LOCUS       NZ_CP123234             5631 bp    DNA     circular CON 01-JUN-2024
DEFINITION  Escherichia coli strain 5132 plasmid pMB11100_3, complete sequence.
ACCESSION   NZ_CP123234
VERSION     NZ_CP123234.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN32977680
            Assembly: GCF_029855145.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5631)
  AUTHORS   Shropshire,W.C., Strope,B., Selvaraj Anand,S., Bremer,J.,
            McDaneld,P., Bhatti,M., Flores,A.R., Kalia,A. and Shelburne,S.A.
  TITLE     Dynamic Periodicity of Extended-Spectrum Cephalosporin Resistant
            Bloodstream Escherichia coli Infections Driven by Non-CC131 Strains
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5631)
  AUTHORS   Shropshire,W.C., Strope,B., Selvaraj Anand,S., Bremer,J.,
            McDaneld,P., Bhatti,M., Flores,A.R., Kalia,A. and Shelburne,S.A.
  TITLE     Direct Submission
  JOURNAL   Submitted (28-MAR-2023) Infectious Diseases and Infection Control,
            University of Texas MD Anderson Cancer Center, South Campus Research
            Building 4, Houston, TEXAS 77054, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: JAN-2023
            Assembly Method                   :: Flye v. 2.9.1-b1780
            Assembly Name                     :: MB11100
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 106.0x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_029855145.1-RS_2024_06_01
            Annotation Date                   :: 06/01/2024 05:37:50
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,092
            CDSs (total)                      :: 4,975
            Genes (coding)                    :: 4,753
            CDSs (with protein)               :: 4,753
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 222
            CDSs (without protein)            :: 222
            Pseudo Genes (ambiguous residues) :: 0 of 222
            Pseudo Genes (frameshifted)       :: 92 of 222
            Pseudo Genes (incomplete)         :: 152 of 222
            Pseudo Genes (internal stop)      :: 37 of 222
            Pseudo Genes (multiple problems)  :: 52 of 222
            Pseudo Genes (short protein)      :: 1 of 222
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP123234.1.
            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..5631
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="5132"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMB11100_3"
                     /geo_loc_name="USA: Houston"
                     /lat_lon="29.7068 N 95.3971 W"
                     /collection_date="2020-10-02"
                     /collected_by="MDACC"
                     /genotype="ST1193"
     gene            join(5013..5631,1..434)
                     /locus_tag="QET41_RS25315"
                     /old_locus_tag="QET41_25315"
     CDS             join(5013..5631,1..434)
                     /locus_tag="QET41_RS25315"
                     /old_locus_tag="QET41_25315"
                     /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_001053268.1"
                     /translation="MNLQQRINKLPQLSSSFSFGKDIDNIHSFIFNETSKDKIEDLLRK
                     WVSGNQPCVFGKLASKKIKGLDFHLSIVNSPQLYNDDGHLFDFLRNERVRFKERARRGE
                     VSAHLIYFIHPQLAFARPSEELVDIQKYICSLHMPECYPIKEDVIYTESVPFQDKDGLK
                     IYKAGVNVFYSSAHRTRNHDRRIPGGILISVNAPGHFMRLAIEKGFYKDQEQALADIRN
                     MTIQSVGKGGYSHPEGISTTWHSESNLDRFGCPVHTGNSSYYSGFYHTDVLIPGELTKD
                     ERLLHEIENSDPMIFNWNVLFYVSLEEFPIDDPYYGEFIGIPVDDASMFFNSFQPRKFE
                     NKPLYEKEDD"
                     /name="hypothetical protein"
     gene            436..1302
                     /locus_tag="QET41_RS25320"
