LOCUS       NZ_CP103595             5167 bp    DNA     circular CON 20-SEP-2023
DEFINITION  Escherichia coli O25b:H4-ST131 strain 4224 plasmid pMB7542_3,
            complete sequence.
ACCESSION   NZ_CP103595
VERSION     NZ_CP103595.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN28174053
            Assembly: GCF_024917455.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli O25b:H4-ST131
  ORGANISM  Escherichia coli O25b:H4-ST131
            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                   :: 41x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/20/2023 06:17:23
            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)                     :: 5,284
            CDSs (total)                      :: 5,172
            Genes (coding)                    :: 4,936
            CDSs (with protein)               :: 4,936
            Genes (RNA)                       :: 112
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 236
            CDSs (without protein)            :: 236
            Pseudo Genes (ambiguous residues) :: 0 of 236
            Pseudo Genes (frameshifted)       :: 88 of 236
            Pseudo Genes (incomplete)         :: 166 of 236
            Pseudo Genes (internal stop)      :: 44 of 236
            Pseudo Genes (multiple problems)  :: 54 of 236
            Pseudo Genes (short protein)      :: 3 of 236
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP103595.1.
            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 O25b:H4-ST131"
                     /mol_type="genomic DNA"
                     /strain="4224"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:941322"
                     /plasmid="pMB7542_3"
                     /geo_loc_name="USA: Houston"
                     /lat_lon="29.7068 N 95.3971 W"
                     /collection_date="2019-01-10"
                     /collected_by="MDACC"
                     /genotype="ST131"
     gene            1..927
                     /locus_tag="M5S53_RS26310"
                     /old_locus_tag="M5S53_26310"
     CDS             1..927
                     /locus_tag="M5S53_RS26310"
                     /old_locus_tag="M5S53_26310"
                     /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"
     gene            930..1463
                     /locus_tag="M5S53_RS26315"
                     /old_locus_tag="M5S53_26315"
     CDS             930..1463
                     /locus_tag="M5S53_RS26315"
                     /old_locus_tag="M5S53_26315"
                     /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(1529..1738)
                     /locus_tag="M5S53_RS26320"
                     /old_locus_tag="M5S53_26320"
     CDS             complement(1529..1738)
                     /locus_tag="M5S53_RS26320"
                     /old_locus_tag="M5S53_26320"
                     /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            3475..4389
                     /locus_tag="M5S53_RS26325"
                     /old_locus_tag="M5S53_26325"
     CDS             3475..4389
                     /locus_tag="M5S53_RS26325"
                     /old_locus_tag="M5S53_26325"
                     /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(4593..4991)
                     /locus_tag="M5S53_RS26330"
                     /old_locus_tag="M5S53_26330"
     CDS             complement(4593..4991)
                     /locus_tag="M5S53_RS26330"
