LOCUS       NZ_CP103526             4773 bp    DNA     circular CON 21-SEP-2023
DEFINITION  Escherichia coli strain 2779 - blood draw same patient as MB9267
            plasmid pMB9272_5, complete sequence.
ACCESSION   NZ_CP103526
VERSION     NZ_CP103526.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN28174006
            Assembly: GCF_024918015.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4773)
  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 4773)
  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                   :: 91x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/21/2023 03:46:45
            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)                     :: 5,256
            CDSs (total)                      :: 5,133
            Genes (coding)                    :: 4,930
            CDSs (with protein)               :: 4,930
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 203
            CDSs (without protein)            :: 203
            Pseudo Genes (ambiguous residues) :: 0 of 203
            Pseudo Genes (frameshifted)       :: 65 of 203
            Pseudo Genes (incomplete)         :: 146 of 203
            Pseudo Genes (internal stop)      :: 38 of 203
            Pseudo Genes (multiple problems)  :: 43 of 203
            Pseudo Genes (short protein)      :: 4 of 203
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP103526.1.
            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..4773
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="2779 - blood draw same patient as MB9267"
                     /isolation_source="blood draw same patient as MB9267"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMB9272_5"
                     /geo_loc_name="USA: Houston"
                     /lat_lon="29.706800 N 95.397100 W"
                     /collection_date="2019-10-28"
                     /collected_by="MDACC"
                     /genotype="ST405"
     gene            1..324
                     /locus_tag="M5S63_RS26120"
                     /old_locus_tag="M5S63_26120"
     CDS             1..324
                     /locus_tag="M5S63_RS26120"
                     /old_locus_tag="M5S63_26120"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /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_000957080.1"
                     /translation="MLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLAEKPARAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGGSGHDRVQVVAALMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            533..>967
                     /locus_tag="M5S63_RS26125"
                     /old_locus_tag="M5S63_26125"
                     /pseudo=""
     CDS             533..>967
                     /locus_tag="M5S63_RS26125"
                     /old_locus_tag="M5S63_26125"
                     /inference="COORDINATES: protein motif:HMM:NF015397.3"
                     /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            1002..1487
                     /locus_tag="M5S63_RS26130"
                     /old_locus_tag="M5S63_26130"
     CDS             1002..1487
                     /locus_tag="M5S63_RS26130"
                     /old_locus_tag="M5S63_26130"
                     /inference="COORDINATES: protein motif:HMM:NF016710.3"
                     /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_079967943.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQSTGEMLKVAFSEHEKFVRAELSESE
                     KRISAAILDHDRKLSSAMSQRTKGMVRMVSQTWLTIVLVSTLLTASGASILWWQGQQIL
                     DNYTIIREQKSTQAMLSERNSGVQLSTCGEQRRRCVRVNPEAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            1491..1706
                     /locus_tag="M5S63_RS26135"
                     /old_locus_tag="M5S63_26135"
     CDS             1491..1706
                     /locus_tag="M5S63_RS26135"
                     /old_locus_tag="M5S63_26135"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137421.1"
                     /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_000137420.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMFGLMQRENA
