LOCUS       CP056503                3597 bp    DNA     circular BCT 16-MAY-2022
DEFINITION  Klebsiella oxytoca strain RHBSTW-00452 plasmid pRHBSTW-00452_9,
            complete sequence.
ACCESSION   CP056503
VERSION     CP056503.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148619
KEYWORDS    .
SOURCE      Klebsiella oxytoca
  ORGANISM  Klebsiella oxytoca
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3597)
  AUTHORS   AbuOun,M., Jones,H., Stubberfield,E., Gilson,D., Shaw,L.P.,
            Hubbard,A.T.M., Chau,K.K., Sebra,R., Peto,T.E.A., Crook,D.W.,
            Read,D.S., Gweon,H.S., Walker,A.S., Stoesser,N., Smith,R.P.,
            Anjum,M.F. and On Behalf Of The Rehab,Consortium.
  TITLE     A genomic epidemiological study shows that prevalence of
            antimicrobial resistance in Enterobacterales is associated with the
            livestock host, as well as antimicrobial usage
  JOURNAL   Microb Genom 7 (10) (2021)
   PUBMED   34609275
REFERENCE   2  (bases 1 to 3597)
  AUTHORS   Shaw,L.P.
  TITLE     Direct Submission
  JOURNAL   Submitted (12-JUN-2020) Nuffield Department of Medicine, University
            of Oxford, John Radcliffe Hospital, Oxford OX3 9DU, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.7
            Assembly Name                     :: WTP5 T2-00452
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 79.4092762823611x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/18/2020 23:06:18
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 4.11
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 6,549
            CDSs (total)                      :: 6,431
            Genes (coding)                    :: 6,255
            CDSs (with protein)               :: 6,255
            Genes (RNA)                       :: 118
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 176
            CDSs (without protein)            :: 176
            Pseudo Genes (ambiguous residues) :: 0 of 176
            Pseudo Genes (frameshifted)       :: 59 of 176
            Pseudo Genes (incomplete)         :: 109 of 176
            Pseudo Genes (internal stop)      :: 27 of 176
            Pseudo Genes (multiple problems)  :: 18 of 176
            CRISPR Arrays                     :: 2
            ##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..3597
                     /organism="Klebsiella oxytoca"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00452"
                     /isolation_source="Wastewater influent sample"
                     /db_xref="taxon:571"
                     /plasmid="pRHBSTW-00452_9"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(548..949)
                     /locus_tag="HV202_32715"
     CDS             complement(548..949)
                     /locus_tag="HV202_32715"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /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="QLT68528.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPRREHHSGQVSEQSDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(949..1140)
                     /locus_tag="HV202_32720"
     CDS             complement(949..1140)
                     /locus_tag="HV202_32720"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000166328.1"
