LOCUS       NC_018660               1549 bp    DNA     circular CON 02-MAY-2024
DEFINITION  Escherichia coli O104:H4 str. 2011C-3493 plasmid pG-EA11, complete
            sequence.
ACCESSION   NC_018660
VERSION     NC_018660.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN01831188
            Assembly: GCF_000299455.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli O104:H4 str. 2011C-3493
  ORGANISM  Escherichia coli O104:H4 str. 2011C-3493
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1549)
  AUTHORS   Ahmed,S.A., Awosika,J., Baldwin,C., Bishop-Lilly,K.A., Biswas,B.,
            Broomall,S., Chain,P.S., Chertkov,O., Chokoshvili,O., Coyne,S.,
            Davenport,K., Detter,J.C., Dorman,W., Erkkila,T.H., Folster,J.P.,
            Frey,K.G., George,M., Gleasner,C., Henry,M., Hill,K.K., Hubbard,K.,
            Insalaco,J., Johnson,S., Kitzmiller,A., Krepps,M., Lo,C.C., Luu,T.,
            McNew,L.A., Minogue,T., Munk,C.A., Osborne,B., Patel,M.,
            Reitenga,K.G., Rosenzweig,C.N., Shea,A., Shen,X., Strockbine,N.,
            Tarr,C., Teshima,H., van Gieson,E., Verratti,K., Wolcott,M., Xie,G.,
            Sozhamannan,S. and Gibbons,H.S.
  CONSRTM   Threat Characterization Consortium
  TITLE     Genomic comparison of Escherichia coli O104:H4 isolates from 2009
            and 2011 reveals plasmid, and prophage heterogeneity, including
            shiga toxin encoding phage stx2
  JOURNAL   PLoS One 7 (11), e48228 (2012)
   PUBMED   23133618
REFERENCE   2  (bases 1 to 1549)
  AUTHORS   Johnson,S.L., Teshima,H., Chertov,O., Gibbons,H.S.,
            Bishop-Lily,K.A., Strockbine,N., Minogue,T., Rosenzweig,N.,
            Sozhamannan,S. and Detter,C.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-FEB-2012) Genome Science B6, Los Alamos National
            Laboratory, PO Box 1663 M888, Los Alamos, NM 87545, USA
COMMENT     ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_000299455.1-RS_2024_05_02
            Annotation Date                   :: 05/02/2024 01:27:50
            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)                     :: 5,382
            CDSs (total)                      :: 5,259
            Genes (coding)                    :: 4,969
            CDSs (with protein)               :: 4,969
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 92
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 290
            CDSs (without protein)            :: 290
            Pseudo Genes (ambiguous residues) :: 0 of 290
            Pseudo Genes (frameshifted)       :: 117 of 290
            Pseudo Genes (incomplete)         :: 185 of 290
            Pseudo Genes (internal stop)      :: 58 of 290
            Pseudo Genes (multiple problems)  :: 62 of 290
            Pseudo Genes (short protein)      :: 2 of 290
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP003292.1.
