LOCUS       NZ_CP091538             1552 bp    DNA     circular CON 15-MAR-2024
DEFINITION  Escherichia coli strain 537-20 plasmid p537-20_4, complete sequence.
ACCESSION   NZ_CP091538
VERSION     NZ_CP091538.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN25247371
            Assembly: GCF_021869725.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1552)
  AUTHORS   Neumann,B., Lippmann,N., Wendt,S., Karlas,T., Lubbert,C., Werner,G.,
            Pfeifer,Y. and Schuster,C.F.
  TITLE     Recurrent bacteremia with a hypermucoviscous Escherichia coli
            isolated from a patient with perihilar cholangiocarcinoma: insights
            from a comprehensive genome-based analysis
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1552)
  AUTHORS   Neumann,B., Lippmann,N., Wendt,S., Karlas,T., Lubbert,C., Werner,G.,
            Pfeifer,Y. and Schuster,C.F.
  TITLE     Direct Submission
  JOURNAL   Submitted (26-JAN-2022) Unit 13: Nosocomial Pathogens and Antibiotic
            Resistances, Robert Koch Institute, Burgstr. 37, Wernigerode 38855,
            Germany
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2021
            Assembly Method                   :: Unicycler v. 0.4.9b
            Assembly Name                     :: RKI_Ecoli_537-20
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 120.0x
            Sequencing Technology :: Oxford Nanopore MinION; Illumina NextSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_021869725.1-RS_2024_03_15
            Annotation Date                   :: 03/15/2024 05:57:40
            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)                     :: 4,967
            CDSs (total)                      :: 4,844
            Genes (coding)                    :: 4,616
            CDSs (with protein)               :: 4,616
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 228
            CDSs (without protein)            :: 228
            Pseudo Genes (ambiguous residues) :: 0 of 228
            Pseudo Genes (frameshifted)       :: 115 of 228
            Pseudo Genes (incomplete)         :: 120 of 228
            Pseudo Genes (internal stop)      :: 44 of 228
            Pseudo Genes (multiple problems)  :: 47 of 228
            Pseudo Genes (short protein)      :: 4 of 228
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP091538.1.
            Bacteria and source DNA available from Robert Koch Institute, FG13,
            Nosocomial Pathogens and Antibiotic Resistances, Burgstr. 37,
            Wernigerode, Germany.
            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..1552
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="537-20"
                     /isolation_source="blood"
                     /host="host"
                     /db_xref="taxon:562"
                     /plasmid="p537-20_4"
                     /geo_loc_name="Germany"
                     /lat_lon="51.3397 N 12.3731 E"
                     /collection_date="2020"
                     /collected_by="Uni Klinik Leipzig"
     gene            complement(667..1143)
                     /locus_tag="L6D13_RS24685"
                     /old_locus_tag="L6D13_24685"
     CDS             complement(667..1143)
                     /locus_tag="L6D13_RS24685"
                     /old_locus_tag="L6D13_24685"
                     /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          1223..1331
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.95e-50"
     Typing          177..437
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.13"
                     /coverage="100.0"
                     /evalue="1.84e-104"
ORIGIN
        1 atgtgcaaat gtaataccgt cacccgcgac gatattccgt ttgccatctg gtcagggctt
       61 cgccccgaca ccccgtatca gtgcgtacgt gctcaatgtg gtttccggtt ctcttccgct
      121 tcctcgccca ctcgctcact aacgttcggt cgctggggct gcggcgagcg gtgccacctc
      181 tcgcatgttg tcggtgattc cgctgttgtt ctttcgggga tgagtcgtca gatagccctt
      241 caaacgcgct cagaagctct cagacgcacg aggcggggtt taaatgcccg tcagggcatg
      301 gaaggcgcga aaaacgctta cagagcgttt caggaggtca ggcgcgccga tacccctagc
      361 caggggcttt caggtcgcca ggaaccgcgc cagccctctg caaagcccat ttgcacggta
      421 caggcagtca ctcggttggt aggtggtcgt agaccgtcgg tgttacagcg atgggggtct
      481 ggggttctcc ccagacggtt tccggttgcg ctcaaggcgc tgccggaacc gtggcggctc
      541 ggtcgttctg gagatcgggg agcaaaaaca cgcaagggat tttgaggcgg caaaagagca
      601 atgcaggata gacaatcatg gtcagaacgt taacacgtag cccctgattg tccgcctgcc
      661 gctggctcaa tttgaaaaca tggccatgat tcggcgctga atatcaccgt ctttgttgac
      721 cagtgtttta gtgacaaatg ctgcatggtt tttcgtagtg ttgtatccct tccagacttc
      781 atgtggatcg agggcatacg cacaaacctt accagcaacg gggattctaa ctaatgcatt
      841 ttttgattct aagtaattga gccaacgaat aattgtgctt ctgctaactc caagtttttc
      901 agctaggaat tgctgatccg caacgacagc gccacacgta ggatcgatat gctccgctaa
      961 aaatgagtac agcttcagtg ctgatatgcc ttggctatcc ttcagcagct ctcgaacgcg
     1021 ttcccaacct tttggggata cctgtgtaaa ccttgaattc ttctttgctt cttcgagatc
     1081 ctcggtgttt ttctttgcct catctgaaag ttgtttcagt cgtttttctg aatcaataaa
     1141 catgattttt tccctctaaa aatcccatgc actaacgttg gttcaaatct aagccatcat
     1201 gacacatctg tgcaacacct tgttgcgtgt tgtcgcatcc aggatgcgac aacgttgtgt
     1261 caccctggat gcgacaggta aacaaaaaac acactaaaaa aacaacaact tacaaatcgg
     1321 cgtaaaagat ctattctagg caagggtgtt gcgtgcaacg caacgccctt tgggggtgtc
     1381 ggggcgaagc cctgacccag tcacgtagcg atagcggagt gtatactggc ttactcctct
     1441 gcaagcctcg ccagccgtga tttttgccag atttcgtggt tttcacgttc aacagctcct
     1501 gcacgttttt tgccgtccgt tcaccgttaa cccccgcaga aatcgggaca gg
//