                     /old_locus_tag="QET41_25320"
     CDS             436..1302
                     /locus_tag="QET41_RS25320"
                     /old_locus_tag="QET41_25320"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001335763.1"
                     /GO_function="GO:0005215 - transporter activity [Evidence
                     IEA]"
                     /GO_process="GO:0055085 - transmembrane transport [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DMT family transporter"
                     /protein_id="WP_001335763.1"
                     /translation="MIKGMLFAFLAAFSWGAAIVMSKKGVEELDAGGVFFWQICSAVIL
                     SWIVLFIKRKKLPLNSKAILAYATGVFEPFLAYTFTLYGLYFISAGSASIIFSLESVFI
                     LVLSVLICSVKINSPQYFILFLIGAIVGSILVALPDISNGSNNIVGYCLVVAGVLSAAF
                     YVVISSRLIKSFEPITLLSGQLTFSLILSSLFIFISKSSIYLPLESVIIVFSSGILQYF
                     LAFCFYLNSLRWLPVHLAGIMLYFIPLVALFLSWLFLDEQFTFLQGVGFIVTVLSVYFL
                     NRKYSEE"
                     /name="DMT family transporter"
     gene            complement(2505..2696)
                     /locus_tag="QET41_RS25325"
                     /old_locus_tag="QET41_25325"
     CDS             complement(2505..2696)
                     /locus_tag="QET41_RS25325"
                     /old_locus_tag="QET41_25325"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165975.1"
                     /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_000165975.1"
                     /translation="MTKQEKTALNMARFIRGQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENR"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2761..3084
                     /locus_tag="QET41_RS25330"
                     /old_locus_tag="QET41_25330"
     CDS             2761..3084
                     /locus_tag="QET41_RS25330"
                     /old_locus_tag="QET41_25330"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_000955999.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGDELRRLRLAVREQGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            3293..>3724
                     /locus_tag="QET41_RS25335"
                     /old_locus_tag="QET41_25335"
                     /pseudo=""
     CDS             3293..>3724
                     /locus_tag="QET41_RS25335"
                     /old_locus_tag="QET41_25335"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            3762..4292
                     /locus_tag="QET41_RS25340"
                     /old_locus_tag="QET41_25340"
     CDS             3762..4292
                     /locus_tag="QET41_RS25340"
                     /old_locus_tag="QET41_25340"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001673158.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_001673158.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNDEFRKLEESVNRELTSNE
                     SLIRNAINDHTTALKELLERYQKTTVDTMDAHWKTVLKMSVKRWLWLIIVSVLMFATTG
                     SLLWYQGMKINANMNILREQKESLEKLNAKTWGVRYHEDSNGRFLVLPKGMKAETNWTK
                     DNGKLNAVRLVQE"
                     /name="MbeB family mobilization protein"
     gene            4299..4532
                     /locus_tag="QET41_RS25345"
                     /old_locus_tag="QET41_25345"
     CDS             4299..4532
                     /locus_tag="QET41_RS25345"
                     /old_locus_tag="QET41_25345"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_000137437.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLNEWENAFVELQKMFSLTQRDNA
                     MLNGRVMQLSQQVQHLSERTERLSQLYSENRR"
                     /name="MbeD family mobilization/exclusion protein"
     Typing          2330..2411
