LOCUS       NZ_CP011143             1552 bp    DNA     circular CON 01-JUN-2024
DEFINITION  Escherichia coli VR50 plasmid pVR50I, complete sequence.
ACCESSION   NZ_CP011143
VERSION     NZ_CP011143.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN03371467
            Assembly: GCF_000968515.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli VR50
  ORGANISM  Escherichia coli VR50
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1552)
  AUTHORS   Beatson,S.A., Ben Zakour,N.L., Totsika,M., Forde,B.M., Watts,R.E.,
            Mabbett,A.N., Szubert,J.M., Sarkar,S., Phan,M.D., Peters,K.M.,
            Petty,N.K., Alikhan,N.F., Sullivan,M.J., Gawthorne,J.A.,
            Stanton-Cook,M., Nhu,N.T., Chong,T.M., Yin,W.F., Chan,K.G.,
            Hancock,V., Ussery,D.W., Ulett,G.C. and Schembri,M.A.
  TITLE     Molecular analysis of asymptomatic bacteriuria Escherichia coli
            strain VR50 reveals adaptation to the urinary tract by gene
            acquisition
  JOURNAL   Infect Immun 83 (5), 1749-1764 (2015)
   PUBMED   25667270
REFERENCE   2  (bases 1 to 1552)
  AUTHORS   Forde,B.M., Ben Zakour,N.L. and Beatson,S.A.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-APR-2015) School of Chemistry and Molecular
            Biosciences, University of Queensland, 76 Cooper road, Brisbane, QLD
            4072, Australia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SMRTanalysis v. 2.0.0
            Genome Coverage                   :: 65x
            Sequencing Technology :: Pacific Biosciences SMRT sequencing
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_000968515.1-RS_2024_06_01
            Annotation Date                   :: 06/01/2024 04:12:53
            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)                     :: 5,102
            CDSs (total)                      :: 4,969
            Genes (coding)                    :: 4,733
            CDSs (with protein)               :: 4,733
            Genes (RNA)                       :: 133
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 93
            ncRNAs                            :: 18
            Pseudo Genes (total)              :: 236
            CDSs (without protein)            :: 236
            Pseudo Genes (ambiguous residues) :: 0 of 236
            Pseudo Genes (frameshifted)       :: 82 of 236
            Pseudo Genes (incomplete)         :: 158 of 236
            Pseudo Genes (internal stop)      :: 43 of 236
            Pseudo Genes (multiple problems)  :: 40 of 236
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP011143.1.
            Source DNA is available from Prof Mark Schembri
            (m.schembri@uq.edu.au).
            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..1552
                     /organism="Escherichia coli VR50"
                     /mol_type="genomic DNA"
                     /strain="VR50"
                     /serotype="OR:K1:H-"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:941323"
                     /plasmid="pVR50I"
     gene            391..867
                     /locus_tag="ECVR50_RS26170"
                     /old_locus_tag="ECVR50_I001"
     CDS             391..867
                     /locus_tag="ECVR50_RS26170"
                     /old_locus_tag="ECVR50_I001"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000469298.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_000469298.1"
                     /translation="MFIDSEKRLKQLSDEAKKNTEDLEEAKKNSRFTQVSPKGWERVRE
                     LLKDSQGISALKLYSFLAEHIDPTCGAVVADQQFLAEKLGVSRSTIIRWLNYLESKNAL
                     VRIPVAGKVCAYALDPHEVWKGYNTTKNHAAFVTKTLVNKDGDIQRRIMAMFSN"
                     /name="helix-turn-helix domain-containing protein"
     Typing          complement(204..312)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.95e-50"
     Typing          1461..1546
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="91.954"
                     /coverage="95.0"
                     /evalue="4.39e-26"
     Typing          complement(1098..1358)
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.511"
                     /coverage="100.0"
                     /evalue="3.95e-106"
ORIGIN
        1 gggttaacgg tgaacggacg gcaaaaaacg tgcaggagct gttgaacgtg aaaaccacga
       61 aatctggcaa aaatcacggc tggcgaggct tgcagaggag taagccagta tacactccgc
      121 tatcgctacg tgactgggtc agggcttcgc cccgacaccc ccaaagggcg ttgcgttgcg
      181 cgcaacaccc ttgcctagaa tagatctttt acgccgattt gtaagttgtt gtttttttag
      241 tgtgtttttt gtttacctgt cgcatccagg gtgacacaac gttgtcgcat cctggatgcg
      301 acaacacgca acaaggtgtt gcacagatgt gtcatgatgg cttagatttg aaccaacgtt
      361 agtgcatggg atttttagag ggaaaaaatc atgtttattg attcagaaaa acgactgaaa
      421 caactttcag atgaggcaaa gaaaaacacc gaggatctcg aagaagcaaa gaagaattca
      481 aggtttacac aggtatcccc aaaaggttgg gaacgcgttc gagagctgct gaaggatagc
      541 caaggcatat cagcactgaa gctgtactca tttttagcgg agcatatcga tcctacgtgt
      601 ggcgctgtcg ttgcggatca gcaattccta gctgaaaaac ttggagttag cagaagcaca
      661 attattcgtt ggctcaatta cttagaatca aaaaatgcat tagttagaat ccccgttgct
      721 ggtaaggttt gtgcgtatgc cctcgatcca catgaagtct ggaagggata caacactacg
      781 aaaaaccatg cagcatttgt cactaaaaca ctggtcaaca aagacggtga tattcagcgc
      841 cgaatcatgg ccatgttttc aaattgagcc agcggcaggc ggacaatcag gggctacgtg
      901 ttaacgttct gaccatgatt gtctatcctg cattgctctt ttgccgcctc aaaatccctt
      961 gcgtgttttt gctccccgat ctccagaacg accgagccgc cacggttccg gcagcgcctt
     1021 gagcgcaacc ggaaaccgtc tggggagaac cccagacccc catcgctgta acaccgacgg
     1081 tctacgacca cctaccaacc gagtgactgc ctgtaccgtg caaatgggct ttgcaggggg
     1141 ctggcgcggt tcctggcgac ctgaaagccc ctggctaggg gtatcggcgc gcctgacctc
     1201 ctgaaacgct ctgtaagcgt ttttcgcgcc ttccatgccc tgacgggcat ttaaaccccg
     1261 cctcgtgcgt ctgagagctt ctgagcgcgt ttgaagggct atctgacgac tcatccccga
     1321 aagaacaaca gcggaatcac cgacaacatg cgagaggtgg caccgctcgc cgcagcccca
     1381 gcgaccgaac gttagtgagc gagtgggcga ggaagcggaa gagaaccgga aaccacattg
     1441 agcacgtacg cactgatacg gggtgtcggg gcgaagccct gaccagatgg caaacggaat
     1501 atcgtcgcgg gtgacggtat tacatttgca catcctgtcc cgatttctgc gg
//
