LOCUS       NZ_CP103767             1551 bp    DNA     circular CON 20-SEP-2023
DEFINITION  Escherichia coli strain 5283 plasmid pMB9880_5, complete sequence.
ACCESSION   NZ_CP103767
VERSION     NZ_CP103767.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN28174091
            Assembly: GCF_024917655.1
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                   :: 242x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/20/2023 06:28:20
            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)                     :: 5,319
            CDSs (total)                      :: 5,193
            Genes (coding)                    :: 4,974
            CDSs (with protein)               :: 4,974
            Genes (RNA)                       :: 126
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 219
            CDSs (without protein)            :: 219
            Pseudo Genes (ambiguous residues) :: 0 of 219
            Pseudo Genes (frameshifted)       :: 66 of 219
            Pseudo Genes (incomplete)         :: 160 of 219
            Pseudo Genes (internal stop)      :: 37 of 219
            Pseudo Genes (multiple problems)  :: 42 of 219
            Pseudo Genes (short protein)      :: 4 of 219
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP103767.1.
            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="5283"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMB9880_5"
                     /geo_loc_name="USA: Houston"
                     /lat_lon="29.7068 N 95.3971 W"
                     /collection_date="2020-02-08"
                     /collected_by="MDACC"
                     /genotype="ST405"
     gene            join(1457..1551,1..127)
                     /locus_tag="M5T11_RS26490"
                     /old_locus_tag="M5T11_26490"
     CDS             join(1457..1551,1..127)
                     /locus_tag="M5T11_RS26490"
                     /old_locus_tag="M5T11_26490"
                     /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_152921959.1"
                     /translation="MCKCNTVTRDDIPFAIWSGLRPDTPHQCVRAQCGFRFSSASSPTR
                     SLRSVAGAAASGITSRMLSVIPVLFFWG"
                     /name="hypothetical protein"
     gene            complement(572..1048)
                     /locus_tag="M5T11_RS26495"
                     /old_locus_tag="M5T11_26495"
     CDS             complement(572..1048)
                     /locus_tag="M5T11_RS26495"
                     /old_locus_tag="M5T11_26495"
                     /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          1128..1236
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.364"
                     /coverage="100.0"
                     /evalue="9.16e-44"
     Typing          complement(1439..1530)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="91.398"
                     /coverage="100.0"
                     /evalue="3.4000000000000004e-27"
     Typing          81..341
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.985"
                     /coverage="100.0"
                     /evalue="1.85e-99"
ORIGIN
        1 atgtggtttc cggttctctt ccgcttcctc gcccactcgc tcactacgtt cggtcgctgg
       61 ggctgcggcg agcgggatca cctctcgcat gttgtcggtg atcccggtgt tgttcttttg
      121 gggatgagtc gccagatagc ccctcaaacg cgctcaaaag ctctcagacg cacgaaacgg
      181 gttttagatg cccgccaggg catggaaggc gcgaaaaacg cttacagagg ctctcaggag
      241 gtcaagcgcg ccgatacccc taaccagggg ctttcaggtc gccaggaacc gcgccagccc
      301 cctgcaaagc ccatttgcac ggaacaggca gccatgcggt tggtaggtgg tcgtagaccg
      361 tcggtgttgc agcgatgggg gtctggggtt ctccccagac ggtttccggt agcgctcaag
      421 gcgctgccgg aaccgtggcg gctcggtttt ttctggagaa cggggagcaa aaacacgcaa
      481 aggattttga ggcggcaaaa gagcaatgca ggatagacaa tcatggtcag aacgttaaca
      541 cgtagcccct gattgtccgc ctgccgctag ctcaatttga aaacatggcc atgattcggc
      601 gctgaatatc accgtctttg ttgaccagtg ttttagtgac aaacgctgca tggtttttcg
      661 tagtgttgta tcccttccag acttcatgtg gatcgagggc atacgcacaa accttaccag
      721 caacggggat tctaactaat gcattttttg attctaagta attgagccac cgaataattg
      781 tgcttctgct aactccaagt ttttcagcta ggaattgctg atccgcaacg acagcgccac
      841 acgtaggatc gatatgctcc gctaaaaatg agtacagctt cagtgctgat atgccttggc
      901 tatccttcag cagctctcga acacgttccc aaccttttgg ggatacctgt gtaaaccttg
      961 aatttttctt tgcttcttcg agatcctcgg tgtttttctt tgcctcatct gaaagttgtt
     1021 tcagtcgttt ttctgaatca ataaacatga ttttttccct ctgaaaatcc catgcactaa
     1081 cgttggttca aatctaagcc atcatgacac atctgtgcaa caccttgttg cgtgttgtcg
     1141 catcctggat gcgacaacgt tgtgtcatcc tggatgcgac aggtaaataa aaaacacact
     1201 aaaaaaacaa gcacttacaa atcggcgtaa aagatctatt ctaggcaagg gtgttgcgtg
     1261 caacgcaacg ccctttgggg gtgtcggggc gaagccctga cccagtcacg tagcgatagc
     1321 ggagtgtata ctggcttact cctctgcaag cctcgtcagc cgtgattttg cacgatttcg
     1381 cgctctccac gttcaacagc tcgatcatgt ttttgccttc cgttcaccgc taaaacgccc
     1441 caaaaatcgg gacaggatgt gcaaatgtaa taccgtcacc cgcgacgata ttccgtttgc
     1501 catctggtca gggcttcgcc ccgacacccc gcatcagtgc gtacgtgctc a
//
