LOCUS       NZ_CP103632             1601 bp    DNA     circular CON 21-SEP-2023
DEFINITION  Escherichia coli strain 4012 plasmid pMB6206_6, complete sequence.
ACCESSION   NZ_CP103632
VERSION     NZ_CP103632.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN28174046
            Assembly: GCF_024918275.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1601)
  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 1601)
  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                   :: 273x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/21/2023 03:21:21
            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)                     :: 5,007
            CDSs (total)                      :: 4,882
            Genes (coding)                    :: 4,698
            CDSs (with protein)               :: 4,698
            Genes (RNA)                       :: 125
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 184
            CDSs (without protein)            :: 184
            Pseudo Genes (ambiguous residues) :: 0 of 184
            Pseudo Genes (frameshifted)       :: 67 of 184
            Pseudo Genes (incomplete)         :: 116 of 184
            Pseudo Genes (internal stop)      :: 32 of 184
            Pseudo Genes (multiple problems)  :: 33 of 184
            Pseudo Genes (short protein)      :: 4 of 184
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP103632.1.
            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..1601
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="4012"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMB6206_6"
                     /geo_loc_name="USA: Houston"
                     /lat_lon="29.7068 N 95.3971 W"
                     /collection_date="2018-08-21"
                     /collected_by="MDACC"
                     /genotype="ST90"
     gene            1..477
                     /locus_tag="M5S78_RS24910"
                     /old_locus_tag="M5S78_24910"
     CDS             1..477
                     /locus_tag="M5S78_RS24910"
                     /old_locus_tag="M5S78_24910"
                     /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(1415..1523)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.273"
                     /coverage="100.0"
                     /evalue="1.97e-45"
     Typing          complement(761..1017)
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.186"
                     /coverage="98.0"
                     /evalue="3.06e-107"
ORIGIN
        1 atgtttattg attcagaaaa acgactgaaa caactttcag atgaggcaaa gaaaaacacc
       61 gaggatctcg aagaagcaaa gaaaaattca aggtttacac aggtatcccc aaaaggttgg
      121 gaacgtgttc 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 aaattgagct
      481 agcggcaggc ggacaatcag gggctacgtg ttaacgttct gaccatgatt gtctatcctg
      541 cattgctctt ttgccgcatg tcagttcgat gcgatgcagg atagggcaaa cgccgcaaaa
      601 tgacgtcatt gacgtcattc gcaacctttg cccgataatc tccaaaacgt ctgagctgcc
      661 acggttccgg cagcgccttg agcgcaaccg gaaaccgtct ggggagaacc ccagaccccc
      721 atcgctgtaa catcgacggt ctacgaccac caaccagctg aatagctgcc agtgccgtgc
      781 aaatgggctt tgcagggggc tgacgcggtt cctggcgacc tgaaagcccc tggttagggg
      841 tatcggcgcg cctgacctcc tgaaaccctc tgtaagcgtt tttcgcgcct tccatgccct
      901 gacgggcatt taaaacccgt ttcgtgcgcc tgagagcttc tgagagcgtt tgaagagcta
      961 tctggcgact catccccgaa agaacaacag cggaatcacc gataacatgc gagaggtggc
     1021 accgctcgcc gcagccccag cgaccgaacg ttagtgagcg agtgggcgag gaagcggaag
     1081 agaaccggaa accacattga gcacgtacgc actgatgcgg ggtgtcgggg tgaagccctg
     1141 accagatggc aaacggaata tcgtcgcggg tgacggtatt acatttgcac atcctgtccc
     1201 gatttctgcg gagtttaacg gtgaacggac ggcaaaaaac gtgcaggagc tgttgaacgt
     1261 gaaaacctcg aaatctggca aaaatcacgg ctgacgaggc ttgcagagga ttaagccagt
     1321 atacactccg ctatcgctac gtgactgggt cagggcttcg ccccgacacc cccaaagggc
     1381 gttgcgttgc acgcaacacc cttgcctaga atagatcttt tacgccgatt tgtaagtggt
     1441 tgttttttta gtgtgttttt tatttacctg tcgcatcctg gatgacacaa cgttgtcgca
     1501 tccaggatgc gacaacacgc aacaaggtgt tgcacagatg tgtcatgatg gcttagattt
     1561 gaaccaacgt tagtgcatgg gattttcaga gggaaaaaat c
//
