LOCUS       NZ_CP057333             3498 bp    DNA     circular CON 02-APR-2024
DEFINITION  Klebsiella oxytoca strain RHB30-C02 plasmid pRHB30-C02_4, complete
            sequence.
ACCESSION   NZ_CP057333
VERSION     NZ_CP057333.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148287
            Assembly: GCF_013826985.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella oxytoca
  ORGANISM  Klebsiella oxytoca
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3498)
  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 3498)
  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                     :: RH02 T3-C02
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 112.695489957735x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_013826985.1-RS_2024_04_02
            Annotation Date                   :: 04/02/2024 04:33:56
            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)                     :: 5,992
            CDSs (total)                      :: 5,872
            Genes (coding)                    :: 5,778
            CDSs (with protein)               :: 5,778
            Genes (RNA)                       :: 120
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 94
            CDSs (without protein)            :: 94
            Pseudo Genes (ambiguous residues) :: 0 of 94
            Pseudo Genes (frameshifted)       :: 43 of 94
            Pseudo Genes (incomplete)         :: 59 of 94
            Pseudo Genes (internal stop)      :: 17 of 94
            Pseudo Genes (multiple problems)  :: 22 of 94
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP057333.1.
            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..3498
                     /organism="Klebsiella oxytoca"
                     /mol_type="genomic DNA"
                     /strain="RHB30-C02"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:571"
                     /plasmid="pRHB30-C02_4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(3240..3498,1..80)
                     /locus_tag="HVY70_RS29750"
                     /old_locus_tag="HVY70_29755"
     CDS             join(3240..3498,1..80)
                     /locus_tag="HVY70_RS29750"
                     /old_locus_tag="HVY70_29755"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000502641.1"
                     /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_160387705.1"
                     /translation="MAGQPLKRIRSIKIRVSDAELERLREICPKAQLAEWMREQCLGVV
                     QPQRRTPAPTVDPALLRQLAGMGNNLNQIARRVNSGEWGPLDRLRIIAELSAIGRELEE
                     LHHDHQIP"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            61..1515
                     /locus_tag="HVY70_RS30055"
     CDS             61..1515
                     /locus_tag="HVY70_RS30055"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /protein_id="WP_228728451.1"
                     /translation="MIIKFHNRGVGRGSGPVGYLLGRDGNREGATLDRGSPAVIEALID
                     SSPYAKKYTSGVLSFAEADLPRATKDKLMSDFEKALLPGLEGNQYAVLWVEHRDKGRLE
                     LNFVVPNIELQSGKRLQPYFHKADNPRLDAWRTVVNGELKLHDPDDPLNRQAVITPKDL
                     PRGHKEAAQAITDGLLRMAGAGEIQSRDDVRKALQGAGFSVVRETKNSLSIADPDGGRN
                     IRLKGVLYEQDFRHGEGLRAELEAAGQRYREASERRVHEARESYLRGVEIKRGENERRY