                     /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="QLT68529.1"
                     /translation="MIKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2017..2508
                     /locus_tag="HV202_32725"
     CDS             2017..2508
                     /locus_tag="HV202_32725"
                     /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="QLT68530.1"
                     /translation="MTIILEEVKISGHPGPIEIFKVTPNSWKVFKCFSRSTPKANFHTD
                     IKSLQTADQRKAKNLFTVLGQKCESGKPLHEMYDKKKLHSALEFSYENRRGEHVTDNVW
                     RIRQENLRLYFIYLHDKRIVLLHLWYKRVDNLSESEEKHLGDLAEAILLQVEAENEKRK
                     "
                     /name="hypothetical protein"
     gene            2492..3088
                     /locus_tag="HV202_32730"
     CDS             2492..3088
                     /locus_tag="HV202_32730"
                     /inference="COORDINATES: protein motif:HMM:NF013540.1"
                     /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="QLT68531.1"
                     /translation="MRKENSNTEIAQEDDFDFFDFSDVDPFFAKRNAVANELLALISHE
                     NISRKQLSENLEWAPSRLSKVLSGEQNLTVKTITAISLSLGYDFSIYFHKIHKKEMVQP
                     WEKTTEIANLSKINIVSGIKNHNINLQIQSKEDVINDLLNGRGKESYLSLSINENIIKN
                     KEIETNSIKRNTLTFSGISSFNTFNVKQKVVNSHG"
                     /name="helix-turn-helix domain-containing protein"
     gene            3081..3377
                     /locus_tag="HV202_32735"
     CDS             3081..3377
                     /locus_tag="HV202_32735"
                     /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="QLT68532.1"
                     /translation="MVKKKDQIVYGDNHKTVYCDHLVRFGFGPVVSKLDFGTISDIDSG
                     NEQVSIQTTIIIPTPNLIDVIPLLNDQSKKPEVRGEIISKLKEMISNLEEEKE"
                     /name="hypothetical protein"
     Typing          1189..1670
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.152"
                     /coverage="92.0"
                     /evalue="0.0"
ORIGIN
        1 ctgtttccgg cgctcttccc atccgaaaac ggtgaacgga gacgcaattt attgcgtggc
       61 cgtgaagcgt tgccggcgca gccggaaaac cggttttcag cacgttcagg aatcgggttc
      121 gtcgacggcc ggcaatcacg ttatggcaag tcgccggacg actcaccaca cgattcaccg
      181 gcgactcttc actagagtcg tacccagagt cgctgcgtct aaaaaacaac caaacgggga
      241 gtcggctcta gagtcgggtc gttattaacc cattgttttt atagtcctga gtcgtcaccg
      301 actctatgac gactcgccgg ggactctatg acgagtcgtc atagagtcgg atctatataa
      361 ataaaattta aaaaacgaaa tttcaggaaa ataaactact gatattaaat acaaatctgc
      421 aaaattttaa ttttgcgtgg ggtgtgggta tttttcgtgg tgaggagcgt tcagagatct
      481 ggcgattttt gggaaggttc aggaactccc cgggatggcc ggagaggaaa actcaagcat
      541 ggcaggatca ggattttttc cagaatttcc accatggcgc cggggattcc gttaattttg
      601 cctggtgatt ttcaagaagg agcatggcct gtttcaggct gtcaatgtgc gaatccttgg
      661 acaaaagtaa ggtattcagg tgttcaatct cctgtttcag atgacgaatc acctgttcac
      721 tctggtcagc agaggctgta tcactctgtt cagatacctg tccagaatgg tgttcacgcc
      781 tcggttgttc aaagggacca aagacacgta aaagctctga agtatctacc atttttgcat
      841 tacgttcacc gctacaggtg gacaggtcac ctgctttaat taacctgtgc agtgttgtcc
      901 tgctcttacc cgtcagtcgg gcagcctcac taatagacac tctggccatc agttaccatc
      961 ctgtaatgca tccagtctcg aggacagtgt acggaaaaga tgctccgcat catcgtggag
