LOCUS       CP134916                3003 bp    DNA     circular BCT 27-SEP-2023
DEFINITION  Escherichia coli strain 3263 plasmid pMB2666_4, complete sequence.
ACCESSION   CP134916
VERSION     CP134916.1
DBLINK      BioProject: PRJNA924946
            BioSample: SAMN32977707
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3003)
  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     Temporal Dynamics of Genetically Heterogeneous Extended-Spectrum
            Cephalosporin Resistant Escherichia coli Bloodstream Infections
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3003)
  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 (14-JUN-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 Method                   :: Flye v. 2.9.2
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 81x
            Sequencing Technology             :: Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 09/21/2023 12:29:30
            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)                     :: 5,124
            CDSs (total)                      :: 5,010
            Genes (coding)                    :: 4,841
            CDSs (with protein)               :: 4,841
            Genes (RNA)                       :: 114
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 169
            CDSs (without protein)            :: 169
            Pseudo Genes (ambiguous residues) :: 0 of 169
            Pseudo Genes (frameshifted)       :: 63 of 169
            Pseudo Genes (incomplete)         :: 116 of 169
            Pseudo Genes (internal stop)      :: 30 of 169
            Pseudo Genes (multiple problems)  :: 37 of 169
            Pseudo Genes (short protein)      :: 4 of 169
            ##Genome-Annotation-Data-END##
            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/
FEATURES             Location/Qualifiers
     source          1..3003
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="3263"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMB2666_4"
                     /geo_loc_name="USA: Houston"
                     /lat_lon="29.7068 N 95.3971 W"
                     /collection_date="2016-09-20"
                     /collected_by="MDACC"
                     /note="genotype: ST457"
     gene            join(2948..3003,1..139)
                     /locus_tag="RNP77_25595"
     CDS             join(2948..3003,1..139)
                     /locus_tag="RNP77_25595"
                     /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="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WNL89284.1"
                     /translation="MNKQQQTALNMAKFIKSQSLTLLEKLDALDADEQATMCEKLHELA
                     EELQNSIQTRFEVENSTEI"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            626..787
                     /locus_tag="RNP77_25600"
     CDS             626..787
                     /locus_tag="RNP77_25600"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001354639.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WNL89285.1"
                     /translation="MHEPPVQPDHCALSGNYRLESNPVRHAKAPLAAAIGNRVSRARFV
                     QMLTEFLK"
                     /name="replication initiation protein"
     gene            988..1665
                     /locus_tag="RNP77_25605"
     CDS             988..1665
                     /locus_tag="RNP77_25605"
                     /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="WNL89286.1"
                     /translation="MENKAVTISTQLAIFIDSTIARPDLLFNSLNSEIGEVIDAMPQTL
                     PLPADAPADIPRVIGTSSFGKFNLNISLNRIDFVENYTPTEEIEKSVTEFKLKCNTLIA
                     TIFQKYGVVRIGLVGNYYIPHKNPSQLIADLYLNENKRNLDEITIRINNRDTFKNIQIN
                     NVINLSQGQVTAQNYNGNAVIVQLDYNSTDNNTPLEEGLTLALFKEKSIAYNSKHVEDV
                     SGL"
                     /name="hypothetical protein"
     gene            1662..2045
                     /locus_tag="RNP77_25610"
     CDS             1662..2045
                     /locus_tag="RNP77_25610"
                     /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="WNL89282.1"
                     /translation="MKFFKPKTDAIEYIRVEPSFSKTSSNINNAKSGSDTNSQPGFILR
                     SQIEEMIKNHRPKTEKEIKAESEGLIRLCSMAFIFLIVLSIFMLIVYFGIKDRELPDFA
                     NNLMALMTTLVGAIGGFIYGTKK"
                     /name="hypothetical protein"
     gene            complement(2353..2676)
                     /gene="mobA"
                     /locus_tag="RNP77_25615"
     CDS             complement(2353..2676)
                     /gene="mobA"
