LOCUS       NZ_CP056388             4891 bp    DNA     circular CON 17-MAY-2024
DEFINITION  Klebsiella pneumoniae strain RHBSTW-00610 plasmid pRHBSTW-00610_4,
            complete sequence.
ACCESSION   NZ_CP056388
VERSION     NZ_CP056388.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148664
            Assembly: GCF_013735155.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4891)
  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 4891)
  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                     :: WTP3 T2-00610
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 72.9533752167854x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_013735155.1-RS_2024_05_17
            Annotation Date                   :: 05/17/2024 03:20:16
            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)                     :: 5,516
            CDSs (total)                      :: 5,390
            Genes (coding)                    :: 5,246
            CDSs (with protein)               :: 5,246
            Genes (RNA)                       :: 126
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 144
            CDSs (without protein)            :: 144
            Pseudo Genes (ambiguous residues) :: 0 of 144
            Pseudo Genes (frameshifted)       :: 60 of 144
            Pseudo Genes (incomplete)         :: 80 of 144
            Pseudo Genes (internal stop)      :: 29 of 144
            Pseudo Genes (multiple problems)  :: 22 of 144
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP056388.1.
            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..4891
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00610"
                     /isolation_source="Freshwater sample from downstream of
                     wastewater treatment plant"
                     /db_xref="taxon:573"
                     /plasmid="pRHBSTW-00610_4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(4284..4891,1..691)
                     /gene="mobQ"
                     /locus_tag="HV247_RS27270"
                     /old_locus_tag="HV247_27275"
     CDS             join(4284..4891,1..691)
                     /gene="mobQ"
                     /locus_tag="HV247_RS27270"
                     /old_locus_tag="HV247_27275"
                     /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="MobQ family relaxase"
                     /protein_id="WP_181491527.1"
                     /translation="MAIYYFDVSSVSRNSGKKSASSVAASAYQNRARYTDERTGTTYDY
                     TKKGGLYYSGILAPENAPESLTASPVALWGTVEAIEKRKDARLAKDFKISLLVELTPEQ
                     NKALILDFAQQAFVSKGMIVDLAIHDIDTQPHSHIKTTTRELTAEGFGGKVREWDKMDH
                     IMEWRELWAKVANEHLLKAGHDITISHLTLKEQMKEALEEMDKTTDLEEKIKLASKAIE
                     LNRPAMKTISKKDWGDPKFQEIRKQEQEAKKQILKKAKNFRIKNTRELREIQKELDKKF
                     RPSKIYKSISEAIRNLNNKITDSKLNNILNDKLDKLNETIKSVPDKIKHSVEKRKIKKE
                     NKERERINKEEERIFRETHKMDEFGNIYNKKEDKQYQKKNNELIKQQLASNKEKDEAER
                     QRKKLEDEANRLAEKNNISPNDFKQKKKKGPNI"
                     /name="mobQ"
     gene            complement(719..862)
                     /locus_tag="HV247_RS27275"
                     /old_locus_tag="HV247_27280"
     CDS             complement(719..862)
                     /locus_tag="HV247_RS27275"
                     /old_locus_tag="HV247_27280"
                     /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="WP_159106569.1"
                     /translation="MKKKQKPKKRNRNRKSKFFKLLMASVREAVEISKGNIEPARITIL
                     KK"
                     /name="hypothetical protein"
