LOCUS       NZ_CP103574             3360 bp    DNA     circular CON 20-SEP-2023
DEFINITION  Escherichia coli strain 3045 plasmid pMB8093_4, complete sequence.
ACCESSION   NZ_CP103574
VERSION     NZ_CP103574.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN28174015
            Assembly: GCF_024917235.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3360)
  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 3360)
  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                   :: 289x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/20/2023 06:04:41
            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)                     :: 4,933
            CDSs (total)                      :: 4,814
            Genes (coding)                    :: 4,559
            CDSs (with protein)               :: 4,559
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 255
            CDSs (without protein)            :: 255
            Pseudo Genes (ambiguous residues) :: 0 of 255
            Pseudo Genes (frameshifted)       :: 80 of 255
            Pseudo Genes (incomplete)         :: 174 of 255
            Pseudo Genes (internal stop)      :: 52 of 255
            Pseudo Genes (multiple problems)  :: 48 of 255
            Pseudo Genes (short protein)      :: 3 of 255
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP103574.1.
            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..3360
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="3045"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMB8093_4"
                     /geo_loc_name="USA: Houston"
                     /lat_lon="29.7068 N 95.3971 W"
                     /collection_date="2019-04-25"
                     /collected_by="MDACC"
                     /genotype="ST44"
     gene            1..531
                     /locus_tag="M5S79_RS24500"
                     /old_locus_tag="M5S79_24500"
     CDS             1..531
                     /locus_tag="M5S79_RS24500"
                     /old_locus_tag="M5S79_24500"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000168766.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="putative porin"
                     /protein_id="WP_259381829.1"
                     /translation="MASTEEKLLTLLLSAEHLKEAAKEQQKAVADSLAVARETLKGYRE
                     ISDSVAQQVRDEVRQEVKKMDVAGLIGERISADFQRLEKSVGNMKINADALDKEISIIR
                     SNIIAEYNTLRGYSWKWFAGVAVAFVVLIFATSWFVKTELQDNYNASAAVYQKVADLEK
                     LLTTEQKPEKKKN"
                     /name="putative porin"
     gene            1326..1493
                     /locus_tag="M5S79_RS24505"
                     /old_locus_tag="M5S79_24505"
     CDS             1326..1493
                     /locus_tag="M5S79_RS24505"
                     /old_locus_tag="M5S79_24505"
                     /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_180937395.1"
                     /translation="MPPWWVHQKTGSEATSIRPFVCCFDFVGVAPDLGNHASPQPLPSL
                     SLYQVRYWLT"
                     /name="hypothetical protein"
     gene            complement(1870..2256)
                     /locus_tag="M5S79_RS24510"
                     /old_locus_tag="M5S79_24510"
     CDS             complement(1870..2256)
                     /locus_tag="M5S79_RS24510"
                     /old_locus_tag="M5S79_24510"
                     /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_045282373.1"
                     /translation="MRISNVEWLKKRIAFIRKLGEKTARQRQIIDLLDDEASLSETERR
                     LLHVLATAEKNALQERDAAQKKAVQARISGQKNRRERNHRLFLAAGLMIDAGLVDTKTG
                     ELNFDHEKLLTALKRVRYDLETSA"
                     /name="hypothetical protein"
     gene            2423..3358
                     /locus_tag="M5S79_RS24515"
                     /old_locus_tag="M5S79_24515"
     CDS             2423..3358
                     /locus_tag="M5S79_RS24515"
                     /old_locus_tag="M5S79_24515"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016235474.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_045626452.1"
                     /translation="MATYHLSVKFGGKGKALAHASYITREDKFSQRQDLEHTEHGNMPE
                     WARDEPAHFWQAADAFERANGSTYREIEIALPRELNEAQRLALVRDFVKQETGDKHAWT
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERSPEQYFRRYNAKFPARGGARKDSGHNL
                     TPTEQKQALKALRERWERTHNAHMKRYGFEQGFIDSRSLKTQGIDRKPEQHLGFEAAGR
                     LDDSQRQDIKDSRTFSVVDVPEQAKHIDHSDRSWMNASGIEVNRKELVRSLTHDISQQY
