LOCUS       NZ_CP082066             1564 bp    DNA     circular CON 23-JUL-2023
DEFINITION  Escherichia coli strain MS20674 plasmid pMS20674D, complete
            sequence.
ACCESSION   NZ_CP082066
VERSION     NZ_CP082066.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN20934299
            Assembly: GCF_030515255.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1564)
  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  JOURNAL   Unpublished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 1564)
  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                   :: 171x
            Sequencing Technology             :: Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/21/2023 17:16:42
            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)                     :: 5,017
            CDSs (total)                      :: 4,899
            Genes (coding)                    :: 4,679
            CDSs (with protein)               :: 4,679
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 220
            CDSs (without protein)            :: 220
            Pseudo Genes (ambiguous residues) :: 0 of 220
            Pseudo Genes (frameshifted)       :: 84 of 220
            Pseudo Genes (incomplete)         :: 151 of 220
            Pseudo Genes (internal stop)      :: 38 of 220
            Pseudo Genes (multiple problems)  :: 49 of 220
            Pseudo Genes (short protein)      :: 4 of 220
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP082066.1.
            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..1564
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="MS20674"
                     /isolation_source="CSF"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMS20674D"
                     /geo_loc_name="Australia"
                     /collection_date="2019"
                     /collected_by="Adam Irwin"
                     /genotype="ST1193"
     gene            complement(384..860)
                     /locus_tag="K6130_RS25085"
                     /old_locus_tag="K6130_24885"
     CDS             complement(384..860)
                     /locus_tag="K6130_RS25085"
                     /old_locus_tag="K6130_24885"
                     /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          952..1060
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.95e-50"
     Typing          complement(1263..1355)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="90.426"
                     /coverage="100.0"
                     /evalue="4.39e-26"
     Typing          2..154
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.156"
                     /coverage="95.0"
                     /evalue="1.9600000000000002e-59"
     Typing          1458..1550
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.809"
                     /coverage="95.0"
                     /evalue="4.37e-36"
ORIGIN
        1 atgcccgtca gggcatggaa ggcgcgaaaa acgcttacag agcgtttcag gaggtcaggc
       61 gcgccgatac ccctagccag gggctttcag gtcgccagga accgcgccag ccccctgcaa
      121 agcccatttg cacggtacag gcagtcactc ggttggtagg tggtcgtaga ccgtcggtgt
      181 tacagcgatg ggggtctggg gttctcccca gacggtttcc ggttgcgctc aaggcgctgc
      241 cggaaccgtg gcggctcggt cgttctggag atcggggagc aaaaacacgc aagggatttt
      301 gaggcggcaa aagagcaatg caggatagac aatcatggtc agaacgttaa cacgtagccc
      361 ctgattgtcc gcctgccgct ggctcaattt gaaaacatgg ccatgattcg gcgctgaata
      421 tcaccgtctt tgttgaccag tgttttagtg acaaatgctg catggttttt cgtagtgttg
      481 tatcccttcc agacttcatg tggatcgagg gcatacgcac aaaccttacc agcaacgggg
      541 attctaacta atgcattttt tgattctaag taattgagcc aacgaataat tgtgcttctg
      601 ctaactccaa gtttttcagc taggaattgc tgatccgcaa cgacagcgcc acacgtagga
      661 tcgatatgct ccgctaaaaa tgagtacagc ttcagtgctg atatgccttg gctatccttc
      721 agcagctctc gaacgcgttc ccaacctttt ggggatacct gtgtaaacct tgaattcttc
      781 tttgcttctt cgagatcctc ggtgtttttc tttgcctcat ctgaaagttg tttcagtcgt
      841 ttttctgaat caataaacat gattttttcc ctctaaaaat cccatgcact aacgttggtt
      901 caaacgttgg ttcaaatcta agccatcatg acacatctgt gcaacacctt gttgcgtgtt
      961 gtcgcatcca ggatgcgaca acgttgtgtc accctggatg cgacaggtaa acaaaaaaca
     1021 cactaaaaaa acaacaactt acaaatcggc gtaaaagatc tattctaggc aagggtgttg
     1081 cgcgcaacgc aacgcccttt gggggtgtcg gggcgaagcc ctgacccagt cacgtagcga
     1141 tagcggagtg tatactggct tactcctctg caagcctcgc cagccgtgat ttttgccaga
     1201 tttcgtggtt ttcacgttca acagctcctg cacgtttttt gccgtccgtt caccgttaac
     1261 ccccgcagaa atcgggacag gatgtgcaaa tgtaataccg tcacccgcga cgatattccg
     1321 tttgccatct ggtcagggct tcgccccgac accccgtatc agtgcgtacg tgctcaatgt
     1381 ggtttccggt tctcttccgc ttcctcgccc actcgctcac taacgttcgg tcgctggggc
     1441 tgcggcgagc ggtgccacct ctcgcatgtt gtcggtgatt ccgctgttgt tctttcgggg
     1501 atgagtcgtc agatagccct tcaaacgcgc tcagaagctc tcagacgcac gaggcggggt
     1561 ttaa
//
