     CDS             5226..5540
                     /locus_tag="ECO26_RS30605"
                     /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_224157910.1"
                     /translation="MSVDFCDARQGGGAYGKNASGAAFFALCLFAHMFFPALSPDSVDN
                     RIAVFEQADSARRSRTTERSESVSEEAEKRLDVHFLLTHLCGISHPAWCTFHTMRPDAE
                     "
                     /name="hypothetical protein"
     Typing          5528..5607
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.67e-34"
     Typing          complement(4951..5496)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.545"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          576..2125
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.992"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atgtgtcaga ggttttcacc gtcatccccg aaacgtgcga ggcagctgcg gtaaagctca
       61 tcggcgtggt cgtgaagcga ttcacagata tctgcctgtt catctgcgtc cagttcgtta
      121 agtttctcca gcagcgttaa tgtctggcct ctgatgaaac gggccatgtt aagggcggtt
      181 ttttcctgtt tagtcactga tgcctccgtg taagggggat ttctgttcat gggggtaatg
      241 ataccgatga aacgcgagag gatgctcacg atacgggtta ctgatgatga acatgcccgg
      301 ttactggaac gctgtgaggg taaacaactg gcggtatgga tgcggcgggt ctgcctgggt
      361 gagccggttg cccgttccgg gaagctgccg acactggctc cgccgttact gcgtcagctg
      421 gccgccatcg ggaataacct gaatcagaca gcgaggaagg tgaacagcgg acagtggtct
      481 tccggtgacc gggttcaggt agtggccgca ctgatggcca tcggggatga gctgcgccgg
      541 ctgcgtctgg ccgtcaggga acaggggacg cgggatgata gttaaatttc atgccagggg
      601 aaaaggtggt ggcagtggtc cggttgatta cctgctggga agggagcgta accgggaagg
      661 ggcaacggtg cttcagggta atccggaaga agtccgggaa ctcatcgatg ccacgccatt
      721 tgcgaagaaa tacacgtcag gtgttctgtc gttcgcggag aaggagctgc cgccgggagg
      781 acgtgaaaaa gtgatggcga gctttgagcg tgtactgatg cccggtctcg aaaaaaatca
      841 gtacagcatc ctgtgggtgg agcaccagga caagggacgg cttgagctga attttgtcat
      901 tccgaacatg gagctacaga gcggaaaacg cctccagccg tactacgacc gggcagacag
      961 gccgagaatt gatgcctggc agacgctggt taatcaccat tacgggctgc atgaccccaa
     1021 cgccccggag aaccgccgga tactgactct ccctgataac ctgccgaaaa cgaaacaggc
     1081 gcttgcagag agcgtcacgc gcgggataga cgctctttat catgtcgggg agataaaagg
     1141 ccgtcaggat gtgattcagg cgctcacgga ggcagggatt gaagtggtca gggtgacgcg
     1201 aagcagtatc agcattgcag gcccgaacgg cgggaggaat atcaagctga aaggagcatt
     1261 ttatgagcaa tcttttacag acgggcgcgg agttcgagaa aaagctgaaa gagagagccg
     1321 aatctacaga gaaaatgctg aacaacgagt tcaggaggct cggcgagtct gtcagcgagg
     1381 ctgtgacctc aaacgagacg aaaatcagag acgctatagc cctgttcaca gcctcgacag
     1441 agaaatcgct ggaaaaacac cgggaagggg tgaaagaggc gatgatgcag cacaggaagg
     1501 acgtgttaaa gctggcaggg aatacgggca tgatgttact ggggatagtc tttctcctgt
     1561 ttacagcgag tggcgggacg ctctggtatc ttggagggag gatacaggcg aacctggaag
     1621 aaatcaggaa gcaggaagag acattgcaga aactgaacgc gaagacatgg ggcgtggagt
     1681 ttgtgcagga cgggaacagg aaattccttg tccttccgta cgggaaatca gcggaggtga
     1741 ttccctttca ggggaaagag tgggtacatc tgaaggagtg acacagagtg acagagctgg
     1801 aaacacattt gctgaacgcc ttagagcagc tgcaacagga ctatatgcag cggctgagcg
     1861 aatgggagag cgccttcgtg gaattgcaga agatgttttc gcttacgcaa cgggacaacg
     1921 cgatgctgaa cgagcgggtc atgcagttga gtcagcaggt gcagcacttg agcgagcaga
     1981 cagaacgctt gagccagtta tacagcgaga actggagata agagaggaac ggctgataca
     2041 ggagcgcgaa catgtgttat ccctggaacg ggagcgtcag ccggaaatac aggaacgcac
     2101 gctggatggc ccttcgctgg gatggtgaaa ccatgaaaaa tggcaggtta agtggattaa
     2161 gacaggctaa tgtggtctgt accatctggt tgcataggta ttcatgcggt taaaatttat
     2221 caggcgcgat tgcggcagtt tttcgggggg tttgttgcca tttttacctg tctgctgctg
     2281 tgatcgcgct gaacgcgttt tggcggtgcg tacaattaag ggattatggt aaattcgaca
     2341 atgtggctga tgttgacgcg taaataagcc gccttaaggc ggcttttacc acagtaaagt
     2401 ttgattaatt tatgattttt aaatcaccac ctagcatggt tccttctatg atcagatcaa
     2461 tatactgctt tgatatctca cacatcacaa atcttctgcc taaatcaatt gctgcttttg
