LOCUS       NZ_CP010878             4088 bp    DNA     circular CON 01-JUN-2024
DEFINITION  Escherichia coli strain MNCRE44 plasmid pMNCRE44_2, complete
            sequence.
ACCESSION   NZ_CP010878
VERSION     NZ_CP010878.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN03287565
            Assembly: GCF_000931565.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4088)
  AUTHORS   Hargreaves,M.L., Shaw,K.M., Dobbins,G., Snippes Vagnone,P.M.,
            Harper,J.E., Boxrud,D., Lynfield,R., Aziz,M., Price,L.B.,
            Silverstein,K.A., Danzeisen,J.L., Youmans,B., Case,K., Sreevatsan,S.
            and Johnson,T.J.
  TITLE     Clonal Dissemination of Enterobacter cloacae Harboring blaKPC-3 in
            the Upper Midwestern United States
  JOURNAL   Antimicrob Agents Chemother 59 (12), 7723-7734 (2015)
   PUBMED   26438492
REFERENCE   2  (bases 1 to 4088)
  AUTHORS   Johnson,T.J., Hargreaves,M., Shaw,K., Snippes,P., Lynfield,R.,
            Aziz,M. and Price,L.B.
  TITLE     Complete Genome Sequence of a Carbapenem-Resistant Extraintestinal
            Pathogenic Escherichia coli Strain Belonging to the Sequence Type
            131 H30R Subclade
  JOURNAL   Genome Announc 3 (2), e00272-15 (2015)
   PUBMED   25858844
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 4088)
  AUTHORS   Johnson,T.J., Danzeisen,J.L., Hargreaves,M., Shaw,K. and Snippes,P.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-FEB-2015) Veterinary and Biomedical Sciences,
            University of Minnesota, 1971 Commonwealth Avenue, 205 Veterinary
            Science, Saint Paul, MN 55108, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: CLC Genomics Workbench v. 7; HGAP v. 3
            Genome Coverage                   :: 125x; 100x
            Sequencing Technology             :: Illumina MiSeq 2x300; PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_000931565.1-RS_2024_06_01
            Annotation Date                   :: 06/01/2024 04:01:04
            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)                     :: 5,301
            CDSs (total)                      :: 5,188
            Genes (coding)                    :: 4,938
            CDSs (with protein)               :: 4,938
            Genes (RNA)                       :: 113
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 250
            CDSs (without protein)            :: 250
            Pseudo Genes (ambiguous residues) :: 0 of 250
            Pseudo Genes (frameshifted)       :: 99 of 250
            Pseudo Genes (incomplete)         :: 183 of 250
            Pseudo Genes (internal stop)      :: 39 of 250
            Pseudo Genes (multiple problems)  :: 60 of 250
            Pseudo Genes (short protein)      :: 1 of 250
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP010878.1.
            Source bacteria is available from Timothy Johnson
            (joh04207@umn.edu)
            Annotation modified by submitter.
            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..4088
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="MNCRE44"
                     /isolation_source="sputum"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMNCRE44_2"
                     /geo_loc_name="USA: Minnesota"
                     /lat_lon="46 N 94 W"
                     /collection_date="2012-04"
                     /collected_by="Health care provider"
                     /subtype="ST131 H30R"
     gene            join(1944..4088,1..16)
                     /gene="mobQ"
                     /locus_tag="SY51_RS25315"
                     /old_locus_tag="SY51_25365"
                     /pseudo=""
