LOCUS       NZ_CP082106             1535 bp    DNA     circular CON 24-JUL-2023
DEFINITION  Escherichia coli strain MS15046 plasmid pMS15046C, complete
            sequence.
ACCESSION   NZ_CP082106
VERSION     NZ_CP082106.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN20934286
            Assembly: GCF_030515615.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1535)
  AUTHORS   Nhu,N.T.K., Phan,M.-D., Brauner,A., Westerlund-Wilkstrom,B.,
            Irwin,A.D. and Schembri,M.A.
  TITLE     Neonatal meningitis Escherichia coli
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1535)
  AUTHORS   Nhu,N.T.K., Phan,M.-D., Brauner,A., Westerlund-Wilkstrom,B.,
            Irwin,A.D. and Schembri,M.A.
  TITLE     Direct Submission
  JOURNAL   Submitted (23-AUG-2021) School of Chemistry and Molecular
            Biosciences, University of Queensland, Building 76 Cooper road,
            Brisbane, Queensland 4072, Australia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: MAY-2021
            Assembly Method                   :: flye v. 2.5
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 126x
            Sequencing Technology             :: Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/21/2023 17:25:51
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,309
            CDSs (total)                      :: 5,193
            Genes (coding)                    :: 4,904
            CDSs (with protein)               :: 4,904
            Genes (RNA)                       :: 116
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 289
            CDSs (without protein)            :: 289
            Pseudo Genes (ambiguous residues) :: 0 of 289
            Pseudo Genes (frameshifted)       :: 109 of 289
            Pseudo Genes (incomplete)         :: 190 of 289
            Pseudo Genes (internal stop)      :: 72 of 289
            Pseudo Genes (multiple problems)  :: 71 of 289
            Pseudo Genes (short protein)      :: 4 of 289
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP082106.1.
            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..1535
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="MS15046"
                     /isolation_source="CSF"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMS15046C"
                     /geo_loc_name="Sweden"
                     /collected_by="Annelie Brauner"
                     /genotype="ST73"
     gene            1..477
                     /locus_tag="K6124_RS26545"
                     /old_locus_tag="K6124_26335"
     CDS             1..477
                     /locus_tag="K6124_RS26545"
                     /old_locus_tag="K6124_26335"
                     /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          complement(1349..1457)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.95e-50"
     Typing          complement(710..967)
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.0"
                     /coverage="99.0"
                     /evalue="3.93e-111"
ORIGIN
        1 atgtttattg attcagaaaa acgactgaaa caactttcag atgaggcaaa gaaaaacacc
       61 gaggatctcg aagaagcaaa gaagaattca aggtttacac aggtatcccc aaaaggttgg
      121 gaacgcgttc gagagctgct gaaggatagc caaggcatat cagcactgaa gctgtactca
      181 tttttagcgg agcatatcga tcctacgtgt ggcgctgtcg ttgcggatca gcaattccta
      241 gctgaaaaac ttggagttag cagaagcaca attattcggt ggctcaatta cttagaatca
      301 aaaaatgcat tagttagaat ccccgttgct ggtaaggttt gtgcgtatgc cctcgatcca
      361 catgaagtct ggaagggata caacactacg aaaaaccatg cagcgtttgt cactaaaaca
      421 ctggtcaaca aagacggtga tattcagcgc cgaatcatgg ccatgttttc aaattgagcc
      481 agcggcaggc ggacaatcag gggctacgtg ttaacgtttt gaccatgatt gtctatcctg
      541 cattgctctt ttgccgcctc aaaatccctt gcgtgttttt gctccccgat cccaagaacg
      601 accgcgtcgc cacggttccg gcagcgcctt gagcgcaacc ggaaaccgtc tggggagaac
      661 cccagacccc catcgctgta acaccgacgg tctacgacca ccaaccagcc gaatagctgc
      721 ctgtaccgtg caaataggct ttgcagggag ctgacgcggt tcctagcgac ctgaaagccc
      781 ctggttaggg gtatcggcgc gcctgacctc ctgagagcct ctgtaagcgt ttttcgcgcc
      841 ttccatgccc tggcgggcat ttaaacccgt ttcgtgcgtc tgagagcttc tgagcgtgtt
      901 tgaagggcta tctgacgact catccccgaa agaacaacaa cgggatcacc gacaacatgc
      961 gagaggtgat cccgctcgcc gcaagtcgat gaccgagcgt agcgagcgaa tcgacgagga
     1021 agcggaagag aaccggaagt tacattgagc acttacgcac ggatgcaggg tgtcggggtg
     1081 aagccctgac caggtgggga atgtctgagt gcgcgtgcgc ggtccgacat tcccacattt
     1141 ctgaggcgtt ttaacggtga acggacggca aaaacatgat cgagctgttg aacgtggaga
     1201 gcgcgaaatc gggcaaaatc atggctgacg aggcttgcag aggagtaagc cagtatacac
     1261 tccgctatcg ctacgtgact gggtcagggc ttcgccccga caccccaaaa gggcgttgcg
     1321 ttgcgcgcaa cacccttgcc tagaatagat cttttacgcc gatttgtaag ttgttgtttt
     1381 tttagtgtgt tttttgttta cctgtcgcat ccagggtgac acaacgttgt cgcatccagg
     1441 atgcgacaac acgcaacaag gtgttgcaca gatgtgtcat gatggcttag atttgaacca
     1501 acgttagtgc atgggatttt cagagggaaa aaatc
//