     gene            complement(862..2307)
                     /locus_tag="HV247_RS27280"
                     /old_locus_tag="HV247_27285"
     CDS             complement(862..2307)
                     /locus_tag="HV247_RS27280"
                     /old_locus_tag="HV247_27285"
                     /inference="COORDINATES: protein motif:HMM:NF013603.4"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_181491528.1"
                     /translation="MFTRTSVFNKNRSVNRPDNLKEFASVNGERITERKKETFNIALSM
                     KSKGEDLQDETLTKRAERSLKCSSFRYIATVNGQAQTLFTHRCKGRHCQECQRIKAYIW
                     QKKTESIFPKLEENYLNAKYLFATFTIKNPKITDLRVVLSVMNKAANRLFKMKKYKDFI
                     LGGIRSTEITRGKSGADECHPHFHFLLMVKGNYGKKYYVNQEDWGKDWGDCLAYECDRV
                     GYPYNPIDYPRGFPIVDVVRAMDKEKKIEITNKNIKNSGEAIINYVLKYSVKGSDILDH
                     KKGKNDDWFFEFDKQIKGCRMITPVGVFKKYLSEIKKDPFDYEIEKAKIEDRLGQGYQV
                     NKAIFKKGDYKLENKKDNEGYLLEALEAKAYNYQQLYLTMYSDYIKFYNDTNKEISKLE
                     DKLFTEYDNMIESKIGRLLLIQEDRKKRINNTIESLKRVGYLKEEKGLYYDEWGSLWAT
                     FEIEKPNIEVVEVNDFADMFEVW"
                     /name="protein rep"
     gene            complement(3187..3510)
                     /locus_tag="HV247_RS27285"
                     /old_locus_tag="HV247_27290"
     CDS             complement(3187..3510)
                     /locus_tag="HV247_RS27285"
                     /old_locus_tag="HV247_27290"
                     /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="conjugal transfer protein TraD"
                     /protein_id="WP_163414186.1"
                     /translation="MTTTTEKKYIKRTPEQRKAYLEAQLNSVNAKLNKQKRKEANAKRR
                     ETDHLKYTFAGDILKVMGCDVREVDLALVLGAVYYATNKNANSKNVELYRKAGLEILKE
                     NKK"
                     /name="conjugal transfer protein TraD"
     gene            complement(3719..4021)
                     /locus_tag="HV247_RS27290"
                     /old_locus_tag="HV247_27295"
     CDS             complement(3719..4021)
                     /locus_tag="HV247_RS27290"
                     /old_locus_tag="HV247_27295"
                     /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="WP_148935522.1"
                     /translation="MSHDFYIERKKDKKKAVFNGYAEGVFYKHFHCEKYNAIWSGSNDG
                     QDVSKKGTENALRKILESEEIKNYPDPDRINEIREFYENVVLKSNDQDKFYVHFL"
                     /name="hypothetical protein"
ORIGIN
        1 aatggacaaa acaaccgacc tggaggaaaa aataaaactt gcttctaagg ctatcgaatt
       61 aaatagacca gcaatgaaaa ctatcagcaa gaaggactgg ggcgatccca aatttcagga
      121 aataagaaaa caggaacagg aggcaaaaaa acaaatatta aaaaaggcta aaaattttag
      181 aattaaaaac accagagaat taagagaaat acaaaaagaa ttagataaaa aatttagacc
      241 gtcaaaaata tataaatcaa tttccgaggc aattagaaat ttaaataata aaatcaccga
      301 ctcaaaatta aataatattc taaatgacaa attagataaa ttaaacgaaa caataaaatc
      361 agttcctgat aaaataaagc attccgtaga gaagagaaaa ataaaaaaag aaaacaagga
      421 aagggaaaga ataaataagg aagaggagag aatatttaga gaaacccaca aaatggatga
      481 atttggaaat atttataata aaaaagaaga taagcaatat caaaagaaaa ataatgagtt
      541 aattaaacaa caattagcca gcaataaaga aaaggacgaa gccgaaagac aaaggaaaaa
      601 attagaggac gaggctaaca gactggctga aaaaaataat atttcaccta atgactttaa
      661 gcaaaagaaa aagaaaggac cgaatatata gggctatata ctacaatata ctatactact
      721 atttttttaa aattgtgatc cttgctggct caatgtttcc tttcgaaatt tcaacggctt
      781 cacgaactga agccattaat aatttaaaaa atttactctt tctattgcga tttctttttt
      841 taggcttctg tttctttttc attaccacac ctcaaacata tcagcaaagt cattaacttc