     CDS             join(1944..4088,1..16)
                     /gene="mobQ"
                     /locus_tag="SY51_RS25315"
                     /old_locus_tag="SY51_25365"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /name="mobQ"
     gene            complement(272..979)
                     /locus_tag="SY51_RS25320"
                     /old_locus_tag="SY51_25370"
     CDS             complement(272..979)
                     /locus_tag="SY51_RS25320"
                     /old_locus_tag="SY51_25370"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001296720.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /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_001296720.1"
                     /translation="MTSNPLIAYKSNALVEASYKLTLQEQRFLLLCISRLNSGTDVASP
                     ELQKTMTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKDDEKREEFRWIQYRA
                     QYARGEGKAQITFSDAVMPYLTQLKGQFTRVVIKNISNLSRSYSIRIYEILQQFRSTGE
                     RIIALDDFKSSLMLDGKYKDFKTLNRDLIKPCVDELNKKSDLAVTVETIKKGRTVVALH
                     FRFKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(1511..1765)
                     /gene="mobC"
                     /locus_tag="SY51_RS25325"
                     /old_locus_tag="SY51_25375"
     CDS             complement(1511..1765)
                     /gene="mobC"
                     /locus_tag="SY51_RS25325"
                     /old_locus_tag="SY51_25375"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091747.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase accessory protein MobC"
                     /protein_id="WP_000091745.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVIVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPGQ"
                     /name="mobC"
     Typing          complement(1767..1943)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          1944..2302
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(273..979)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          1858..4088
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.597"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 cggttggtca cagtgaatgt gaacaatatt ttgttttgtt taacatcgtg ttatgttcgt
       61 cgatgttctt cgatgttcat cgacagggat gaatgcaaga agcacacaca taatgcaagc
      121 atagttttgt ttttccgccc ccgaaaaatg ggggttcttt tttcgctgca ttagagcgct
      181 tttgacgcaa tttttcactt caatagtacc ttcgcactac taacacaaaa aaaacgcagc
      241 agggagcgtt ttaggtgcct taaaatcgat tctagatcgt catcttgatc tgtttgtctt
      301 ccttgaagcg aaaatgcagg gctacaaccg tgcgcccctt tttgatcgtc tcaaccgtta
      361 cagccaggtc gctttttttg ttcagttcgt caacacaggg ttttattaga tccctgttta
      421 acgttttgaa atctttatat ttaccatcaa gcatcagtga tgatttaaaa tcatcgaggg
      481 cgataatacg ttccccagta ctgcggaatt gctggagaat ttcgtatatt cttatgctgt
      541 aacttcttga taaattagaa atatttttaa tgacgactct ggtgaattgc cccttcaact
      601 gtgtcagata aggcattacc gcgtcagaaa aagtgatttg tgctttcccc tctcccctcg
      661 cgtactgtgc ccgatactga atccagcgga actcctcgcg cttctcgtcg tccttgagaa
      721 tgatcgacct gtcccacaaa cgatcgatcg cttcctgtag ctgaacctcg gcatttttcc
      781 gccccatatc agggaatgaa tcaaaatatt ccgcagctgt aatggtcatt gtcttttgca
      841 attcaggtga agctacgtca gtaccggagt taagtcggct tatgcagagc aataagaaac
      901 gctgttcttg taaagttagc ttgtaactgg cctcaaccag cgcattggac ttataggcta
      961 tcagagggtt tgatgtcatt ttaaccacca ggccaaaaat gaggtgaaat aaaaacctat
     1021 cacctttagc attggtgagc aattatattt tcacccccca ttttcctgtg aatattacct
     1081 taaatctcct cacctttacc ttaaattacc tcacccaagc accttaaatt atatcacctt
     1141 taccttaaat catatcacct atagcgttgt aacattttgt tttctataag gaattttggc
