LOCUS       NZ_CP103547             4110 bp    DNA     circular CON 21-SEP-2023
DEFINITION  Escherichia coli strain 3036 plasmid pMB9029_3, complete sequence.
ACCESSION   NZ_CP103547
VERSION     NZ_CP103547.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN28174012
            Assembly: GCF_024918035.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4110)
  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 4110)
  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                   :: 254x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/21/2023 03:34:23
            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)                     :: 4,884
            CDSs (total)                      :: 4,766
            Genes (coding)                    :: 4,549
            CDSs (with protein)               :: 4,549
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 217
            CDSs (without protein)            :: 217
            Pseudo Genes (ambiguous residues) :: 0 of 217
            Pseudo Genes (frameshifted)       :: 88 of 217
            Pseudo Genes (incomplete)         :: 141 of 217
            Pseudo Genes (internal stop)      :: 53 of 217
            Pseudo Genes (multiple problems)  :: 59 of 217
            Pseudo Genes (short protein)      :: 3 of 217
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP103547.1.
            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..4110
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="3036"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMB9029_3"
                     /geo_loc_name="USA: Houston"
                     /lat_lon="29.7068 N 95.3971 W"
                     /collection_date="2019-09-20"
                     /collected_by="MDACC"
                     /genotype="ST155"
     gene            106..2265
                     /gene="mobQ"
                     /locus_tag="M5S54_RS24300"
                     /old_locus_tag="M5S54_24300"
     CDS             106..2265
                     /gene="mobQ"
                     /locus_tag="M5S54_RS24300"
                     /old_locus_tag="M5S54_24300"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /protein_id="WP_052940773.1"
                     /translation="MAIYHLSMKIISRSNGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILSPATAPAWCTNRTELWNAVEKAERRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLSLEIQIFRTELRNSGLTEPARRVADLLNIELPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMTDMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTEFETQWQQWGASGLAALRAQL
                     LKREEELRRKELEDTERSRAERRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMT
                     SYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQHTRNLRQPKTWPEFFCLGEDRQPAMPSLAARKVDFTQGRLPPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNRHLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHATERRHDRGWSQ"
                     /name="mobQ"
     gene            complement(2515..3216)
                     /locus_tag="M5S54_RS24305"
                     /old_locus_tag="M5S54_24305"
     CDS             complement(2515..3216)
                     /locus_tag="M5S54_RS24305"
                     /old_locus_tag="M5S54_24305"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /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_000227989.1"