     1021 tttctcacaa aggtcagcct ccacatcaag atcaagctcg ttaagcttct ccagcagtag
     1081 cagagactga ttctggatga atttagccat gttcagcgct gttttctgtt gtttaatcat
     1141 aaagggcctc ggagcgtcag tgctcaatgt cagacaggtc tcttttccgc ttcctcgctc
     1201 actcagtcgc tatgctcctg ccgttcggct gcggcgagcg gtcgcaactc acgtataagc
     1261 gcataggacg acagcacgta acgccagaga ggacaaaaaa aggccgcgcc gttgccgttt
     1321 ttccataggc tccgcccccc tgacaagcat cacagaaaac ggacgctcaa atcagtggtg
     1381 gcgaaacccg acaggacttt aaagatacca ggcgtttccc cctggtggct ccctcgtgcg
     1441 ctctcctgtt cctgccattc ggtttaccgg tgtcattccg ctgttatggc cgcgtttatc
     1501 tcattccacg cctgacactc agttccggga aggcagttcg ctccaagctg gactgtatgc
     1561 acgaaccccc cgttcagtcc gaccgctgcg ccttatccgg taactatcgt cttgagtcca
     1621 acccggaaag acatgcaaaa gcgccactgg cagcagccac tggtaactga tttagaggag
     1681 ttagtcttga agtcatgcgc cagttaaggc taaactaaac gaacagtttt ggtgactgtg
     1741 ctcctctaac tagccagtta cctcggttca aagagcgcca actccaagaa ccttttgaaa
     1801 aaaccgcccg ccaaggcggt tttttctttt agagctgata atgctctgtc acaaataaaa
     1861 gatcaaacaa aacttccccg cctccccctg cgagacaaga agtaaaaaaa acatacaaaa
     1921 aagaatcttt cacttactat caataaatta agagcgctct tgttttagat gcagagtgac
     1981 ataccagcaa aaaaaagtta acttataagt taaaaaatga ctatcatact ggaagaagtg
     2041 aaaatttcag ggcaccctgg tcctatagaa atttttaaag taacccctaa ctcatggaag
     2101 gtgttcaagt gtttttcccg ttcaaccccg aaagcaaact ttcatacaga catcaaaagt
     2161 ctacagacag cagaccagag aaaagccaaa aatttgttta cggttttagg tcaaaagtgt
     2221 gagtctggaa aacctttaca tgaaatgtac gacaagaaaa aactccatag cgctttagag
     2281 ttttcttatg aaaacagaag aggtgaacac gtaacggata acgtatggag aataaggcag
     2341 gagaatttaa gattatattt catatactta catgacaaga gaatagtttt gttacactta
     2401 tggtataaac gagtagacaa tctgagtgag tctgaagaaa aacatttagg ggatcttgcg
     2461 gaggctatat tgttacaggt ggaggcagaa aatgagaaaa gaaaatagta atacagaaat
     2521 cgctcaagaa gatgattttg atttctttga tttttctgac gtagatcctt tctttgctaa
     2581 aagaaatgcc gtagctaatg aacttctagc tttaatttca catgaaaata tatcaagaaa
     2641 acaactatct gaaaacctgg aatgggctcc cagtagatta tcaaaagtat tatctggcga
     2701 gcaaaatctg actgtaaaaa ctattacagc aatttcttta tctctaggtt acgatttttc
     2761 tatttacttt cataaaatac acaaaaaaga aatggttcaa ccatgggaaa aaactactga
     2821 aatagctaac ctttcgaaaa taaacattgt aagtgggatt aaaaatcaca atataaattt
     2881 acaaatacaa agtaaagaag atgtaattaa tgatctgtta aatggccgtg gaaaagaaag
     2941 ttatctaagt ctctctatta atgaaaatat cattaaaaac aaagagatag aaacaaatag
     3001 cattaaaaga aatacattaa ctttcagtgg catatccagt ttcaatacat ttaacgtaaa
     3061 acaaaaagtg gtaaatagtc atggttaaga aaaaagacca aatagtatac ggcgacaatc
     3121 acaagactgt ttattgtgat catttagtaa gatttggatt tggcccagtc gtatcgaagt
     3181 tagactttgg aactattagt gatatagatt ctggaaatga acaagtatct atacagacaa
     3241 ccataataat tccaacacca aatttaatag atgtaatacc gctattaaat gatcaatcaa
     3301 aaaaaccaga agtaagagga gagatcatat caaaattaaa agaaatgata tctaatcttg
     3361 aagaagaaaa agagtgatta aatagagtat gaaataaatt taaatatcat ttaccataac
     3421 atccgttatt ggcaccgcta aaacggcctc agggcgtttc tgacgggaaa ccggtaaaac
     3481 aggcaacaaa ccacccgaaa acccgccaga aacgcgcagg ctctgttttt acggcatgca
     3541 tgagtatgca cgcaagtgca tagcgcgaaa attcacgcca ttcagccagg gtaagtc
//