                     CRAQPEYGLAVAQNVDLDAGQHRPVLERNERDPLVSGGIDSGAASQSPSLGGEGRQDKA
                     GPVREEVGAPLRADLRFQPGRLGEGYVLGGSEGVLNDGIGAGIVLRVRGFAERIRAAAQ
                     GMAGKLRELGEHVREHQARGREQPGSGETLDVASGRLNAASGRLEQAAGGLDRASQQVA
                     KEREHRLLKVLDRDWERGDRSRGFER"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            1698..2639
                     /locus_tag="HVY70_RS29770"
                     /old_locus_tag="HVY70_29775"
     CDS             1698..2639
                     /locus_tag="HVY70_RS29770"
                     /old_locus_tag="HVY70_29775"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_014293673.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_181694004.1"
                     /translation="MTNRAQLELFRERLPRKPYYSDELTTGLRIADVARALGARYIQPN
                     GPTHRHWIVFDVDHAAATLSWDDVGAPAPNITVTNKANGHAHLIYGLDTPIRTAPDGNA
                     APLRYAAAIEAALREKLGADMGYSGLICKNPLHEHWLVQVWEPRLYDLNWLADYLDLTP
                     YNGRKQLPAYGLGRNCTLFEKTRQWAYKAIRQGWPGYREWLAACVDRASGYNAQFEQPL
                     PANEVRHTAKSIAKWTHQHLSPAGFREEQARRGAKGGKVSKRPTQTGKTKADLLPEVLR
                     LHGLGYSNRDIAEDLGIGSASVSRYLSNISPK"
                     /name="replication initiation protein"
     gene            3040..3258
                     /locus_tag="HVY70_RS29775"
                     /old_locus_tag="HVY70_29780"
     CDS             3040..3258
                     /locus_tag="HVY70_RS29775"
                     /old_locus_tag="HVY70_29780"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005671614.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_160387704.1"
                     /translation="MPTEYDYEITPRTLGLGGGWNLRLLENGEEVGGGVFPLPEYCNFR
                     DEKALQTLLDSLYEDALAEATAWLASR"
                     /name="hypothetical protein"
     Typing          1699..2486
                     /name="rep_cluster_1195"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="82.346"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          62..1512
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.562"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atcggctgcg catcatagcg gagctgtccg ctataggccg cgagctggag gaactgcacc
       61 atgatcatca aattccataa ccgtggggta ggccggggct ccgggcctgt tggctacctg
      121 ttgggccgtg acggcaaccg ggaaggcgca acgctcgatc ggggcagccc tgcggtgatt
      181 gaagccctga ttgattccag tccctacgcc aaaaaataca cctctggcgt cctgtcgttt
      241 gccgaggctg atttacccag ggcgaccaag gacaagctga tgagcgactt tgaaaaggcg
      301 ctcctgcccg gactggaggg caaccagtac gctgttttgt gggtagagca ccgcgacaag
      361 gggcggctgg agctgaattt tgtagtcccg aacatcgaat tgcagagcgg gaagcggctg
      421 caaccctact tccacaaggc cgacaatccg cgcctcgatg cgtggcgaac cgtggtaaac
      481 ggggagctga aattgcacga cccggacgat ccgttaaacc gtcaggccgt tatcacgcca
      541 aaggatttgc cgagggggca caaggaggcc gctcaggcta ttacagacgg gcttttgcgc
      601 atggctgggg caggggagat ccagagccgc gatgatgtgc gcaaagcctt gcagggtgcg
      661 ggtttcagcg tggtacgcga aaccaaaaac agcctgagca ttgccgaccc ggacgggggg
      721 cggaacatcc gactaaaagg ggtgctgtat gagcaagatt ttagacatgg cgaaggactt
      781 cgagcagaac tcgaagcagc aggccaacgc tatcgagaag cgtctgagcg aagagttcac
      841 gaggcacgag aaagctatct ccggggcgtt gaaatcaagc gaggagagaa tgagcgccgc