     2521 ctgttgttcc cgatccagca aaaggatcta aaataacatc atttttgaaa gaatagtatt
     2581 ttataactct ttctgccaga ccgtatggaa atgtagcagg atgttttctg ttacgagatg
     2641 gatttatttt ccataggttt gtcttttcgt aatcgtcgcc gatttttgag tcaaaaacat
     2701 cctctttgct atgatggttt cttatgttcc aatctattaa tttatcagtt ttttttctgt
     2761 aaacaagaat gtactcagtt actggtactg gtttatattg caacggattg cggtcagctg
     2821 cgaatcgacg gcctctacct aaagcccagc cagctccttc tggtttaacc caatgtatat
     2881 catctatgaa ttcatagcct tcttctataa ataacctgtg caagtcaaaa ggaacagcta
     2941 ttctttttga tgcttcattc cgtgacgccc ttcttattaa aacgggcgag acattgatga
     3001 cgaaaaaacg accttcgctt aaaactctat ggcactcttt tattactgaa cgcaatagag
     3061 agaggtattc atcatatgta tgatattcgg aatactctgg tttggcattg taatatggcg
     3121 gtgatgtgaa tactaagttc actgattcat caggtaattt tttcaaggtc tccgcgcagt
     3181 tgccttgtag taacatgtta tttaatggtg actttgatat gatttttttt tcttttttta
     3241 ccttttttgg ggtatggaca acctccattg ctttcttaat aagaaatgga gacttcgaac
     3301 ttttcttata atcaatagtt gacgtttttg aatttataac tatttcacca atcctgtggc
     3361 ctgtcgctac taatggtaca cgccatacat ggtaccgatc atcgacttca ggtaacccaa
     3421 aggaaaattt atcagctaag tctaatttct ctaggtgcaa ctttgctatt tttttcgcct
     3481 gagtcgtaga ggttaccaaa taacctctgt ttaagtaatt gtttttaact gtcatttttc
     3541 ctaactatcg atctgttacc atacaacctg ctatcttagc atctcatttt tactatgtcc
     3601 atggtgagga tatgaatttc aaggataaaa attgtttccc taacgaactc atagcgttgg
     3661 cgaaaatttc aaaaaatgat gttttagata agttcggaac ggatgttttt aaaaaggttg
     3721 tttatgatgt tttaacaggt aaaaatgttc gcgaattcac tgaaatacta actcgtacta
     3781 gattgttaga aagcaatctc tctttttttg acttttttgt ggataaaatg aaagaaggga
     3841 taacgccaaa gcagctttat ctctatgcaa aaaatgcatt atcgaacaag tcttatgtta
     3901 agtctaatca acctgttctc gagtggatgg ttatgatgac aaataaacag acccaaaatg
     3961 ttttaagaga tgagcatggg gatggttttg atagacttgc tttaaggacg caagaagaaa
     4021 tacttaaaat aaaaaacggg tatgaagata aaattggaga gatatctatt ggtgggcaaa
     4081 aggtgtcttt agaagatttt tgctatatta ttttatctct tggttcgcaa actttaacta
     4141 ttaggggatc tgagaaatct cttcatggta aatattttga aaagctaata ctcggttctt
     4201 tatttacaat aatgggtttt gaatataaag aaaaaattga agaagggtta aatgctaaat
     4261 gttttactct ttcaacaaga gctgatgaca gggagtctga tgctactctt gtttttaatg
     4321 ggaaggcgat tagggttgac attggtttta ttggtagggg taacacagaa ataagtttgg
     4381 ataaagtatc tagatttaga cgaatggatg atattggcgg agtgatgcat aatataagca
     4441 caatggttat tgttgacgtt attggtgata gaagtagaat agttaatatg gctgaagaga
     4501 ttgatggtaa agttgttgcg atgagtgatc cgtattgggt tgcaaaggtc tcttcctata
     4561 ttagttcgaa actgaatgta gatgatcttt tagaggataa acctcaactt aaagacatac
     4621 agtcttttat atctgatgca ttagagaatg tagatctgga aaaatacatt aaattataag
     4681 agattgtaat ccttgactgc gtgcttatta aaagcataat ctctacataa agaaaaacca
     4741 ccctggcagg tggtttttca aaggttagct aatcctggca gattatctaa ccaggtaatc
     4801 tggcttaagc agagcgcaga ccaccaaaac ttgttcttct agtgtagcca gaatcaggct
     4861 gatacttcaa gaactctgtt accaacttat aaatctcgct ctgctaaccc ggttaccaat
     4921 ggctgctgcc agtggcgttt ttacgtgtct ttccgggttg gactcaagac gatagttacc
     4981 ggataaggcg cagcggtcgg gctgaacggg gggttcgtgc acacagccca gcttggagcg
     5041 aacgacctac accgagccga gataccaaca gcgtgagcta tgagaaagcg ccacgcttcc
     5101 cgaagggaga aaggcggaga ggtatccggt aagcggcagg gtcggaacag gagagcgcac
     5161 gagggagctt ccagggggaa acgcctggta tctttatagt cctgtcgggt ttcgccacct
     5221 ctgacttgag cgtcgatttt tgtgatgctc gtcagggggg cggagcctat ggaaaaaacg
     5281 ccagcggcgc ggcttttttt gccctttgtc tttttgctca catgttcttt ccggccttat
     5341 cccctgattc tgtggataac cgtattgccg tttttgagca agcagactcc gctcgccgca
     5401 gtcgaacgac cgagcgcagc gagtcagtga gcgaggaagc ggaaaagcgc ctggacgtgc
     5461 attttctcct tacgcatctg tgcggcattt cacacccggc atggtgcact tttcatacaa
     5521 tgcgccctga tgccgaataa gtaagccagt atacactccg ctatcgctac gtgactgggt
     5581 cagggctgcg ccccgacacc cgctaaaacc cgctgacgcg tcctgacggg cttgtcggct
     5641 cccggcatcc gctcacagac aagctgtgac cgtttccggg agctgc
//