                     /translation="MVDLIAYKSNALVEASYKLTLQEQRFLLLCISRLQSGVDAPPPEL
                     QKTMTITAVEFFNSFPDMGRNHAEEKLQEAIDRLWDRSIILKDGEKREEFRWIQYRAQY
                     LKGEAKVQITFADAVMPYLTQLKGQFTKVVIKNISNLSKSYSIRIYEILQQFRNTGERM
                     ISLDDFRSMLQLEDKYKDFKTLNRALIKPAVAELNQKSDLAVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(3748..4038)
                     /locus_tag="M5S54_RS24310"
                     /old_locus_tag="M5S54_24310"
     CDS             complement(3748..4038)
                     /locus_tag="M5S54_RS24310"
                     /old_locus_tag="M5S54_24310"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001514113.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000091756.1"
                     /translation="MSRTLEQKIAEAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVSRIQPLIDELNALPKPVPKGVSKNGQQA"
                     /name="hypothetical protein"
     Typing          complement(10..105)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="95.876"
                     /coverage="95.0"
                     /evalue="2.8e-36"
     Typing          106..464
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.222"
                     /coverage="100.0"
                     /evalue="3.97e-172"
     Typing          20..2262
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.791"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atgcgcagaa atcacgaagt gcgcacttat acaatctcac cttcggttcg attgtgtgcg
       61 ccctgcgggg ctgaaagaaa actgcaaaaa ggcattacgg cagaaatggc gatttatcat
      121 ctcagcatga aaatcatctc cagaagcaac ggctacagcg ccgttgcttc tgctgcctat
      181 cgttccggtt cactaatgct tgatgagcgt accggactga ctcacgacta cacccgcaaa
      241 agcggtgtgg ctgaggctgt gattctgtcc cccgccaccg cccctgcctg gtgtacgaac
      301 cgtaccgaac tctggaatgc cgttgagaag gccgaacgtc ggaagaactc acaacttgcg
      361 cgggaaattg aactcgccat cccccgtgaa ctgccgcagg atgccgcacg ggaaaccgtt
      421 ctcgcctttg tcagagaaaa ctttgtcagt cagggcatga ttgctgatgt ggcgttccat
      481 cacatggata aaacaaatcc ccatgcgcac atcatgctga ccacgagggc tgtcggacct
      541 gcggggttcg gtggaaaggt cagggactgg aacgaccgga cacatgccga gacgtggcgg
      601 gcatcatggg ctgaccatgc aaacagggca ctggcgaacg ccggttatca ggaagagata
      661 gaccatcgtt catacgagcg acaggggctt gagaaaacgc ctggtattca cctcggaaag
      721 tctgcctgtg cgatggaaac acgcggtatc gaaacagaac gcggcgaaca gaatcgtctg
      781 attaacaggc ttagcctgga aatacagatt ttccgtaccg aactcaggaa cagcgggctg
      841 acagagcctg cccgccgtgt ggctgacctt ctgaatattg agcttcctga caacgcaact
      901 tcgtacacac tacgtgacat catcgaagcg ttgccgaagg acagtaacgc ggcatggaaa
      961 ctcaccagta atgccatgtc gatgatgaca gatatgcagg cgacgcgcag acgctgggaa
     1021 gagctgaaca ccgaacgaaa ggaagcgatg agccatgctg ccagcctgaa aaaatcatcg
     1081 ccgttttcgt ccggtttttc ccgtattccc ctgatgcaat gggctgcacc ggaataccgt
     1141 agtgagcagg gaaaaattca gtctctgagc cagcaaatgg aaaaattgcg acagcattac
     1201 cggaaggtgg agaaacagga cattcccgcg agtcagacgg aatttgaaac acagtggcag
     1261 cagtgggggg catccggcct tgcagctctc agagcccagt tgcttaaacg tgaagaggaa
     1321 ttgcgccgga aggagctgga ggatacagaa cgtagtcgcg cggagcgacg agcggagcag
     1381 ctcaggaaaa atgacaatgc cgttatggat tcaggggtac tgagagcagt cgttacgggg
     1441 tatggcgagg cccccatgcc tggtaacggg gaaatgacca gttaccttct gcttcacaac
