LOCUS       NZ_CP103602             3133 bp    DNA     circular CON 20-SEP-2023
DEFINITION  Escherichia coli strain 4848 plasmid pMB7536_6, complete sequence.
ACCESSION   NZ_CP103602
VERSION     NZ_CP103602.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN28174075
            Assembly: GCF_024917355.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3133)
  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 3133)
  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                   :: 58x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/20/2023 05:49:14
            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)                     :: 4,926
            CDSs (total)                      :: 4,805
            Genes (coding)                    :: 4,551
            CDSs (with protein)               :: 4,551
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 254
            CDSs (without protein)            :: 254
            Pseudo Genes (ambiguous residues) :: 0 of 254
            Pseudo Genes (frameshifted)       :: 86 of 254
            Pseudo Genes (incomplete)         :: 167 of 254
            Pseudo Genes (internal stop)      :: 58 of 254
            Pseudo Genes (multiple problems)  :: 52 of 254
            Pseudo Genes (short protein)      :: 3 of 254
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP103602.1.
            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..3133
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="4848"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMB7536_6"
                     /geo_loc_name="USA: Houston"
                     /lat_lon="29.7068 N 95.3971 W"
                     /collection_date="2019-01-10"
                     /collected_by="MDACC"
                     /genotype="ST44"
     gene            complement(join(2943..3133,1..133))
                     /gene="mobA"
                     /locus_tag="M5T19_RS24480"
                     /old_locus_tag="M5T19_24480"
     CDS             complement(join(2943..3133,1..133))
                     /gene="mobA"
                     /locus_tag="M5T19_RS24480"
                     /old_locus_tag="M5T19_24480"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_000166966.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            418..612
                     /locus_tag="M5T19_RS24485"
                     /old_locus_tag="M5T19_24485"
     CDS             418..612
                     /locus_tag="M5T19_RS24485"
                     /old_locus_tag="M5T19_24485"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041623.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_025492124.1"
                     /translation="MNKQQQTALNMAKFIKSQSLTLLEKLDSLDADAQAAMCEKLHELA
                     EELQNSIQTRFESESGTGE"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1089..1202
                     /locus_tag="M5T19_RS24660"
     CDS             1089..1202
                     /locus_tag="M5T19_RS24660"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_071790583.1"
                     /translation="MHEPPVQSDYCALSGNYRLESNPERHDLSPLAAATGN"
                     /name="replication initiation protein"
     gene            1564..1707
                     /locus_tag="M5T19_RS24490"
                     /old_locus_tag="M5T19_24490"
     CDS             1564..1707
                     /locus_tag="M5T19_RS24490"
                     /old_locus_tag="M5T19_24490"
                     /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_152918943.1"
                     /translation="MNTKVLFVKKALKSITCAILSLLPALSRAVTELRSLSAARLKAGK
                     SF"
                     /name="hypothetical protein"
     gene            complement(1732..2484)
                     /locus_tag="M5T19_RS24495"
                     /old_locus_tag="M5T19_24495"
     CDS             complement(1732..2484)
                     /locus_tag="M5T19_RS24495"
                     /old_locus_tag="M5T19_24495"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001127762.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_016249639.1"
                     /translation="MDTTSLISSISVPRLSFYETFLGCATDQEKVGAYVAYQDLSGDFF
                     CLVQMIEVALRNAINNTIKANHGPAWYDSIPQTKKSQDLVLNAKQKALDECGVRYTDDD
                     VICRLTFGFWVYMLDAPYRDTQRPCYIWTPENKAKTFPHAKNPLGGGDMKVKALFDEFH
                     KVLLFRNRLFHHEPIWKKHHCKSHSQAINNMLKEFNFLMNALSIVSNEKKELIEFIGHD
                     RRFYERCTIEYVMGIIGRIKCRELKVAG"
                     /name="hypothetical protein"
     Typing          complement(143..380)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.75"
