LOCUS       NZ_CP103483             5167 bp    DNA     circular CON 21-SEP-2023
DEFINITION  Escherichia coli strain 4621 plasmid pMB9635_4, complete sequence.
ACCESSION   NZ_CP103483
VERSION     NZ_CP103483.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN28174065
            Assembly: GCF_024917715.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5167)
  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 5167)
  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                   :: 345x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/21/2023 03:32:47
            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)                     :: 5,329
            CDSs (total)                      :: 5,210
            Genes (coding)                    :: 4,989
            CDSs (with protein)               :: 4,989
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 221
            CDSs (without protein)            :: 221
            Pseudo Genes (ambiguous residues) :: 0 of 221
            Pseudo Genes (frameshifted)       :: 89 of 221
            Pseudo Genes (incomplete)         :: 150 of 221
            Pseudo Genes (internal stop)      :: 43 of 221
            Pseudo Genes (multiple problems)  :: 54 of 221
            Pseudo Genes (short protein)      :: 4 of 221
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP103483.1.
            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..5167
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="4621"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMB9635_4"
                     /geo_loc_name="USA: Houston"
                     /lat_lon="29.7068 N 95.3971 W"
                     /collection_date="2019-12-22"
                     /collected_by="MDACC"
                     /genotype="ST68"
     gene            1..534
                     /locus_tag="M5T46_RS26460"
                     /old_locus_tag="M5T46_26460"
     CDS             1..534
                     /locus_tag="M5T46_RS26460"
                     /old_locus_tag="M5T46_26460"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221103.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000168770.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTILDRNYNATAAVYQKVVTLED
                     KLVEKPVTGKSRKN"
                     /name="hypothetical protein"
     gene            complement(600..809)
                     /locus_tag="M5T46_RS26465"
                     /old_locus_tag="M5T46_26465"
     CDS             complement(600..809)
                     /locus_tag="M5T46_RS26465"
                     /old_locus_tag="M5T46_26465"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001618649.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001096196.1"
                     /translation="MAKLGENTPHIIDATVDFMASSQAFREYLKKLPPDNTIPPALTDE
                     HVPLYIRRLEYYRLLYRPKQTESY"
                     /name="hypothetical protein"
     gene            complement(1958..2266)
                     /locus_tag="M5T46_RS26470"
                     /old_locus_tag="M5T46_26470"
     CDS             complement(1958..2266)
                     /locus_tag="M5T46_RS26470"
                     /old_locus_tag="M5T46_26470"
                     /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_023909142.1"
                     /translation="MALHNYARKRCAIGFVRSEHRTAQNDKFSPLVRGALTGFPVSKLH
                     ISPGQKKTDLGSVARIRVYGKYFSYRMLNIHKRKKCLSDALKQPFQKESALYDARKR"
                     /name="hypothetical protein"
     gene            2546..3460
                     /locus_tag="M5T46_RS26475"
                     /old_locus_tag="M5T46_26475"
     CDS             2546..3460
                     /locus_tag="M5T46_RS26475"
                     /old_locus_tag="M5T46_26475"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001738986.1"
                     /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_001271348.1"
                     /translation="MSAALQYFDENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWLVMEWREEAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGSKSKRSTVATSARTL