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.3400000000000002e-35"
     Typing          1686..1873
                     /name="rep_cluster_2401"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="4.63e-94"
     Typing          3075..4636
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aaggtttcta taaagatcaa gaacaagcgt tagcggatat tcgtaacatg actattcagt
       61 ctgttggtaa gggtgggtat tcacatccgg aagggatttc tacaacatgg cattcagaat
      121 ctaatttgga tcgttttgga tgcccagtgc acaccggtaa tagttcttat tacagcggtt
      181 tttatcatac tgatgtatta attccaggag aattaactaa ggatgaaaga ttgctccatg
      241 aaatagaaaa tagtgatcca atgatcttca actggaatgt attgttttat gtttcattag
      301 aagagtttcc tatagatgat ccttattatg gagagtttat tggtattcct gtagatgatg
      361 catctatgtt ttttaactcc tttcaaccaa ggaaatttga aaacaaaccc ctttatgaga
      421 aagaggatga ttaatatgat taaaggaatg ctttttgctt ttttagcagc gttctcatgg
      481 ggggcagcta tcgtaatgag caaaaaagga gttgaagaac tagatgccgg aggggtgttt
      541 ttctggcaga tttgtagtgc agtaatacta tcttggatag ttctttttat aaaaagaaaa
      601 aaactcccat taaactcaaa agcgatactt gcttatgcga caggcgtttt tgaaccattc
      661 ttagcgtata cttttacact ctacggactt tattttattt cagcaggaag cgcatcaatt
      721 attttttcac ttgaatcagt gtttatattg gtgttgtctg ttcttatttg ctcagttaaa
      781 attaattccc cgcaatattt tatattgttc cttataggtg caattgttgg cagtattttg
      841 gtagccttgc cagacatcag taatggatcg aataatattg ttggatattg tcttgttgtt
      901 gccggtgtgt tatcggcagc attttatgtt gttatatcgt ctcgccttat taaatcgttt
      961 gagcctatca cattattgag cggacagttg acattctccc ttatactgtc atcgctcttt
     1021 atttttatat ctaaatcatc aatttatctt ccgttggaat ccgtgattat tgttttttca
     1081 tctggaatat tacaatattt tttagctttt tgtttttact tgaactcctt gcgttggctc
     1141 ccagttcatt tggcagggat aatgttgtac tttattccgc tagttgcatt atttttgtca
     1201 tggttgtttt tggatgaaca attcacattc ttacaggggg taggatttat tgtaactgtg
     1261 ctaagtgtat attttcttaa cagaaaatac tcagaggagt aacattctgt tcaggattgc
     1321 cccccggcct ccatcgatac cgtgccaaat gcacgtaaaa aacgggagcg tttctggtgt
     1381 cggaatgtaa ccaagggggt cagaggcgcg ctaaaacgct ctcaggggag tcaaatagag
     1441 acgtttgtaa caaaaagatc aaaggatcct cttgagatcc tttttttctg cgcgtaatct
     1501 gctgcctgta aacgaaaaaa ccgccttgca gggcggtttg atcgaaggtt aagtcagctt
     1561 gcagactgct taaccaggta actgtcttat gcgagacgag tcaccaaaat tgttcttcta
     1621 gtgtagccgc actccggcag ccacttcaag tactctctaa atatctcgca catgactttt
     1681 accaatggct gctgccagtg gcgctttgtg gtgtcttttc cgggttggac ccaagagaac
     1741 agttaccgga gaaggcgcag cagtcgggct gaacgggggg ttcctgcata cagcccagcc
     1801 cggagcgaac tgcctaagtc gccccgagat accagaagac gtgagctatg agaaagcgcc
     1861 acgtgtcccg taagggagaa aggcggaaaa ggtatccggt aatcgatatg gcgggaacgt
     1921 gggggcgcag gagggagcga ttcaccggaa acggtgatga tctttaagcc acgtcgggtt
     1981 tcgccaccgc tggcggattt catggttgag ccgcaaggct cccacagatg caccgaaaaa
     2041 gtgtctgttt tgtgaagtcc gtcagggggg cggagcctat ggaaaaagcg cctccggcgc
     2101 ggcctttccc ggggtttcgt tttttgcgca catgttcttt cctggtttat ccccgggttc
     2161 tgtggataac agggttagcg tttttgagaa aggagagtcc gctcgccgca gccgaacgac
     2221 cgagcgtagc gagtcagtga gcgaggaagc ggaagagcgc ctgaactggc attttctcct
     2281 tacgcatctg tgcggcattt cacaccggac atggcgcact tttcatacaa tccgcactga
     2341 tgccgaatgg ttaagccagt atacactccg ctatcgctac gtgactgggt cagggcttcg
     2401 ccccgacacc ccaaaggtca acggcctgac gcgccctggc gggcttgtct gctcccggca
     2461 tccgctcaca gacaagctgt gaccgtctcc gggagctgca tgtgtcagcg gttttcaccg
     2521 tcatccccga agcgtgcgag gcaactgcgg taaagctcat cggcgtggtc gtgaagcgat
     2581 tcacagatgt ctgcctgttc atccgcgtcc agttcgttga gcttctccag cagcgttaat
     2641 gtctggcctc tgatgaagcg ggccatgtta agggcggttt tttcctgttt ggtcactgat