      901 tattgccgag cacagccaga atatgggctg gctgttgctc aaaacgtgga tctggatgct
      961 ggtcagcatc gtcctgttct tgagcgcaac gagcgggatc ctttggtatc agggggaatt
     1021 gatagcggag cggcaagcca atctccaagc cttggcggag aagggcggca agataaagct
     1081 ggcccggtgc gggaagaagt cggagcacct ttgcgtgcag atctccgatt ccaacccgga
     1141 cgtttggggg aaggatacgt tttgggtggt tccgaagggg tactaaatga cgggattgga
     1201 gcgggaattg ttctgcgcgt tcgaggcttt gcagagcgca tacgagcagc agcacaaggc
     1261 atggcaggaa agctacgcga gcttggcgag catgtacgag agcaccaagc gagaggccga
     1321 gagcagccgg gaagcggcga aacgcttgac gtggcaagtg gacggcttaa cgcagcaagt
     1381 ggacggcttg agcaagcagc tggagggctt gaccgggcta gtcagcaagt tgcaaaagaa
     1441 agggaacaca ggctcctgaa ggtactggat cgagactggg agcgtggaga cagatcgcga
     1501 ggctttgagc gatagcgccc agtaggatca ggacgttttt tggtgtaacg tactgtgcag
     1561 aaaagacaaa ccccgaagct ctgctgatca acttggcgga agactcagag cattcggggc
     1621 cgttcactaa gaacaggaaa agcataccac atggatcaga ccaaacaacc ccagaccgcc
     1681 aataagcgcg gtggattttg accaacagag cacagcttga gctgttccgg gagcgcctgc
     1741 cccggaagcc ttactattcc gacgagctta caacgggcct acggattgcg gatgttgccc
     1801 gcgcccttgg tgcgcgttac atccagccga acgggccaac gcaccgccac tggatcgttt
     1861 ttgacgtaga ccatgccgcc gctacgttat cttgggatga cgtaggcgct ccagccccta
     1921 acattaccgt cacgaacaag gccaacggcc acgcgcatct gatctacgga ctggatacgc
     1981 cgatccgcac tgccccggat ggaaatgcag cccctctgcg gtatgccgcc gccatcgagg
     2041 ccgcgctccg ggagaaatta ggggcggata tgggctactc cgggttgatc tgcaagaacc
     2101 ccctgcatga gcactggctg gtgcaggtat gggagccccg gctctacgat ctgaactggc
     2161 tggccgacta cctcgatttg acgccctaca atggccgcaa acagcttcct gcctacggac
     2221 tggggcgaaa ctgcacccta ttcgagaaaa ctcgccagtg ggcttataaa gcgatccggc
     2281 agggctggcc gggttaccgc gaatggttgg cggcttgtgt tgatcgggca tcaggatata
     2341 acgcccagtt cgagcagccg ctccccgcaa acgaagtccg gcacactgcc aagtccattg
     2401 ccaaatggac gcaccagcac ctaagccccg ccgggttccg agaggagcag gcccggagag
     2461 gtgcgaaggg tggcaaggta tccaagcgcc caacacagac aggcaagact aaagctgatc
     2521 ttctcccgga agttctgcgc cttcatgggt tgggctacag caatcgggac atagccgagg
     2581 atttaggtat tggttcggcc agtgttagcc gctacctttc caacatttcg ccaaagtgat
     2641 ccaataagcc ttatcagata atagccccct ttaggggggt tcctgcgctc ttgtctttta
     2701 gccgtaaaaa atccttttag cgcggatcct tggcgaggtg gacaactgcg cctgtccgtc
     2761 catcgccccc ctgttttttc ggggggtgtg ggcggcagca gttatccacg gagcagctct
     2821 tgcccttgat ctagatctag ggcttgcagt atcccgccca tagttgaata atgtactaag
     2881 caaggctaca cagagccccc tctacctgct tcgcggtctc ggggctctgt ggccttgttc
     2941 aggggtgcta cgcccccccg aaacccccct gtggcccccg ctcgatccgc cccttcggga
     3001 cggtctgcgc ggcggcttct tggctctgga gaatggacga tgcccacgga atacgattac
     3061 gaaatcaccc cccgcactct cgggcttggc gggggctgga atctgcgttt gctggagaac
     3121 ggcgaagagg tcgggggggg tgttttcccc ttgccggaat actgcaattt tcgggatgaa
     3181 aaggcgctcc agacgctact cgatagcctc tatgaggacg ccttagcgga ggccaccgca
     3241 tggctggcca gccgttaaag cgcatccgct ctatcaagat ccgggtttca gatgcggagc
     3301 ttgagcgcct gcgggagatc tgccccaagg cccaactggc ggagtggatg cgggagcaat
     3361 gtctcggcgt tgtgcagccc cagcgccgaa cgccggcgcc taccgtagat ccggcgctct
     3421 tgcggcagtt ggccggaatg ggcaacaacc tgaaccagat cgcccggcgc gtaaattccg
     3481 gggagtgggg gccgttgg
//