            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..1549
                     /organism="Escherichia coli O104:H4 str. 2011C-3493"
                     /mol_type="genomic DNA"
                     /strain="2011C-3493"
                     /host="Homo sapiens"
                     /db_xref="taxon:1133852"
                     /plasmid="pG-EA11"
                     /collection_date="2011"
                     /note="isolated from US citizen afflicted with HUS after
                     travel to Germany during the 2011 Escherichia coli oubreak"
     gene            join(1313..1549,1..240)
                     /locus_tag="O3K_RS26550"
                     /old_locus_tag="O3K_26522"
     CDS             join(1313..1549,1..240)
                     /locus_tag="O3K_RS26550"
                     /old_locus_tag="O3K_26522"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_000469298.1"
                     /translation="MFIDSEKRLKQLSDEAKKNTEDLEEAKKNSRFTQVSPKGWERVRE
                     LLKDSQGISALKLYSFLAEHIDPTCGAVVADQQFLAEKLGVSRSTIIRWLNYLESKNAL
                     VRIPVAGKVCAYALDPHEVWKGYNTTKNHAAFVTKTLVNKDGDIQRRIMAMFSN"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(685..810)
                     /locus_tag="O3K_RS26555"
     CDS             complement(685..810)
                     /locus_tag="O3K_RS26555"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001431667.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001431667.1"
                     /translation="MWLPVLFRFLVDSLATLGHRLAASGITSRMLSVIPVLFFWG"
                     /name="hypothetical protein"
     Typing          832..930
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="6.22e-45"
     Typing          complement(1126..1234)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.091"
                     /coverage="100.0"
                     /evalue="9.09e-49"
     Typing          complement(472..732)
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.985"
                     /coverage="100.0"
                     /evalue="1.85e-99"
ORIGIN
        1 ctagctgaaa aacttggagt tagcagaagc acaattattc ggtggctcaa ttacttagaa
       61 tcaaaaaatg cattagttag aatccccgtt gctggtaagg tttgtgcgta tgccctcgat
      121 ccacatgaag tctggaaggg atacaacact acgaaaaacc atgcagcgtt tgtcactaaa
      181 acactggtca acaaagacgg tgatattcag cgccgaatca tggccatgtt ttcaaattga
      241 gctagcggca ggcggacaat caggggctac gtgttaacgt tctgaccatg attgtctatc
      301 ctgcattgct cttttgccgc ctcaaaatcc tttgcgtgtt tttgctcccc gttctccaaa
      361 aaaaaccgag ccgccacggt tccggccgcg ccttgagcgc taccggaaac cgtctgggga
      421 gaaccccaga cccccatcgc tgcaacaccg acggtctacg accacctacc aaccgcatgg
      481 ctgcctgttc cgtgcaaatg ggctttgcag ggggctggcg cggttcctgg cgacctgaaa
      541 gcccctggtt aggggtatcg gcgcgcttga cctcctgaga gcctctgtaa gcgtttttcg
      601 cgccttccat gccctggcgg gcatctaaaa cccgtttcgt gcgtctgaga gcttttgagc
      661 gcgtttgagg ggctatctgg cgactcatcc ccaaaagaac aacaccggga tcaccgacaa
      721 catgcgagag gtgatcccgc tcgccgcaag tcgatgaccg agcgtagcga gcgaatcgac
      781 gaggaagcgg aagagaactg gaagccacat tgagcactta cgcactgatg cggggtgtcg
      841 gggtgaagcc ctgaccaagt ggtaatcgta tcggcgtgca tgcgcggtta tacgattaca
      901 catcctgtcc cgatttctga ggcgttttaa cggtgaacgg acggcaaaaa aacgatggag
      961 ctgttgaacg tgaaaaccac gaaatctggc aaaaatcacg gctggcgagg cttgcatagg
     1021 agtaagccag tatacactcc gctatcgcta cgtgactggg tcagggcttc gccccgacac
     1081 ccccaaaggg cgttgcgttg cacgcaacac ccttgcctag aatagatctt ttacgccgat
     1141 ttgtaagtgg ttgttttttt agtgtgtttt ttatttacct gtcgcatcca ggatgacaca
     1201 acgttgtcgc atcctggatg cgacaacacg caacaaggtg ttgcatagat gtgtcatgat
     1261 ggcttagatt tgaaccaacg ttagtgcatg ggattttcag agggaaaaaa tcatgtttat
     1321 tgattcagaa aaacgactga aacaactttc agatgaggca aagaaaaaca ccgaggatct
     1381 cgaagaagca aagaaaaatt caaggtttac acaggtatcc ccaaaaggtt gggaacgtgt
     1441 tcgagagctg ctgaaggata gccaaggcat atcagcactg aagctgtact catttttagc
     1501 ggagcatatc gatcctacgt gtggcgctgt cgttgcggat cagcaattt
//