                     /coverage="99.0"
                     /evalue="1e-116"
     Typing          911..1360
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.494"
                     /coverage="90.0"
                     /evalue="1.02e-154"
     Typing          complement(3..133)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="99.0"
                     /evalue="3.59e-20"
     Typing          complement(2947..3131)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.387"
                     /coverage="99.0"
                     /evalue="7.02e-31"
ORIGIN
        1 cccgtaaaaa accggaaacg gtcttgccgc attcagcagc cctttttctg atttcctggt
       61 cttcttctgc cgtcagacga acagggcgac tgatagcccg cctgcgcgta ttacttccac
      121 ttcgttttgt cataaaacat ggctccgtat ctgacatggg gtgtcggggc gaagccctga
      181 ccagggtaat tgtaatagcg cgcatgtatg cgcggtataa caattacaca tcctgtcctg
      241 tcagcaagtt cgaattaccg acaaaggcac ggcagttttt tggcagtgac agtattgtca
      301 ggcagaaatg cccgtcaaag agtcagacga cagaataccg gcggcaaaac tgtcgaaaag
      361 tggtacgcga tataatcaca cgacgcagat gacagacaga acggagaaaa cagaaagatg
      421 aacaagcagc agcaaaccgc acttaacatg gcaaaattca taaaaagcca gagcctgacg
      481 ctgctcgaaa aactggactc actcgatgct gatgcacagg ccgccatgtg tgagaaactg
      541 cacgaactcg cagaagaact ccagaacagc atacagacac gctttgaatc ggaaagtggc
      601 accggggaat aacagtgttc ctacaccaga caggatgcag aacgatatac cggtgcgtaa
      661 ggagaaaata ccacataagg cgctcttccg cttcctcgct cactaactcg ctacgctcgg
      721 tcgttcggct gcggcgagcg gtatcagctc actcaaagac ggtaatgagg ttatccacag
      781 aatcagggga taacgccaaa agaaacatgt gagcaaaaaa caagaacccg aaaaaggccg
      841 cgccggtggc gtttttccat aggctccgcc cccctgacga gcatcacaaa aatcgacgct
      901 caagtcagag gtggcgaaac ccgacaggac tataaagata ccaggcgttt ccccctgatg
      961 gctccctcgt gcgctctcct gttcctgcct ttcggtttac cggtgtcatt ccgctgttat
     1021 ggccgcgtta tctcattcca cgcctgacac tcagttccgg gtaggcagtt cgctccaagc
     1081 tggactgtat gcacgaaccc cccgttcagt ccgactactg cgccttatcc ggtaactatc
     1141 gtcttgagtc caacccggaa aggcacgact tatcgccatt ggcagcagcc actggtaact
     1201 gatttagagg agttagtctt gaagttacgt gccagttaag gctaaactgg aagaacaagt
     1261 tttggtgact gcgctcctct taagccagtt accgaggttc agaaacttgc cggttgctga
     1321 accttcgaaa aaccaccttg ccgggtggtt ttttcgtttt taagattacg atgggcgcga
     1381 tatgaactca aggaaatccg caattaaatt ataaaagttt gtggattaat ggaaaaactg
     1441 atgtgaatca gctatttatc cttaagattt gatgtcagat atggtataat taaccattca
     1501 aatagatgga ataaaaagtc aacgctgcca ttagaacggc ataagaaata gaggattatg
     1561 aaaatgaata ctaaagttct ttttgtgaaa aaagccttga aatcaattac ttgcgcaatt
     1621 ctttcgctct taccggcttt aagtcgcgca gtaacagagt tacgtagcct ttcggctgcg
     1681 cgacttaaag ccggtaagag cttttgattg tatcacattt ttccttaaaa gtcaaccggc
     1741 taccttaagc tccctgcact taatcctccc tataatcccc ataacatact ctatcgtgca
     1801 gcgttcataa aagcgcctat cgtgcccaat aaactcaata agttcctttt tctcgttaga
     1861 gacgatactc aaggcattca ttaaaaaatt gaactctttc aacatattat ttatggcttg
     1921 actatgcgac ttgcagtggt gttttttcca aataggctca tggtgaaaaa gtcgattcct
     1981 aaacaaaaga actttatgaa actcgtcaaa caacgcttta accttcatat cccccccacc
     2041 caaaggattc ttcgcatgag gaaatgtttt tgccttgttc tctggagtcc agatgtagca
     2101 cggcctttgc gtatccctat atggggcatc taacatataa acccaaaagc caaaggttag
     2161 acggcaaata acatcatcat ccgtatacct tacgccacac tcatctagcg ctttttgttt
     2221 cgcatttaaa acaagatcct gagatttctt tgtttgaggt atagagtcgt accaagcagg
     2281 cccatgatta gctttgattg tattgtttat cgcattacgc agagcaacct caatcatctg
     2341 gacaagacaa aaaaaatcgc cagacagatc ttggtaggca acgtatgccc caaccttttc
     2401 ttgatcagta gcgcacccaa gaaatgtttc atagaaagat aatcttggta cagaaattga
     2461 gctaattaaa cttgttgtat ccatgaaaac tcacttatct ctttactatg aatatttttc
     2521 agactaccat tacaacattc gaggagcagg cgaactaccg tttttctgtg tacctctaga
     2581 gcgtaaaata taacaaaaaa gcccactaca gagtgggctt ttttgttata tttatctata
     2641 tgaaacaacc agttatagtt attgtttcat aataagaatt gaatactctt cacaatccac
     2701 aacatcagaa aatactttgc tgccaattta ccataactcc ccttacgcgc accgctaaaa
     2761 cgcgctgaac gcgattctgc cgcaaacacc gcaaaaagag atgttttacc cagtgaaaac
     2821 cggaaaaatg cgtcaggacc gttttcagct cactgcatag ctatgcatga aagtgaatgg
     2881 cgatcggttt ggggccttac ggcgttcata ccgtctgttt tcgacagttt ctctccggga
     2941 agctaatctg ccataagcct ggataacagg gcccggtgat actccgtaat agcgatcagc
     3001 acctccgcat actctctgtc cccgacacgc ttgccgtcga taaagagttt tttctgtaac
     3061 gcccccagtc tcataacttc tttcagtacc cgatcatcag tcagtgagtt aactttctta
     3121 ccgagagctg ccg
//