                     ALSERVTGLSRQVQSLSEQLRRLSQG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(1905..2456)
                     /locus_tag="M5S63_RS26140"
                     /old_locus_tag="M5S63_26140"
     CDS             complement(1905..2456)
                     /locus_tag="M5S63_RS26140"
                     /old_locus_tag="M5S63_26140"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000654246.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000654246.1"
                     /translation="MKDMKAVVVFTGKDLNIMRTEGGSGYWHARTDRLNDADYLIAVRN
                     RRETWAVKDLEHGTAFLIAKITGCFKSPDYDDRNVITFDEYAEIHTPKAWKMLTDGQRY
                     PVAYLSAQEAFLRIGVTPEQLEWKKFHPSSPSVPNTVIPGLAEEKTEKLSLNEAIERAK
                     KDISNATGIDSSAITISIKI"
                     /name="hypothetical protein"
     gene            2992..3459
                     /locus_tag="M5S63_RS26145"
                     /old_locus_tag="M5S63_26145"
     CDS             2992..3459
                     /locus_tag="M5S63_RS26145"
                     /old_locus_tag="M5S63_26145"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011899450.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_157186121.1"
                     /translation="MPAPNNYGVAGSPNSAIAHPDGLDCYGRVPEINSKGDVIPAGDIF
                     LRVGRHTGPNRGFGVRHIWAEHEQELVKLGYTTVNDVARFVRDIIRRGVPIYCEFNSTS
                     GKHRPAVLKSSVGIVILEPREAPETESGWIYVVVTAYTRRTAHGTLVGHIE"
                     /name="hypothetical protein"
     gene            complement(4053..4136)
                     /locus_tag="M5S63_RS26310"
     CDS             complement(4053..4136)
                     /locus_tag="M5S63_RS26310"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_058652899.1"
                     /translation="MHEPPVQSDRCALSGNYRLESNPDRHD"
                     /name="hypothetical protein"
     Typing          4486..4670
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="86.17"
                     /coverage="86.0"
                     /evalue="5.83e-49"
     Typing          complement(4028..4540)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.829"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          315..1810
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.385"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atgctcacca tgtgggtgac cgaagatgag caccgccgtc tgctggaacg ctgcgacggt
       61 aaacagcttg cagcctggat gcgccagacg tgcctggccg agaaacccgc ccgcgccggc
      121 aagcttccct caatctcgcc ggcgctgctt cgtcagcttg ccggcatggg gaataacctc
      181 aaccagattg cccggcaggt taacgccggt ggcggcagcg ggcacgaccg cgtgcaggtc
      241 gtcgccgcgc tgatggccat agatgccgga ctcgagcggc tgcggcatgc cgtgctggaa
      301 aagggtgcag acgatgatcg ttaagtttca cccgcgaggg cgcggcggtg gcgccggtcc
      361 ggtggattat ctgctgggga aagaccgaca gcgcgacggc gccaccgttc tgcaggggaa
      421 gccggaagaa gtcagggagc ttatcgacgc ctcgccctac gcaaaaaagt acacatccgg
      481 cgtcctgtcc tttgccgaaa aggatttacc gcccgggcag cgcgaaaagc tgatggcgag
      541 ctttgaacgg gttctgatgc ccggactcga taaagaccag tacagcgtgc tatgggttga
      601 gcaccaggat aaggggcggc tggagctgaa cttcctgatc ccgaacatgg agctgctgac
      661 aggcaggcgt ctccagccgt attacgaccg agccgaccgt ccgcgcattg atgcctggca
      721 gaccatcgtg aacggcaggc tggggctgca tgacccgaac gcgcctgaaa accggcgggc
      781 gctggtcacg ccgtccgcgc tgccgaaaac gaagcaggaa gccgctcagg caattacacg
      841 gggtttactg gccttagcct cgtccgggga gctgaaaacc cgccaggacg tcactgaggc
      901 gctagaaagc gcaggttttg aggtggtgcg caccacaaaa agcagcatca gcattgccga
      961 cccggacggg gggcgaaaca tccgactgaa gggagccatc tatgaacagt cttttaacgc
     1021 tggcgaagga cttagagcag aaatcgaaag cgcagcagca gagtaccggc gagatgctga
     1081 aagtcgcatt cagcgagcac gagaagtttg tcagagcgga actgagcgaa agcgagaaga
     1141 gaatcagcgc cgccatcctc gaccacgacc ggaagctgtc ctcagccatg agccagcgca
     1201 cgaaaggcat ggtgcgtatg gtcagccaga cgtggctgac catcgtcctg gtgtctacac
     1261 tgctgacagc atcgggcgca agcattctat ggtggcaggg gcagcagata ctcgacaatt
     1321 acacgatcat ccgggagcag aagagcacgc aggccatgct gtccgagagg aacagcggcg
     1381 tgcagctctc gacctgcgga gagcagagac ggcgctgcgt gagggtgaac ccggaagcgg
     1441 gacggttcgg agaggattcg agctggatga tactggcggg gaaatagcac atgacggagc