     1201 gctaaaacaa gtattaaaaa caagatctta aaaacaagat ctaaaaactt aacgacgagc
     1261 ctgtggataa cttggagtgc tgaaaacaaa aaaccaataa aaacaatgcg ttgcaaaaaa
     1321 gcagaattgc aagttccgaa tacaccccct ccaaccctgt ggaaatccag tattcatgcg
     1381 ggttcagcgc atatcacctc ccgaaaaacc gtgcgtatgt gctcaatcag gcgacggatt
     1441 cacttccgct tcctcgccca ctcgctcgct aacgctcggt cgctgggact gcggcgagcg
     1501 gacgatacaa tcactgtcct ggcagcgctt ccagctcgtt aatcagcggc agtatgcgcg
     1561 tcacatcagc ctgtcgtgtc acctctgcct tcaggaactg gagtaaccag gcacgcaact
     1621 gcacctcctc cggctttctg acctttgcca gcaatgctgc acccacaatg accttctgcg
     1681 ctgtgtccag actcctgctc ttcgccttca ggcgctgtaa tctggcctca gcatcagcaa
     1741 tcttctgttc gagtgttctg ctcatgatgt aactccgtgc gcgatgaaaa atcgcatttt
     1801 agcgcgtcac tggtagttta aaaactgagc tggcataatg cacggaaaat cacgaagtgc
     1861 gcacttatac aatctccact ccgtttcgat tgtgtgcgcc ctgcggggct gaaagaaaac
     1921 cacaaaaagg cattacggca gaaatggcga tttatcatct cagcatgaaa atcatctcca
     1981 gaaacagcgg ctacagcgcc gttgcttctg ctgcctatcg ttccggttca ctgatgcttg
     2041 atgagcgtac cggactgact cacgactaca cccgcaaaag cggtgtggct gaagctgtga
     2101 ttctgactcc cgcgacagcc cctgcctggt gtacgaaccg tgccgaactc tggaatgccg
     2161 ttgagaaggc cgaacgccgg aagaactcac aacttgcgcg ggaaattgaa ctcgccatcc
     2221 cccgcgaact accgcaggat gccgcacggg aaaccgttct cgcctttgtc agagaaaact
     2281 ttgtcagtca gggcatgatt gctgatgtgg cgttccatca catggataaa acaaatcccc
     2341 atgcgcacat catgctgacc acgagagctg tcggacctgc tggattcggt ggaaaggtca
     2401 gggactggaa cgaccggaca catgccgaga cgtggcgtgc atcatgggct gaccatgcga
     2461 acagggcact ggcgaacgcc ggttatcagg aagagataga ccatcgttca tacgagcgac
     2521 aggggcttga gaaaacgcct ggtattcacc tcggaaagtc tgcctgtgcg atggaaacac
     2581 gcggtatcga aacagaacgc ggcgaacaga atcgtctgat taacagactt aacctggaaa
     2641 tacagatttc ccgtaccgaa ctcagaaaca gcgggctgac agagcctgcc cgccgtgtgg
     2701 ctgaccttct gaatatcgtg cttcctgaca acgcaacttc gtacacacta cgtgacatca
     2761 tcgaagcgtt gccgaaggac agtaatgcgg catggaaact caccagtaat gccatgtcga
     2821 tgatggcaga tatgcaggcg acgcgcagac gctgggaaga gctgaacacc gaacgaaagg
     2881 aagcgatgag ccatgctgcc agcctgaaaa aatcatcgcc gttttcgtcc ggtttttccc
     2941 gtattcccct gatgcaatgg gcggcaccgg aataccgtag cgaacaggga aaaatccagt
     3001 cgctgagcca gcaaatggaa aaattgcgac agcattaccg gaaggtggag aaacaggaca
     3061 ttcccgcgag tcagacggca tttgaaaaac agtggcagca gtggggggca tccggccttg
     3121 cagctctcag agtccagttg cttaaacgtg aagaggaatt gcgccggaag gagcaggagg
     3181 atacagaacg tagtcgcgcg gagcgacgag cggaacagct caggaaaaat gacaatgccg
     3241 ttatggattc aggggtactg agcgcagtcg ttacggagta tggcgaggcc cccatgcctg
     3301 gtaacgggga aatgacctgt taccttctgc ttcacaaccg gaacggagaa tacacgctct
     3361 gggggaacga gctggagaaa taccgcacca gaatctttga gcgtgttgat ttaatgcgtg
     3421 acaggagtgg ttatatctgt gaccgaagcg aaatcggtca acatccacca ctgcaacgtg
     3481 tttattcctc tgcgaccttt gagcaacttc tgacgcaggt ttgccagaca tggccgcaat
     3541 atacccgcaa tctccgccag ccgaagacat ggccggagtc tttctgtctt ggagaagacc
     3601 gccagccagc catgccatca ctggcagcaa ggaaggtgga ttttacgcag ggacgtctgc
     3661 tagcgacgct gatgccggta atgagttctg tcgaccggga aacccgccag cttcagcttt
     3721 tgctggtcat gggcgtggat gactctctgg gcggtgttgt ccggcttaat ggtacgctgt
     3781 atcccgcgtt tgccgttccc tcagccgata acagccagct ggtcatcagt gcactgaccg
     3841 ataaggggtt acggtatgca gggtatggtg ttgccgtaaa tcacgatgca gacagccaca
     3901 tatcacctgc gccggaactt atggagtttc atctgaaaac ccgtgaggca ccgctttttg
     3961 ctgccgtcaa cacaccagaa aaacagccgg atcatctgtt ccgctcgctg ggttttaatc
     4021 gtacctggga cgaatggcgg cgcgaggaag atgcacgaac acacgccacc gagaggagac
     4081 atgatcgc
//