     1501 cggaacggag aatatacgct ctgggggaac gagctggaga aataccgcac cagaatcttt
     1561 gagcgtgttg atttaatgcg tgacaggagt ggttatatct gtgaccgaag cgaaatcggt
     1621 caacatccac cattgcaacg tgtttattcc tctgcgacct ttgagcaact gctgacgcag
     1681 gtttgccaga catggccaca acatacccgc aatctccgcc agccgaagac atggccggag
     1741 tttttctgtc ttggagaaga ccgccagcca gccatgccat cactggcagc aaggaaggtg
     1801 gattttacgc agggacgtct gccaccgacg ctgatgccgg taatgagttc tgtcgaccgg
     1861 gaaacccgcc agcttcagct tttgctggtc atgggcgtgg atgactctct gggcggcgtt
     1921 gtccggctta atggcacgct gtatcccgcg tttgccgttc cctcagccga taacaggcat
     1981 ctggtcatca gtgcgctgac ggacaagggg ttacggtatg cagggtatgg tgttgccgtc
     2041 aatcacgatg cagacagcca catatcacct gcaccggaac ttatggagtt tcatctgaaa
     2101 acccgtgagg caccgctttt tgctgccgtc aatacaccag aaaaacagcc ggatcatctg
     2161 ttccgctcgc tgggttttaa tcgtacctgg gacgaatggc ggcgcgagga agatgcacga
     2221 acacacgcca ccgagaggag gcacgatcgc ggttggtcac agtgaatgtg cacaatattt
     2281 tgttttgttt aacatcatgt tatgttcatg tgacgttcac atgacaggga tgaacgtcaa
     2341 taagcacaca caacaaacta gataatctcc gcatagtttc ttccccccgc atatggggga
     2401 tttttttagc tcgtgagagc gattctgacg atgtttttgt gattcgtagt accatcgcat
     2461 accttacaca aaaaaaacgc gtcagcgcgc gttttagatg ccttagaatc gattttagat
     2521 cgtcatcttg atctgtttgt cttccttgaa gcgaaaatgc agggctacga cagtgcgccc
     2581 cttcttgatt gtctcaaccg ttacggccag atcgcttttt tgattcagtt ccgccactgc
     2641 cggttttatg agggctctat ttaacgtctt gaaatcttta tatttatctt ccagttgtag
     2701 catgctgcgg aaatcatcta gagaaatcat ccgctcccct gtgttacgga actgttggag
     2761 gatttcgtat attctgatgc tataactctt tgataaatta gatatgtttt taattacaac
     2821 ttttgtgaat tgccctttta attgcgttaa gtacggcatt acagcatctg cgaaagttat
     2881 ttgaactttt gcttcgcctt tcaggtactg cgcccgatac tggatccaac ggaactcctc
     2941 gcgtttttca ccatccttaa gaatgatcga cctgtcccac agacgatcga tcgcttcctg
     3001 taacttttct tcggcatggt ttcttcccat gtcaggaaat gaattaaaaa actccacagc
     3061 cgtaatagtc atggtctttt gtaattcagg tggaggagca tcaacacctg actgtaatcg
     3121 actaatgcac agcaacagga aacgctgctc ctgtaacgtg agcttgtagc tggcttcgac
     3181 taaggcattg gatttgtaag ctatcaaatc aaccattgag caccctcacc taaagtaaac
     3241 taaaaaaaaa ctagttcacc ccatcaattg gtgcaatcat ttttttttaa ttcaccattt
     3301 tctgtggata accacccccg aaatgttcac ctttaccccc gaaatgttca cctaaccacc
     3361 cccgaaatgt tcacctttac ccccgaaatg ttcacctata gcaatctaat cccttgaatt
     3421 ccataagaaa tttcggtccg aaaacaagta ttaaaaacaa gatcttaaaa acaagatcta
     3481 aaaacttaac ggcgagcctg tggaaaactc ggggtgcgca aaacaaaaac ccatgaaaaa
     3541 cagtaagtta caaaaaagca gaacagcaga cactggcaaa acgctgttca accctgtgga
     3601 aaaccagtat tcatgcgggt tgaacggcta tcaccaactg agcatcggcg cgtaagtgcc
     3661 ctgttttggt gcagcagctt ttccgcttcc tcgcccactc gctcgctaac gctcggtcgc
     3721 tggggctgcg gcgagcggat ggtgcattca cgcctgctgg ccgttttttg acacgccttt
     3781 ggggacgggt tttggcaacg cgttcagttc gtcaatcaac ggctgtatcc tgctcacatc
     3841 agcctgccgt gtcacctctg ccttcaggaa ctggagtaac caggcgcgca attgcacctc
     3901 ctccggcttt ctgacctttg ccagcaatgc agcacctaca acgaccttct gcgctgtgtc
     3961 caggctccgg ctctttgcct tcagacgctg caatctggct tcagcttcgg caattttctg
     4021 ttcgagtgtt ctgctcatga tgtaactccg tgcgcggtga aaaatcgcat tttagctcgt
     4081 cactggtagt ttaaaaactg agctggcata
//