     1501 tggaaaaaca gttgctgagc gcattagagc agctacagca ggactactcg aaaaggctgg
     1561 acgagtggga gaacgccttc gcggaatggc ggacgatgtt tggtcttatg caacgggaga
     1621 acgcggcgct gagcgagcgc gtcacgggct tgagcaggca ggtgcagagt ttgagcgagc
     1681 agctgcgccg gttgtcacaa ggctgaacgt gatagaggca catcgtgagc aggaacgggc
     1741 ggcgcagcat cagaaagcgc tggagctgga acgatctcag cgacagcgaa cgtacaacgg
     1801 tccgtcactt tgaatctgtg cgccggaaaa gcatgggctt gctgtttctg gcgcacaggt
     1861 tcagttctag aacatgaggc tgctatcttg ttgttcacgc ttcatcagat cttgatgctt
     1921 attgttatgg ctgagctatc aatccctgtt gcgttgctaa tatccttttt ggctctttca
     1981 attgcctcgt taagggagag tttttctgtt ttctcttcag ccagaccagg aatcactgta
     2041 ttaggaaccg atggggatga aggatggaat ttcttccatt ccagttgttc cggtgttacc
     2101 ccaatacgta aaaaagcttc ctgtgcgctc aggtaagcaa ccggatagcg ctgaccatcg
     2161 gttagcattt tccatgcttt tggagtgtga atttctgcgt attcatcaaa ggttatgacg
     2221 ttcctgtcgt cgtaatcagg gcttttaaaa cacccggtaa ttttggcgat caggaatgct
     2281 gtgccgtgtt ccaggtcttt tactgcccac gtttcccttc tgtttcttac tgctatgagg
     2341 taatcggcat cgttgagcct gtctgttctg gcatgccagt agcctgaccc cccctcggtt
     2401 ctcattatgt tcaaatcctt cccggtaaaa accacaacag ctttcatatc tttcatatag
     2461 aaacccttaa taggtgagtc aatttcattt ttttatgaaa tctatacgat agaattcgtg
     2521 ttgtaaatgt tttttatgcg ataaaatgca gccccctacc tcttttattg ttagtgataa
     2581 ggcttcctgt ttgttttttt gataaaccgg ttaaaacagg ggcttggacg aggatataca
     2641 ttgaaagcat gagccattca cgtggctgca tggctatgca gccgcgtgaa atttatcagg
     2701 cgcagaatgc gcggtttagc ggggagttta ctgccggctt taccgggcta acgccgcttt
     2761 cacgctgaac ccgtccggag cggtgcgggc aagggatgtt atggtaaatc tagctgctag
     2821 ggcgattcgc acgtcacatt ttcaggtgtg atatccttat gcgccaagga tgaaaggaca
     2881 aaaaaataat ccataaggat tctttttatc gtctctgctt ttttcttggg ctccttccgc
     2941 ttgtttcctc tctggtacca tatgcggact ctactcaata aggatcgttt tgtgcctgct
     3001 ccaaacaatt acggtgtagc tggttcacct aacagcgcta tagctcaccc tgatgggctt
     3061 gattgctatg gccgtgtccc tgaaattaat tctaaaggtg atgttattcc tgctggcgac
     3121 atcttcttgc gtgttggtag gcatactggc cctaaccggg gctttggtgt tcgccatatc
     3181 tgggctgagc acgagcagga actggttaag ctgggatata cgaccgttaa tgatgtggct
     3241 cgttttgtcc gggatattat tcgtcgtggc gtaccaatat attgcgagtt caacagtaca
     3301 agcggtaaac atcggcctgc agtgctaaag tcgtcggtag gcatcgtaat tcttgagccc
     3361 agagaagcgc ctgaaactga gtcaggttgg atctatgtcg ttgtgactgc gtacacacga
     3421 aggacggcgc acggtacttt ggttggtcat attgaataaa aaaatagggc gctaaaaagc
     3481 gccctttatg aattcgttgg tagtcgcagc atttccttag cacatagggt tcagaaaccg
     3541 acgcttgtcg taactacccg gcagatgacc agccatctga ctgcccggca cagaaggcct
     3601 attactggtt gatgccccct gcgaatgctc ttgcagtaca ataatcataa acatcgtgat
     3661 gtagatttgc aaccaacatt ttggttgcaa cctatatact aatttttttc gataaccctg
     3721 gaatccattg ctgtgtctgg atttcttgaa gctcctggct atagataccc tatatcctaa
     3781 cagttattct gctgtgaata tcagaaatga acacttgaga tcatcagtgg ctcgtcgtag
     3841 tctcttgctc agaaacgaaa aaaccaccct ggcaggtggt tttttcgaag gttagttaat
     3901 cctggcagat tctctaaccg tggtaacagt cttgtgcgag acatgtcacc aaatactgtc
     3961 ctttcagtgt agcctcagtt aggccgccac ttcaagaact ctcgttacat ctctcgcaca
     4021 tcctgcttac cagtggccgt tgccaatggc gattagtcgt gtctatccgg gttggactca
     4081 agacgatagt taccggacaa ggcgcagcgg tcggactgaa cggggggttc gtgcatacag
     4141 tccagcttgg agcgaactgc ctacccggaa ctgagtgtca ggcgtggaat gagataaacg
     4201 cggccataac agcggaatga caccggtaaa ccgaaaggca ggaacaggag agcgcacgag
     4261 ggagccacca gggggaaacg cctggtatct ttaagtcctg tcgggtttcg ccaccactga
     4321 tttgagcgtc agatttcgtg atgcttgtca ggggggcgga gcctatggaa aaacggcagc
     4381 gccgcatcct tttcctgtcc tgcttgccat gccgtatgcc tttgctctta tccgtttgca
     4441 ggtaacgccc gccgcagccg aacgtcagga gcggaagcga ccgagtgagc gaggaggcgt
     4501 catatcaccg taacctccat tttctcctgt acgccctgca gctgcatttt tcccctgcca
     4561 catgaagcac tttcattacg tgttactccg ccgtaacata ttgagccagt atacactccg
     4621 ctagcgctac gtgactggtt cagggctgcg ccccgaaacc tgctaaaacc actgacgcgc
     4681 ctgcggcttg tccaacaccg cgccgaccgg gaaaagattt cccgcccgtc ccggcgttat
     4741 caggagatcg gtttgtcaga gaaacggaac aag
//