                     GREMAARVTKQGNVEIERVKSLSRGFSISR"
                     /name="MobA/MobL family protein"
     Typing          2424..3355
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.177"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atggcgagca ccgaagaaaa acttctcaca ctcctgctgt cggcggagca tctgaaagag
       61 gccgcaaaag agcagcagaa agccgtggcg gattcgctgg cggtggcaag ggaaaccctg
      121 aaaggctacc gggaaatatc ggacagtgtg gcacagcagg taagggatga agtccggcag
      181 gaagtgaaga aaatggatgt tgcggggctg attggcgagc gtatcagcgc tgattttcag
      241 cgtctggaaa aatccgtcgg gaacatgaaa atcaatgcgg acgcgctgga caaggaaatt
      301 tccattatcc gcagtaacat catcgcggag tacaacacgc tgcggggtta cagctggaag
      361 tggtttgctg gggttgcggt tgcctttgtc gtactgatat ttgccacaag ctggtttgtg
      421 aaaacggaac tacaggacaa ttacaacgcg tctgctgccg tctatcagaa agtggcagac
      481 cttgaaaagc tgctgacaac ggaacagaaa ccggaaaaga aaaagaactg acgcgctgcg
      541 cttgtccaac gcctcacgtt cgcacaataa attgcgcacc cgttcaccgt tttcagccga
      601 gtttggggcg tcttttgaga cttccggcct gaattcaggc cggaagttct cgccagtcag
      661 tcaggtgcat ggttatgcat ggggctgaaa atcacggtat gcgattctga gcggttttcg
      721 gtgagaagcc gggggttttt atggctcagg acttaaaacc gccctgagag cctctgaggc
      781 ggtgcacgca acggatgtta tggtaaatcc ggtggctttg acgtgcctgc cgttgtgtac
      841 cgtcgtgagt gaaaataatt atattgttcg aagaacagcg ctttttggcc ggagaaaagc
      901 agttctgcaa acgatggtat atcgatatga gttcttttgg cattaatcca ggcaagacgc
      961 cgggcaataa gcgtaatatt ccggatgtta cttatttcca tttctgtcaa cagcatcccc
     1021 ccccacgccg gagaataaaa aagccgcctg ttccatcggc aagccctaca tcaagggaaa
     1081 ctacgtctta cgattcgttt tgaaccggga cgctttgttg ctgcgaatca ctaaccagat
     1141 aatccacgtt ttgtgagtgg gtttaggtta aggcttcaat agaacaataa tagcgttaag
     1201 tgattagggc aacctgtgat tgctaaaatg atgaagtctt cacatcattt cggtgaaggc
     1261 gatatgtgtt acaccacaac ccggatttga gagtcgcaaa cccatattag ggcaaagaaa
     1321 gcctaatgcc cccgtggtgg gtacaccaga aaacggggag cgaagcgacc agcatcaggc
     1381 cgttcgtatg ctgcttcgat tttgtgggtg ttgcgccaga ccttggcaat cacgcttcac
     1441 cgcaaccgct gccttcactc tcactttatc aggtacgtta ttggttaacg tgagaccggg
     1501 tagagccagc ttctttcccg agctggtcag gttcccaccg cttgcctgtt tatcctgccg
     1561 gagtccgggg cgtagacctg agagtcaagg tgcagatatg ggtttaatgt cgttgaatgg
     1621 tattaagctg gtagtgacat tcctagccag ccctgctagg atttgattgt gacgtctgat
     1681 cctggcaggt atctgcaaga attagagtac tcaagccccg tgattctgtc acggggcttt
     1741 tgtacatctg gagcaagaaa attcatgctc ctatccgaaa atccctaccg ctcgccgcag
     1801 ccgaacgacc gagcgacgcg agtcagtgag cgaggaagcg gcatttctcc ggccttgcag
     1861 aatgcacgtt cacgccgatg tttccagatc gtagcgtacc cgtttcagcg cagtcagtaa
     1921 tttttcgtgg tcaaaattca actcacccgt ttttgtatca accagtcccg cgtcaatcat
     1981 cagaccagcc gccagaaaca gtctgtgatt gcgttccctg cggtttttct gccctgaaat
     2041 ccgcgcctga accgcctttt tctgtgcggc atcccgttcc tgcaacgcgt ttttttcagc
     2101 ggttgccaga acgtggagca gtcgtctttc agtctcactg agcgaagctt catcatccag
     2161 cagatcgata atctgccgtt gccgtgccgt tttttctccc agctttctga tgaaggctat
     2221 gcgcttttta agccattcga cgttactgat ccgcatcgtt taacttcccc atcccgatat
     2281 ttccgacggg gaaagtatat aacttgcggt cagaagtcgc atgacttatc tttactcata
     2341 attctttaaa ttagagtaaa gcgcacttat atgtttctcc ctgcgggcag aaacagtgcg
     2401 ccctgccggg ggctgacaca acatggcaac gtatcatctc agcgtgaaat ttggcggcaa
     2461 gggtaaagcc cttgctcatg ccagttacat tacgcgggaa gataagttca gccagcgcca
     2521 ggatctcgag cacaccgaac acggcaatat gccggaatgg gcgagagatg aacccgccca
     2581 tttctggcag gctgcggatg cgttcgaacg tgccaacggt tcaacgtaca gggaaattga
     2641 gatcgctcta ccccgcgagc tgaatgaagc gcagcggctg gcgcttgtcc gggattttgt
     2701 gaagcaggaa acgggcgaca aacatgcatg gacgtttgcg atccacaatc cgaaagccag
     2761 cattgacggc ggcgaacagc cgcacgccca tatcatgatg agccagcgcg tcaatgacgg
     2821 tattgagcgc agtcccgaac agtatttcag gcgctataac gccaaatttc cggcgcgtgg
     2881 cggcgcgcgc aaggactcag ggcataattt aacccctaca gaacaaaaac aggcactgaa
     2941 agccctgcgg gagcgctggg agcgtacgca caacgcgcat atgaaacgat atggctttga
     3001 gcagggtttt attgatagcc ggtcactgaa aacacagggt atcgaccgga aaccggaaca
     3061 gcatctcggt tttgaagcag ccggacgact ggacgacagc cagaggcagg atattaaaga
     3121 cagccggacg ttttcagtcg tggatgtgcc tgaacaggcg aaacatatcg accacagcga
     3181 ccgtagctgg atgaatgcca gcggtatcga ggtaaaccgg aaggaactgg tcagatctct
     3241 gacgcatgat atctcgcagc agtacgggcg ggagatggct gcacgggtca caaaacaggg
     3301 aaatgttgaa atagagcgcg tgaaatccct gtcacgcgga ttttccataa gcaggtaact
//