                     /old_locus_tag="M5S53_26330"
                     /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"
     Typing          3476..4250
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.778"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          2..924
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.052"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gtggcaacct atcacctcag cgttaaattt ggtggcaagg ggcaggctgc aaaccacgcc
       61 gattacatcg agcgcaaaga gaaataccgc gaccgtcagg atttggaata ttccgcacac
      121 ggaaacatgc cggaatgggc cagggataat ccttcccatt tctggcaggc ggctgaccag
      181 tttgaacgtg cgaacggttc gacctatagg gaacttgaaa ttgcattacc ccgtgaactg
      241 acaccggaac agcgccttga actggtgcag gattttgtac gtcaggaagc tggcgaacgg
      301 cacgcctgga gttttgccat tcacaatccg aaagcgagca ttgacggcgg cgaacagcct
      361 catgcgcata tcatgatgag tcagcgtgtg aatgatggca ttgaacgtac accggaacag
      421 tatttccggc gctataacgc caggtatccc gagcggggag gtgcgaaaaa ggattccgga
      481 agcctgactc tcactcagca aaaagagcag ttgcgggaat tgcgaaaacg ctgggaggtg
      541 aagcacaacg aacatatgag aaagcatggc tttgaaaggg gcttcattga ctgccggacg
      601 ctgaaagaac agggcattga acgacgtccc gaagtgcatc tgggttttga agctgccgga
      661 cggcttgatg atgcccagcg tcatgacatc atgcaaaaac ggtctgaacc ggactattcc
      721 cgccatcttg aacaggcgcg aacggtcggg catgacatca gggaatggct ggacactccg
      781 gttaagcaac atgaactggt cagaaggctg caacatgatg ttgcgcggga gcatggcttt
      841 gacatgagag acagagtgag cagacagaac cgaactgcac ctgaacgggt taaatcaccg
      901 tcacgtggat tttctatggg attctgaaca tggccagcac agaagaaaaa ttacttacgc
      961 tcctgttatc ggtggagcat ctgcaacata ccgcaatgga gcaacagaaa gctgttgctg
     1021 attctctggc tgtggcaagg gaaactcttc gcggatatcg ggatatttct gacggtgtgg
     1081 caaaacaggt cagggatgaa gtcagaaatg aggtgcagaa gctggacgtg gcaggactga
     1141 taggtgagcg catcagccag gattttcagc ggctggaaga gtcagtcgca aacatgaagg
     1201 caaacgcgga tgccctgaac agggatattg cgacaattca cagcaatatc gtgcaggaat
     1261 acaacaccct taaagggtat agctggaaat ggctgggtgg ggtgtcagtg gcttttctgg
     1321 ttatgttctg tgtgctcgga tggggaatga aaacaatact cgacaggaac tacaacgcca
     1381 cagcggcggt gtatcagaaa gttgtgacac tggaagataa actggtggag aaacctgtca
     1441 cggggaagag ccggaaaaac tgacgcgctt cgcttgtcca acgcctcacg acccgcgaaa
     1501 gaatttcgcg aaccgttcac cgtttttttc aatatgattc tgtctgcttt ggtcgataaa
     1561 gcagacgata gtattccagc cttcgtatat ataacggtac gtgctcatca gtaagagctg
     1621 gcggtattgt gttatcaggg ggaagttttt tcagatactc acgaaatgcc tggcttgatg
     1681 ccataaaatc tacagtagca tcgataatat gtggggtgtt ttcacctaat tttgccatga
     1741 tgataatcct tatattatca cggtttgtga atgatagggt gtcactatta tttatgcgtt
     1801 agtgaaccag aaaaaatccc ccgttggcat agggggatat gtaaggagaa ataacttcgc
     1861 aggtgttctt gtttgtataa cgtgaaaaga ctgcacgcaa cttaataagt ctgccgtact
     1921 tactttcagt tttcaacata aggtttataa caatgtatgg aatggaagtg agctttaagg
     1981 tttcagctct aaaaaataaa atatttatta gttggctggt tgttgttctt gttctgtatg
     2041 tatataaaca ctatcgacat attatgaccg ggaacattcc ttaccccctc tgcgctcgca
     2101 gaggtttttt ttgtcattaa ttaataatga actgaaatgc agttccgata cctccatttg
     2161 cacattatcc ctgacatatg gtaccggaac cgcattaatt ttatgttata agagtttatt
     2221 tttaatgtcc agatggttta atagtattta tatgtaatta gctgtatgga tagtactggt
     2281 tttattgtat aacttgtcgt ttttttttat tgtttttgtg tggtgtgcta atctttaagt
     2341 tataaaaaaa ccccttggaa tacaggggca aaagtaagga aaacaaatgg atgctcagtt
     2401 tgtgtgacac tttaaactaa tggaactata gagtggaggt tgttacagtc gcttttataa