                     KPWEALGISRAWYYQLKKRGLVE"
                     /name="replication initiation protein"
     gene            complement(3664..4062)
                     /locus_tag="M5T46_RS26480"
                     /old_locus_tag="M5T46_26480"
     CDS             complement(3664..4062)
                     /locus_tag="M5T46_RS26480"
                     /old_locus_tag="M5T46_26480"
                     /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_001222914.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLIDNEAGLTEQERK
                     LLHVLATAEKNDLQAQESERKQAVQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQALKELKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            4239..5165
                     /locus_tag="M5T46_RS26485"
                     /old_locus_tag="M5T46_26485"
     CDS             4239..5165
                     /locus_tag="M5T46_RS26485"
                     /old_locus_tag="M5T46_26485"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /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_001331297.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTPEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     LTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQNRTAPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     Typing          2547..3321
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.778"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          4240..5162
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.052"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atggccagca cagaagaaaa attactcacg ctcctgttat cggtggagca tctgcaacat
       61 accgcaatgg agcaacagaa agctgttgct gattctctgg ctgtggcaag ggaaactctt
      121 cgcggatatc gggatatttc tgacggtgtg gcaaaacagg tcagggatga agtcagaaat
      181 gaggtgcaga agctggacgt ggcaggactg ataggtgagc gcatcagcca ggattttcag
      241 cggctggaag agtcagtcgc aaacatgaag gcaaacgcgg atgccctgaa cagggatatt
      301 gcgacaattc acagcaatat cgtgcaggaa tacaacaccc ttaaagggta tagctggaaa
      361 tggctgggtg gggtgtcagt ggcttttctg gttatgttct gtgtgctcgg atggggaatg
      421 aaaacaatac tcgacaggaa ctacaacgcc acagcggcgg tgtatcagaa agttgtgaca
      481 ctggaagata aactggtgga gaaacctgtc acggggaaga gccggaaaaa ctgacgcgct
      541 tcgcttgtcc aacgcctcac gacccgcgaa aggatttcgc gaaccgttca ccgttttttt
      601 caatatgatt ctgtctgctt tggtcgataa agcagacgat agtattccag ccttcgtata
      661 tataacggta cgtgctcatc agtaagagct ggcggtattg tgttatcagg gggaagtttt
      721 ttcagatact cacgaaatgc ctggcttgat gccataaaat ctacagtagc atcgataata
      781 tgtggggtgt tttcacctaa ttttgccatg atgataatcc ttatattatc acggtttgtg
      841 aatgataggg tgtcactatt atttatgcgt tagtgaacca gaaaaaatcc cccgttggca
      901 tagggggata tgtaaggaga aataacttcg caggtgttct tgtttgtata acgtgaaaag
      961 actgcacgca acttaataag tctgccgtac ttactttcag ttttcaacat aaggtttata
     1021 acaatgtatg gaatggaagt gagctttaag gtttcagctc taaaaaataa aatatttatt
     1081 agttggctgg ttgttgttct tgttctgtat gtatataaac actatcgaca tattatgacc
     1141 gggaacattc cttaccccct ctgcgctcgc agaggttttt tttgtcatta attaataatg
     1201 aactgaaatg cagttccgat acctccattt gcacattatc cctgacatat ggtaccggaa
     1261 ccgcattaat tttatgttat aagagtttat ttttaatgtc cagatggttt aatagtattt
     1321 atatgtaatt agctgtatgg atagtactgg ttttattgta taacttgtcg ttttttttta
     1381 ttgtttttgt gtggtgtgct aatctttaag ttataaaaaa accccttgga atacaggggc
     1441 aaaagtaagg aaaacaaatg gatgctcagt ttgtgtgaca ctttaaacta atggaactat
     1501 agagtggagg ttgttacagt cgcttttata aaacagcaac cagttttttt caatagtctg
     1561 atgatggttg tgacagtttt gtgatattgt tcaaaatgtt tcttgttgaa tgtttgtttt
     1621 ttggtctatt ggtgtctggt tttatttttt ctgctattac atatcaagaa atgtgattgg
     1681 tgtagcaaga gtggaatgcg atgtggataa actaattggt tgtcgaatct aatttactta
     1741 gaaaactaca cttgtttttg tgtatgaatt tagtgaattt gtctgtctat gtgttttcgt
     1801 gcatttataa atccttcgtc aggatcttaa atttagtgtt gaatatgtag ggcctgtacg
     1861 gtaattatta tttagcgtag ctacttcatc gttgttcgaa cacaaccaac aacctgtaat
     1921 tgttgtttct cttggttccc cacttttgtg gggtttttta tctcttccgt gcatcgtaaa
