LOCUS       NZ_CP103520             1551 bp    DNA     circular CON 21-SEP-2023
DEFINITION  Escherichia coli strain 5444 plasmid pMB9292_5, complete sequence.
ACCESSION   NZ_CP103520
VERSION     NZ_CP103520.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN28174095
            Assembly: GCF_024917955.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1551)
  AUTHORS   Shropshire,W.C., Konovalova,A., McDaneld,P.M., Gohel,M., Strope,B.,
            Sahasrabhojane,P., Tran,C.N., Greenberg,D.E., Kim,J., Zhan,X.,
            Aitken,S.L., Bhatti,M., Tor,S., Treangen,T., Hanson,B.M., Arias,C.A.
            and Shelburne,S.A.
  TITLE     Systematic Analysis of Mobile Genetic Elements Mediating
            Beta-lactamase Gene Amplification in Non-Carbapenemase-Producing
            Carbapenem Resistant Enterobacterales Bloodstream Infections
  JOURNAL   mSystems (2022) In press
REFERENCE   2  (bases 1 to 1551)
  AUTHORS   Shropshire,W.C.
  TITLE     Direct Submission
  JOURNAL   Submitted (19-AUG-2022) Infectious Diseases and Infection Control,
            University of Texas MD Anderson Cancer Center, South Campus Research
            Building 4, Houston, TX 77054, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Flye v. 2.8.3-b1695
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 209x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/21/2023 03:21:31
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,978
            CDSs (total)                      :: 4,858
            Genes (coding)                    :: 4,580
            CDSs (with protein)               :: 4,580
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 278
            CDSs (without protein)            :: 278
            Pseudo Genes (ambiguous residues) :: 0 of 278
            Pseudo Genes (frameshifted)       :: 87 of 278
            Pseudo Genes (incomplete)         :: 191 of 278
            Pseudo Genes (internal stop)      :: 58 of 278
            Pseudo Genes (multiple problems)  :: 53 of 278
            Pseudo Genes (short protein)      :: 3 of 278
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP103520.1.
            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..1551
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="5444"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMB9292_5"
                     /geo_loc_name="USA: Houston"
                     /lat_lon="29.7068 N 95.3971 W"
                     /collection_date="2019-11-07"
                     /collected_by="MDACC"
                     /genotype="ST44"
     gene            complement(449..925)
                     /locus_tag="M5S96_RS24745"
                     /old_locus_tag="M5S96_24745"
     CDS             complement(449..925)
                     /locus_tag="M5S96_RS24745"
                     /old_locus_tag="M5S96_24745"
                     /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          1005..1113
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.091"
                     /coverage="100.0"
                     /evalue="9.09e-49"
     Typing          complement(1323..1408)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.552"
                     /coverage="95.0"
                     /evalue="9.38e-33"
     Typing          2..209
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.823"
                     /coverage="97.0"
                     /evalue="5.3e-80"
ORIGIN
        1 atgagtcgcc agatagcccc tcaaacgcgc tcacaagctc tcagacgcac gaaacgggtt
       61 ttagatgccc gccagggcat ggaaggcgcg aaaaacgctt acagagggtt tcaggaggtc
      121 aggcgcgccg atacccctaa ccaggggctt tcaggtcgcc aggaaccgcg ccagccccct
      181 gcaaagccca ttagcacgga acaggtagcc acacggttgg taggtggtcg tagaccgtcg
      241 gtgttacagc gatgggggtc tggggttctc cccagacggt ttccggtagc gctcaaggcg
      301 ctgccggaac cgtggcggct cggttttttc tggagaacgg ggagcaaaaa cacgcaaagg
      361 attttgaggc ggcaaaagag caatgcagga tagacaatca tggtcagaac gttaacacgt
      421 agcccctgat tgtccgcctg ccgctagctc aatttgaaaa catggccatg attcggcgct
      481 gaatatcacc gtctttgttg accagtgttt tagtgacaaa cgctgcatgg tttttcgtag
      541 tgttgtatcc cttccagact tcatgtggat cgagggcata cgcacaaacc ttaccagcaa
      601 cggggattct aactaatgca ttttttgatt ctaagtaatt gagccaacga ataattgtgc
      661 ttctgctaac tccaagtttt tcagctagga attgctgatc cgcaacgaca gcgccacacg
      721 taggatcgat atgctccgct aaaaatgagt acagcttcag tgctgatatg ccttggctat
      781 ccttcagcag ctctcgaacg cgttcccaac cttttgggga tacctgtgta aaccttgaat
      841 ttttctttgc ttcttcgaga tcctcggtgt ttttctttgc ctcatctgaa agttgtttca
      901 gtcgtttttc tgaatcaata aacatgattt tttccctctg aaaatcccat gcactaacgt
      961 tggttcaaat ttaagccatc atgacacaac cgtgcaacac cttgttgcgt gttgtcgcat
     1021 ccaggatgcg acaacgttgt gtcaccctgg atgcgacagg taaataaaaa acacactaaa
     1081 aaaacaacaa cttacaaatc ggcgtaaaag atctattcta ggcaagggtg ttgcgtgaaa
     1141 cgcaacgccc tttgggggtg tcggggcgaa gccctgaccc agtcacgtag cgctagcgga
     1201 gtgtatactg gcttactcct ctgcaagcct cgtcagccgt gatttttgtc cgatttcgcg
     1261 ctctccacgt tcaacagctc catcatgttt ttgccgtccg ttcaccgtta aaacgcctca
     1321 gaaatcggga caggatgtgt aattgtaata ccgtcacacg cgacgctatc acaattgcca
     1381 tctggtcagg gcttcgcccc gacaccccgc atcagtgcgt acgtgctcaa tgtggtttcc
     1441 ggttctcttc cgcttcctcg tcgattcgct cgctacgctc ggtcatcgac ttgcggcgag
     1501 cgggatcacc tctcgcatgt tgtcggtgat cccgttgttg ttctttcggg g
//