     2461 aacagcaacc agtttttttc aatagtctga tgatggttgt gacagttttg tgatattgtt
     2521 caaaatgttt cttgttgaat gtttgttttt tggtctattg gtgtctggtt ttattttttc
     2581 tgctattaca tatcaagaaa tgtgattggt gtagcaagag tggaatgcga tgtggataaa
     2641 ctaattggtt gtcgaatcta atttacttag aaaactacac ttgtttttgt gtatgaattt
     2701 agtgaatttg tctgtctatg tgttttcgtg catttataaa tccttcgtca ggatcttaaa
     2761 tttagtgttg aatatgtagg gcctgtacgg taattattat ttagcgtagc tacttcatcg
     2821 ttgttcgaac acaaccaaca acctgtaatt gttgtttctc ttggttcccc acttttgtgg
     2881 ggttttttat ctcttccgtg catcgtaaag cgcggactcc ttctggaaag gttgttttag
     2941 ggcatcactg aggcattttt tgcgtttgtg aatattgagc atccgataac taaaatattt
     3001 cccatagact ctgattcttg ccaccgaccc caggtcggtt tttttttgtc ctggcgagat
     3061 gtgaagtttg gaaacaggaa accccgtcag agcgccacgc accaggggag aaaacttgtc
     3121 gttttgagcc gttcggtgtt cagaacgcac gaaaccgatc gcacatcgct ttcgtgcata
     3181 gttatgcaac gccctgaaaa cgattctgac gcgtttttct ggtttggcct ggtgttttct
     3241 tgtctttttg cgttttttgc gccagaaagc gactgagggc gttttaaggg gggcgtacaa
     3301 cgggagttat ggtaaatgga tcgggttttc gggaaggttc gacaggattt gccgttgggt
     3361 gtagtgtaag cgactgaaaa acaaacgccc ctgaaatcat gtccagatcc ggcaagattc
     3421 aacatgaaat acagagggcg tgtaggtcgc ataacccgga gagaatcgta acacatgagc
     3481 gccgcgcttc aatacttcga cgaaaattta ccccatcgtc cctatcacac ggatgatctc
     3541 gcttttggtc ttcgcatctc cggcaaaggg cgtgcgcttc ttgcgcggta catacagcag
     3601 aaccagcctc atgcgcagtt ctggctggtt tttgacgttg accgcgaggg ggctgcgatt
     3661 gactggagcg accggaacgc tcccgcgccg aacatcaccg ttaaaaatcc tgtgaacgga
     3721 cacgctcacc tgctctacgc actcaacatc gccgtgagaa ccgcgcctga tgcctcggtt
     3781 aaggcgctga aatatgccgc agcggttgaa cgttcgctgt gtgagaaact ttgtgcggat
     3841 gtgaactaca gcggcctgat ttgcaaaaat ccgttccacc tggaatggct ggtgatggag
     3901 tggcgcgagg aagcctatac cctcgatgaa ctggctgatt atctcgattt gagcgcctca
     3961 gagcgtcgta gcatcgataa acattacggg atggggcgaa actgccacct gttcgaaatg
     4021 acgcgcaaat gggcttacag ggcgattcgt cagggctggc cagcgttctc acagtggctt
     4081 gaagcggtga tccagcgtgt cgaaatgtac aatgcatcgc ttcccgttcc gctttcactg
     4141 gctgaatgtc gggctattgg caagagcatt gcgaaataca cgcacaggaa cttcacgccg
     4201 gaaactttcg cacagtatgt ggctgatacg cacacgccag aaattcaggc tgcacgcggt
     4261 cgcaagggcg gttctaagtc taagcgcagc acagtagcta catctgcacg cacgctgaaa
     4321 ccgtgggagg cattagggat cagtcgcgcc tggtattacc aactgaaaaa acgaggtctc
     4381 gtagagtaga ccaaataagc ctatatcaga taacagcgcc tttctggcgt ctttttgagc
     4441 agcaggtttt ttgccgtttt tccccgttca gccctgcaat ggcgcggctt tccgcgtgat
     4501 tgtggtggta gtgctcgccg cagtctcatg accgagcgta gcgagcgaat gagcgaggaa
     4561 gcaccaggga atcggaacac ggatggaggc acttacgcgt ctgggtttgg ggatgtctcc
     4621 agatcgtact taagttcctt aagtgcttgt aatatcctgt cttttttata gcatagctcg
     4681 cctgtttttg tgtctaccag tcctgcttcg atcagtagcc cagccgcgag aaagagccgg
     4741 tgattgcgtt cccgtcgttg tttttttccc tcgattcgtt tttggaccgc ctgttttcgt
     4801 tcgctctcct gtgcctgtaa gtcgtttttt tccgctgttg ccagtacgtg gagaagtttg
     4861 cgttcctgtt ctgtgagtcc ggcttcgttg tcgatcaggt caataatctg tctctgtcgt
     4921 gcggtctgtt ctccgagctt cctgatgaat ccgatccgtt tcttcagcca ttcgatgttg
     4981 ctgatgcgca tgttcgtgat gctccctggt gtttttttgc ggtgtgttgt ggtcgtgcag
     5041 tatatcgctt gcggtcggcg ggtgcagggg gtatcttccg tgctaattcg taaaattaga
     5101 aggaagcgca cttatatgtt tctctccttc gtcgagaaac agtgcgctcc tgcagagggc
     5161 tgaaacc
//