     1981 gcgcggactc cttctggaaa ggttgtttta gggcatcact gaggcatttt ttgcgtttgt
     2041 gaatattgag catccgataa ctaaaatatt tcccatagac tctgattctt gccaccgacc
     2101 ccaggtcggt ttttttttgt cctggcgaga tgtgaagttt ggaaacagga aaccccgtca
     2161 gagcgccacg caccagggga gaaaacttgt cgttttgagc cgttcggtgt tcagaacgca
     2221 cgaaaccgat cgcacatcgc tttcgtgcat agttatgcaa cgccatgaaa acgattctga
     2281 cgcgtttttc tggtttggcc tggtgttttc ttgtcttttt gcgttttttg cgccagaaag
     2341 cgactgaggg cgttttaagg ggggcgtaca acgggagtta tggtaaatgg atcgggtttt
     2401 cgggaaggtt cgacaggatt tgccgttggg tgtagtgtaa gcgactgaaa aacaaacgcc
     2461 cctgaaatca tgtccagatc cggcaagatt caacatgaaa tacagagggc gtgtaggtcg
     2521 cataacccgg agagaatcgt aacacatgag cgccgcgctt caatacttcg acgaaaattt
     2581 accccatcgt ccctatcaca cggatgatct cgcttttggt cttcgcatct ccggcaaagg
     2641 gcgtgcgctt cttgcgcggt acatacagca gaaccagcct catgcgcagt tctggctggt
     2701 ttttgacgtt gaccgcgagg gggctgcgat tgactggagc gaccggaacg ctcccgcgcc
     2761 gaacatcacc gttaaaaatc ctgtgaacgg acacgctcac ctgctctacg cactcaacat
     2821 cgccgtgaga accgcgcctg atgcctcggt taaggcgctg aaatatgccg cagcggttga
     2881 acgttcgctg tgtgagaaac tttgtgcgga tgtgaactac agcggcctga tttgcaaaaa
     2941 tccgttccac ctggaatggc tggtgatgga gtggcgcgag gaagcctata ccctcgatga
     3001 actggctgat tatctcgatt tgagcgcctc agagcgtcgt agcatcgata aacattacgg
     3061 gatggggcga aactgccacc tgttcgaaat gacgcgcaaa tgggcttaca gggcgattcg
     3121 tcagggctgg ccagcgttct cacagtggct tgaagcggtg atccagcgtg tcgaaatgta
     3181 caatgcatcg cttcccgttc cgctttcact ggctgaatgt cgggctattg gcaagagcat
     3241 tgcgaaatac acgcacagga acttcacgcc ggaaactttc gcacagtatg tggctgatac
     3301 gcacacgcca gaaattcagg ctgcacgcgg tcgcaagggc ggttctaagt ctaagcgcag
     3361 cacagtagct acatctgcac gcacgctgaa accgtgggag gcattaggga tcagtcgcgc
     3421 ctggtattac caactgaaaa aacgaggtct cgtagagtag accaaataag cctatatcag
     3481 ataacagcgc ctttctggcg tctttttgag cagcaggttt tttgccgttt ttccccgttc
     3541 agccctgcaa tggcgcggct ttccgcgtga ttgtggtggt agtgctcgcc gcagtctcat
     3601 gaccgagcgt agcgagcgaa tgagcgagga agcaccaggg aatcggaaca cggatggagg
     3661 cacttacgcg tctgggtttg gggatgtctc cagatcgtac ttaagttcct taagtgcttg
     3721 taatatcctg tcttttttat agcatagctc gcctgttttt gtgtctacca gtcctgcttc
     3781 gatcagtagc ccagccgcga gaaagagccg gtgattgcgt tcccgtcgtt gtttttttcc
     3841 ctcgattcgt ttttggaccg cctgttttcg ttcgctctcc tgtgcctgta agtcgttttt
     3901 ttccgctgtt gccagtacgt ggagaagttt gcgttcctgt tctgtgagtc cggcttcgtt
     3961 gtcgatcagg tcaataatct gtctctgtcg tgcggtctgt tctccgagct tcctgatgaa
     4021 tccgatccgt ttcttcagcc attcgatgtt gctgatgcgc atgttcgtga tgctccctgg
     4081 tgtttttttg cggtgtgttg tggtcgtgca gtatatcgct tgcggtcggc gggtgcaggg
     4141 ggtatcttcc gtgctaattc gtaaaattag aaggaagcgc acttatatgt ttctctcctt
     4201 cgtcgagaaa cagtgcgctc ctgcagaggg ctgaaaccgt ggcaacctat cacctcagcg
     4261 ttaaatttgg tggcaagggg caggctgcaa accacgccga ttacatcgag cgcaaagaga
     4321 aataccgcga ccgtcaggat ttggaatatt ccgcacacgg aaacatgccg gaatgggcca
     4381 gggataatcc ttcccatttc tggcaggcgg ctgaccagtt tgaacgtgcg aacggttcga
     4441 cctataggga acttgaaatt gcattacccc gtgaactgac accggaacag cgccttgaac
     4501 tggtgcagga ttttgtacgt caggaagctg gcgaacggca cgcctggagt tttgccattc
     4561 acaatccgaa agcgagcatt gacggcggcg aacagcctca tgcgcatatc atgatgagtc
     4621 agcgtgtgaa tgatggcatt gaacgtacac cggaacagta tttccggcgc tataacgcca
     4681 ggtatcccga gcggggaggt gcgaaaaagg attccggaag cctgactctc actcagcaaa
     4741 aagagcagtt gcgggaattg cgaaaacgct gggaggtgaa gcacaacgaa catatgagaa
     4801 agcatggctt tgaaaggggc ttcattgact gccggacgct gaaagaacag ggcattgaac
     4861 gacgtcccga agtgcatctg ggttttgaag ctgccggacg gcttgatgat gcccagcgtc
     4921 atgacatcat gcaaaaacgg tctgaaccgg actattcccg ccatcttgaa caggcgcgaa
     4981 cggtcgggca tgacatcagg gaatggctgg acactccggt taagcaacat gaactggtca
     5041 gaaggctgca acatgatgtt gcgcgggagc atggctttga catgagagac agagtgagca
     5101 gacagaaccg aactgcacct gaacgggtta aatcaccgtc acgtggattt tctatgggat
     5161 tctgaac
//