     2701 gcctccgtgt aagggggggt tctgttcatg ggggtaatga taccgatgaa acgcgagagg
     2761 atgctcacga tacgggttac tgatgatgaa catgcccggt tactggaacg ctgtgagggt
     2821 aaacaactgg cggtatggat gcggcgggtc tgcctgggtg agccggttgc ccgttccggg
     2881 aagctgccga cactggcacc gccgttactg cgtcagctgg ctgccatcgg gaataacctt
     2941 aaccagacag cgaggaaggt gaacagcggg cagtggtctt ccggtgaccg ggttcaggtg
     3001 gtggccgcac tgatggccat cggggatgag ctgcgccggc tgcgtctggc ggtcagggaa
     3061 cagggggcgc gggatgatag ttaagtttca tgccagggga aaaggtggtg gcagtggtcc
     3121 ggttgattac ctgctgggaa gggagcgtaa ccgggaaggg gcaacggtgc ttcaggggaa
     3181 tccggaagag gtccgggaac tcatcgatgc cacgccattt gcgaagaaat acacgtcagg
     3241 tgttctgtcg ttcgcggaga aggagctgcc gcctggaggg cgtgaaaaag tgatggcgag
     3301 ctttgagcgt gtactgatgc ccggtctcga gaaaaatcag tacagcatcc tgtgggtgga
     3361 gcaccaggac aagggacggc ttgagctgaa ttttgtcatt ccgaacatgg agctacagac
     3421 cggaaaacgc ctccagccgt actacgaccg ggcagacagg ccgagaattg atgcctggca
     3481 gacgctggtg aatcaccatt acggtctgca tgaccccaac gccccggaga accgccggac
     3541 gctgaccctt cctgataacc tgccggaaac gaaacaggcg cttgctgagg gcgtcacacg
     3601 cgggatagac gcgctttacc atgccggaga gataaaaggc cgtcaggatg tgattcaggc
     3661 gctcacagag gcggggcttg aagtggtcag ggtgacgcga agcagtatca gcattgcaga
     3721 cccgaacggc gggaggaata tcagactgaa aggagcgttt tatgagcaat cttttacaga
     3781 cgggcgcgga gttcgagaaa aagctgaaag agagagccga atctacagag aaaatgctga
     3841 acgacgagtt caggaagctc gaagaatctg taaacaggga actgacctca aacgaatctt
     3901 taatcaggaa cgctatcaac gaccatacaa cagccctgaa agaactgctg gagaggtatc
     3961 agaaaacgac cgtcgatacg atggacgcgc actggaaaac cgtactgaaa atgagcgtga
     4021 aacgctggct gtggctgatt atcgtctcag tactgatgtt tgccacgacc gggagtctgc
     4081 tgtggtacca gggcatgaag ataaacgcga atatgaatat tctccgcgag cagaaagaga
     4141 gtctggagaa gctgaacgcg aagacatggg gcgtgcgtta tcacgaggac agcaacggac
     4201 gttttctggt gttgccgaag gggatgaaag ccgaaacgaa ctggacgaag gacaacggca
     4261 aactgaacgc agtgagactg gtgcaggagt gacagagcat gacggagctg gaaagacatt
     4321 tgctgaacgc attagagcaa ctgcaacagg actatatgca gcggctgaac gaatgggaga
     4381 acgccttcgt ggaattgcag aaaatgtttt cgcttacgca acgggacaac gcgatgctga
     4441 acgggcgagt catgcagttg agtcagcagg tgcagcactt gagcgagcgg acagaacgct
     4501 tgagccagtt atacagcgag aacaggagat aagggatgaa cggctgatgc aggaacgcga
     4561 acatgagtta tctctggagc gggagcgtca gccggaaatc caggagcgga cactggatgg
     4621 cccttcgctg ggatggtgaa accatgaaaa atgacgtgtt cagtggatta aggcgggcta
     4681 atgtggcctg tagcatctgg ttgcataggt attcatgcgg ttaaaattta tcaggtgcga
     4741 tcgcggcagt ttttcgggtg gtttgttgcc atttttacct gtctgctgcc gtgatcgcac
     4801 cgaacgcgtt ttggcggtgc gtacaatgcg acgttatggt aaatggagcg gattttcagg
     4861 aaggagtgat actaacaact cgaacactgt gcaaataatg atttttttaa aatatcggta
     4921 acgataataa attatttcgt tttacgccgg taataaatat aatgtagttt cagtatataa
     4981 aaaaatatat gaggtgtctt gtgggagctt tcatgaatct tcaacaacgt ataaataaac
     5041 taccacaatt atcatccagt ttttcatttg gaaaagatat tgataatatt cattcattta
     5101 tctttaacga aacttctaaa gataaaattg aagatttact aagaaaatgg gtgtcaggca
     5161 atcagccctg tgtatttggt aaattggcaa gcaagaaaat taaagggctt gatttccatt
     5221 tatctattgt aaatagcccc caactatata atgatgatgg tcatttgttt gattttttgc
     5281 gtaatgaaag agttcgtttt aaagaacgcg caagaagagg agaggtcagt gcgcatctca
     5341 tttattttat tcatccacaa cttgcctttg ctcgtccatc agaagagtta gtggacatac
     5401 aaaaatatat ttgttcgctg catatgccag agtgctatcc aataaaagag gatgttattt
     5461 atactgaaag cgtaccattt caggataaag atgggctaaa aatatataag gctggtgtta
     5521 atgtttttta ctcttctgct catagaacaa gaaatcatga tagaagaata ccagggggaa
     5581 tacttatttc tgtaaatgcc ccggggcatt ttatgaggct ggcgatagaa a
//