                     /locus_tag="RNP77_25615"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology. GO_process:
                     GO:0006355 - regulation of DNA-templated transcription
                     [Evidence IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WNL89283.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     Typing          complement(2686..2911)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="89.583"
                     /coverage="99.0"
                     /evalue="1.05e-76"
     Typing          169..698
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.413"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          complement(2357..2676)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="1.96e-62"
ORIGIN
        1 cctgacgctg ctcgaaaaac tggacgcact cgatgctgac gagcaggcca ccatgtgtga
       61 gaagctgcac gaactcgcag aagaactcca gaacagcata cagacacgct ttgaagtaga
      121 aaatagcaca gagatataac gctcagggca ggatgccgaa cggcacaaca gagcgtaagg
      181 agaaaatgtc acataaggcg ctcttccgct tcctcgctca ctgactcgct acgctcggtc
      241 gttcgactgc ggcgagcggt gtcagctcac tcaaaggcgg taatacggtt atccacagaa
      301 tcaggggata aagccggaaa gaacatgtga gcaaaaagca aagcaccgga agaagccagc
      361 accgcaggcg tttttccata ggctccgccc ccctgacgag catcacaaaa atcgacgctc
      421 aagtcagagg tggcgaaacc cgacaggact ataaagatac caggcgtttc cccctggaag
      481 ctccctcgtg cgctctcctg ttccgaccct gccgcttacc ggatacctgt ccgcctttct
      541 cccttcggga agcgtggcgc tttctcatag ctcacgctgt aggtatctcg gcccggtgta
      601 ggtcgttcgc tccaagctgg gctgtgtgca cgaacccccc gttcagcccg accactgcgc
      661 cttatccggt aactatcgtc ttgagtccaa cccggtaaga catgcaaaag caccactggc
      721 agcagccatt ggtaaccgag ttagcagagc gagatttgtc cagatgctta cagagttctt
      781 gaagtgatgg cctgactacg gctacactag aaggacagta tttggtatct gcgctctgct
      841 gaagccagtt acccggttag acaatctgcc aggattagct aaccttcgaa aaaccacctg
      901 ccagggtggt tttttcgttt aagatactca caacacgtta atttcgcaat acttcaatta
      961 ataccaatgc aaaataggaa agaaaaaatg gaaaacaagg ccgtcacaat atcaacacag
     1021 ctagcaatat ttattgacag caccatagct agaccagatc ttctctttaa tagcctaaac
     1081 tcagaaattg gcgaagttat agacgcaatg ccacagacgc ttcccctgcc tgcagatgca
     1141 cccgcagata tccctcgcgt tattggcaca tcgtcctttg gcaagttcaa cttaaacata
     1201 tcactaaaca gaatagattt tgtagaaaac tacaccccta ctgaggagat cgaaaaatca
     1261 gtaacggaat tcaaattaaa gtgcaatacg ctaatagcaa caatattcca aaaatatgga
     1321 gtcgtaagaa tcggcctagt tggtaactat tacatcccac ataaaaatcc atctcaacta
     1381 atagctgatc tgtatttaaa cgaaaacaaa agaaatttag atgaaataac aataagaata
     1441 aataaccgcg atacattcaa aaatatacaa ataaacaatg tcatcaattt aagccaagga
     1501 caagtaaccg cacagaacta caatggaaat gcggtgatag ttcaacttga ctacaactca
     1561 accgataata acacaccact tgaagaaggg ttaaccttag ccctatttaa agaaaaatcc
     1621 attgcttata actccaagca tgttgaggat gtgagtggat tatgaaattt ttcaaaccaa
     1681 aaacagatgc gattgaatac attcgtgtag aaccatcatt ctcaaaaaca agtagcaata
     1741 taaataatgc gaaatcagga agtgacacaa actcacagcc tggattcatt ttaagatctc
     1801 aaatagagga aatgataaaa aaccacagac cgaaaacaga aaaagaaata aaggctgaaa
     1861 gcgaaggtct tataaggctt tgctccatgg cctttatatt tttaatagtt ttatcaattt
     1921 ttatgttaat cgtttatttc ggaataaaag atagagaact accagatttt gcaaataacc
     1981 tgatggcact aatgacaaca ttagttggag cgataggtgg ttttatatat ggaacaaaaa
     2041 aataacacag acaaaaacac aaataaaaaa aacaaataac acacaagcac accagcccca
     2101 tacttcgggg cttttacaac cgttacctga caccatttac cataacgtct cattacgcgc
     2161 accgccaaaa cgcgctgaac gcgattctga cgcagacacc gcaaaaagag atgttttccc
     2221 cgggataaac cggaaaaatg cgtcaggatc gctttcagct cactgcatag ctatgcatga
     2281 aagtgaatgg cgatcggttt gggggcttac ggcgttcata ccgtctgttt tcgacagttt
     2341 ctctccggga agctaatctg ccataagcct ggataacagg gcacggtgat actccgtaat
     2401 agcgatcagc acctccgcat actccctgtc cccgacacgc ttgccgtcga taaagagttt
     2461 tttctgcaac gcccccagtc gcataacttc tttcagcacc cggtcatcag tcagtgagtt
     2521 aactttctta ccgagagctg ccgcccgtaa aaaaccagaa acggtcttgc cgcattcagc
     2581 agcccttttt ctgatttcct ggtcttcttc tgccgtcaga cgaacagggc gactgatagc
     2641 ccgcctgcgc gtattacttc cacttcgttt tgtcataaaa catggctccg tatctgacat
     2701 ggggtgtcgg ggcgaagccc tgaccagggt aattgtaata gcgtgcatgt atgcgcggta
     2761 taacaattac acatcctgtc ctgtctgcaa gttcgaatta ccaacaaagc actgctgttt
     2821 tttggcagtg acagtgttgt ctgactgaaa tgtccgtcgg cagaataccg gcggtaagac
     2881 ggtcgaaaag tggtgcgcga tataatcaca cgacgcagat gacagacaga acggagaaag
     2941 cagaaagatg aacaagcagc agcaaaccgc actcaacatg gcaaaattca taaaaagcca
     3001 gag
//
