LOCUS       NZ_CP091539             1433 bp    DNA     circular CON 15-MAR-2024
DEFINITION  Escherichia coli strain 537-20 plasmid p537-20_5, complete sequence.
ACCESSION   NZ_CP091539
VERSION     NZ_CP091539.1
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 1433)
  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  JOURNAL   Unpublished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 1433)
  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
            CP091539.1.
            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..1433
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="537-20"
                     /isolation_source="blood"
                     /host="host"
                     /db_xref="taxon:562"
                     /plasmid="p537-20_5"
                     /geo_loc_name="Germany"
                     /lat_lon="51.3397 N 12.3731 E"
                     /collection_date="2020"
                     /collected_by="Uni Klinik Leipzig"
     gene            complement(join(1035..1433,1..33))
                     /locus_tag="L6D13_RS24690"
                     /old_locus_tag="L6D13_24690"
     CDS             complement(join(1035..1433,1..33))
                     /locus_tag="L6D13_RS24690"
                     /old_locus_tag="L6D13_24690"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001233485.1"
                     /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_063269671.1"
                     /translation="MRRVTQIDQESGEELGGFVAVIRPKQKSSFQRHFTMNQAALITIA
                     NELNHDQIRVLMALLADLDYENYIQVAQIDIADALKMQKTNVSRAIKNLIDFGIIIEGP
                     RIGRSKTYRLNPQFGWKGTVSNHRKALKNGLSVIQGGRV"
                     /name="helix-turn-helix domain-containing protein"
     gene            367..588
                     /locus_tag="L6D13_RS24695"
                     /old_locus_tag="L6D13_24695"
     CDS             367..588
                     /locus_tag="L6D13_RS24695"
                     /old_locus_tag="L6D13_24695"
                     /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_158414302.1"
                     /translation="MCKCNTVTRDDIPFAVWSGLRPDTPHQCVRAQCGFRFSSASSPTR
                     SLRSVAGAAASGVTSRMLSVIPLLFFRG"
                     /name="hypothetical protein"
     Typing          complement(348..428)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="95.122"
                     /coverage="87.0"
                     /evalue="9.59e-28"
     Typing          542..800
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.0"
                     /coverage="99.0"
                     /evalue="1.09e-111"
ORIGIN
        1 tgactcttgg tctatctgtg taactcttct cacggcttcc tccgttctag agaaaatagt
       61 tatctctcaa gataactaag ttatctctca agataactat ttgtcaaaag atcccgcttc
      121 tggcgcggct tccagaagac ccccttctgt atcttattac tctcgcaacc aaaacaaagt
      181 tttcatgggg tgtcggggcg aagccctgac ccagtcacgt agcgccagcg gagtgtatac
      241 tggcttattc cgctacaagc ctcgccagcc gtgatttttg ccagatttca cgctctcaac
      301 gctcaacagc tccatcatgg ttttgccgtc cgttcaccgc taaaacgcct cagaaatcgg
      361 gacaggatgt gcaaatgtaa taccgtcacc cgcgacgata ttccgtttgc cgtctggtca
      421 gggcttcgcc ccgacacccc gcatcagtgc gtacgtgctc aatgtggttt ccggttctct
      481 tccgcttcct cgcccactcg ctcactacgt tcggtcgctg gggctgcggc gagcggtgtc
      541 acctctcgca tgttgtcggt gattccgttg ttgttctttc ggggatgagt cgccagatag
      601 cccctcaaac gcgctcagaa gctctcagac acacgaaacg ggttttaaat gcccgtcagg
      661 gcatggaagg cgcgaaaaac gcttacagag gctctcagga ggtcaggcgc gccgataccc
      721 ctaaccaggg gctttcaggt cgctaggaac cgcgtcagcc ccctgcaaag cctatttgca
      781 cggcacaggc agctattcgg ctggttggtg gtcgtagacc gtcggtgtta cagcgatggg
      841 ggtctggggt tctccccaga cggtttccgg ttgcgctcaa ggcgctgccg gaaccgtggc
      901 ggcgcggtcg ttctggggat cggggagcaa aaacaagcaa gggattttga ggcggcaaaa
      961 gagcaatgca ggatagacaa tcatggtcaa aacgttaaca cgtagcccct gattgtccgc
     1021 ctgccgctgg ctctttaaac cctgccaccc tgaatgacgc taagaccatt cttgagtgct
     1081 ttcctgtgat tgcttaccgt ccctttccat ccgaactgag gattcaagcg ataggtttta
     1141 ctacgcccga tccttggtcc ttcgatgatg atcccaaaat caatcaagtt ttttattgcg
     1201 cgactgacgt tcgttttttg cattttcaat gcatccgcaa tatcgatttg cgcaacttgg
     1261 atgtagtttt cgtagtcaag atcagctagc aaagccatta aaacacgaat ttgatcatga
     1321 ttaagttcgt ttgcaatcgt gattaacgca gcctgattca tcgtaaaatg cctctgaaat
     1381 gacgattttt gcttgggacg aataactgca acaaatccgc ccaactcctc tcc
//
