LOCUS       NC_018663               1549 bp    DNA     circular CON 08-MAY-2024
DEFINITION  Escherichia coli O104:H4 str. 2009EL-2071 plasmid pG-09EL71,
            complete sequence.
ACCESSION   NC_018663
VERSION     NC_018663.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN01831190
            Assembly: GCF_000299475.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli O104:H4 str. 2009EL-2071
  ORGANISM  Escherichia coli O104:H4 str. 2009EL-2071
            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 (02-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_000299475.1-RS_2024_05_08
            Annotation Date                   :: 05/08/2024 01:25:52
            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)                     :: 5,348
            CDSs (total)                      :: 5,220
            Genes (coding)                    :: 4,915
            CDSs (with protein)               :: 4,915
            Genes (RNA)                       :: 128
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 97
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 305
            CDSs (without protein)            :: 305
            Pseudo Genes (ambiguous residues) :: 0 of 305
            Pseudo Genes (frameshifted)       :: 116 of 305
            Pseudo Genes (incomplete)         :: 198 of 305
            Pseudo Genes (internal stop)      :: 59 of 305
            Pseudo Genes (multiple problems)  :: 62 of 305
            Pseudo Genes (short protein)      :: 2 of 305
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP003303.1.
            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. 2009EL-2071"
                     /mol_type="genomic DNA"
                     /strain="2009EL-2071"
                     /serotype="O104:H4"
                     /host="Homo sapiens"
                     /db_xref="taxon:1133853"
                     /plasmid="pG-09EL71"
                     /collection_date="2009"
     gene            complement(407..532)
                     /locus_tag="O3O_RS29885"
     CDS             complement(407..532)
                     /locus_tag="O3O_RS29885"
                     /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"
     gene            1035..1511
                     /locus_tag="O3O_RS27375"
                     /old_locus_tag="O3O_26352"
     CDS             1035..1511
                     /locus_tag="O3O_RS27375"
                     /old_locus_tag="O3O_26352"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000469298.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /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"
     Typing          554..652
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="6.22e-45"
     Typing          complement(848..956)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.091"
                     /coverage="100.0"
                     /evalue="9.09e-49"
     Typing          complement(194..454)
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.985"
                     /coverage="100.0"
                     /evalue="1.85e-99"
ORIGIN
        1 gttctgacca tgattgtcta tcctgcattg ctcttttgcc gcctcaaaat cctttgcgtg
       61 tttttgctcc ccgttctcca aaaaaaaccg agccgccacg gttccggccg cgccttgagc
      121 gctaccggaa accgtctggg gagaacccca gacccccatc gctgcaacac cgacggtcta
      181 cgaccaccta ccaaccgcat ggctgcctgt tccgtgcaaa tgggctttgc agggggctgg
      241 cgcggttcct ggcgacctga aagcccctgg ttaggggtat cggcgcgctt gacctcctga
      301 gagcctctgt aagcgttttt cgcgccttcc atgccctggc gggcatctaa aacccgtttc
      361 gtgcgtctga gagcttttga gcgcgtttga ggggctatct ggcgactcat ccccaaaaga
      421 acaacaccgg gatcaccgac aacatgcgag aggtgatccc gctcgccgca agtcgatgac
      481 cgagcgtagc gagcgaatcg acgaggaagc ggaagagaac tggaagccac attgagcact
      541 tacgcactga tgcggggtgt cggggtgaag ccctgaccaa gtggtaatcg tatcggcgtg
      601 catgcgcggt tatacgatta cacatcctgt cccgatttct gaggcgtttt aacggtgaac
      661 ggacggcaaa aaaacgatgg agctgttgaa cgtgaaaacc acgaaatctg gcaaaaatca
      721 cggctggcga ggcttgcata ggagtaagcc agtatacact ccgctatcgc tacgtgactg
      781 ggtcagggct tcgccccgac acccccaaag ggcgttgcgt tgcacgcaac acccttgcct
      841 agaatagatc ttttacgccg atttgtaagt ggttgttttt ttagtgtgtt ttttatttac
      901 ctgtcgcatc caggatgaca caacgttgtc gcatcctgga tgcgacaaca cgcaacaagg
      961 tgttgcatag atgtgtcatg atggcttaga tttgaaccaa cgttagtgca tgggattttc
     1021 agagggaaaa aatcatgttt attgattcag aaaaacgact gaaacaactt tcagatgagg
     1081 caaagaaaaa caccgaggat ctcgaagaag caaagaaaaa ttcaaggttt acacaggtat
     1141 ccccaaaagg ttgggaacgt gttcgagagc tgctgaagga tagccaaggc atatcagcac
     1201 tgaagctgta ctcattttta gcggagcata tcgatcctac gtgtggcgct gtcgttgcgg
     1261 atcagcaatt tctagctgaa aaacttggag ttagcagaag cacaattatt cggtggctca
     1321 attacttaga atcaaaaaat gcattagtta gaatccccgt tgctggtaag gtttgtgcgt
     1381 atgccctcga tccacatgaa gtctggaagg gatacaacac tacgaaaaac catgcagcgt
     1441 ttgtcactaa aacactggtc aacaaagacg gtgatattca gcgccgaatc atggccatgt
     1501 tttcaaattg agctagcggc aggcggacaa tcaggggcta cgtgttaac
//