      901 aacaacttca atattaggtt tttcaatttc gaatgttgcc caaagcgatc cccattcgtc
      961 ataataaagc cctttttctt ctttaagata accgaccctt tttaaacttt caatagtgtt
     1021 attaattcgt tttttcctgt cttcctgaat taataataat cttcctattt tagactcgat
     1081 catattatca tattcggtaa ataacttatc ttctaattta gatatttcct tgttagtgtc
     1141 attgtagaat ttaatataat cactatacat agttaaatat aattgttggt aattataggc
     1201 ttttgcttcc aatgcttcta ataaataacc ctcattatct tttttatttt caagtttata
     1261 atcgcctttt ttaaatatgg ctttattaac ctgatagcct tgtcccaatc tatcctctat
     1321 ttttgctttt tcgatttcat aatcaaacgg atctttttta atttcactta gatatttttt
     1381 aaaaactcca acaggtgtta tcattcgaca gcctttaatc tgcttatcaa attcaaaaaa
     1441 ccaatcgtca ttttttcctt ttttatgatc taaaatatca ctacctttga cggaatattt
     1501 tagaacataa tttataatcg cttcaccaga atttttaata ttcttatttg tgatttcgat
     1561 tttcttttct ttatccatag ctcttacaac gtccacgatt gggaacccac gaggatagtc
     1621 gatagggtta tacggatacc ctaccctatc acactcataa gccaggcaat ccccccaatc
     1681 tttcccccaa tcttcttgat ttacatagta ttttttacca tagtttcctt ttaccataag
     1741 caaaaaatga aaatgggggt ggcattcgtc agccccagat tttcccctgg tgatctccgt
     1801 cgaacggata ccgccaagaa taaaatcttt atattttttc attttaaaaa gcctatttgc
     1861 tgctttattc attactgata aaacaaccct tagatctgtt atttttgggt ttttaatcgt
     1921 aaatgtcgca aatagatatt ttgcatttaa ataattttct tccagttttg gaaaaataga
     1981 ctctgttttt ttctgccaga tataagcctt aattctttgg cattcctgac aatgacgacc
     2041 tttgcaacgg tgagtaaata aggtttgagc ctgtccgtta acagttgcga tataacgaaa
     2101 agaagagcac tttaaagacc tttcagccct tttagttagt gtctcgtctt gtagatcttc
     2161 acctttgctt ttcatagaca aagcaatatt aaaggtctct ttttttcttt ctgttattcg
     2221 ttcaccgttt acactggcaa actcttttag attatccggt ctattgacag acctattttt
     2281 attaaataca cttgtccttg taaacatatt aagaaatacc ccgtattgtt tgataccttc
     2341 gcaagttcaa ctctacgggg ttttttcttt ttgtcaaacc agtcaagcac ttatcagatc
     2401 cccctctaat tttctcccac cggctaaaag tcgataccgt cccatttttt ccgtgttttt
     2461 atgccgttac ggttggaacc gtcccatttt tcacaccaaa aaaacggtgt ttaaaatgtt
     2521 ctgtcccaaa tctgccgttt gtcggatagt gatctaaagg ttccgtccca tttttggggg
     2581 tgttttcggg aggtttctgc agtggtgtcc catttccggg gaattgatta ttttttattc
     2641 taaaattctt tagcaaaaag tgctatttac cccccttaaa aaacaccaaa aaaagggggt
     2701 taaagccagt aatggcgggg cttacagggg aattttagag gctaagtttt gcctccattt
     2761 gtttcttact aaacaagggg aggggtcgcc ttcggcaacc tcaaaccaaa cccccaaaac
     2821 caaaggcaac ccctaccggg gcaagttgta ttatcaaatg tcatttaata caacttaaaa
     2881 ccatttaagg gcggcttatc aggtagaagg ctcactttgt tcaccttcca cctttgccaa
     2941 gtgttgtatt gaccagggag ccgtacaagc acaatgacgg aaccccagag gggacccccc
     3001 gacattctgc ttgacggttc agcactggtg aacggtatca gaaaggacga aaggctaacc
     3061 taagttagcc tctccaatat ccccataaat ggggcaattt gccgttatat atattaaatt
     3121 tgtcaaggaa ttaaataaac ataccgactt atatattaat atattctaat tatattattg
     3181 tcaaacttat tttttatttt cttttaaaat ttccagtcct gcttttctat atagttcaac
     3241 atttttagaa tttgcgtttt tatttgtagc atagtaaaca gcaccaagca ccaaagccag
     3301 atcaacttcc cgaacgtcgc accccataac ttttagaata tcacctgcaa aagtatattt
     3361 taaatgatcc gtttctcttc tcttagcatt agcctctttt cttttctgct tatttagttt
     3421 tgcatttaca ctattaagct gggcttctaa atatgccttt ctttgctcag gagtcctttt
     3481 aatatatttt ttttcagtcg tcgtcgtcat aatatatttc ctcctctaaa tcaaaacccc
     3541 tcttattaca ttcattaatc acataatcta atttatattc caaccttaaa acaagagctt
     3601 ctaagccgtc cgtttttcct ttaagttttt gataattatt aaaaaattca tacaataaac
     3661 ccattataag gacaaacccc agacctaaaa taaaacctat aaaaatcata atctacccct
     3721 acaaaaaatg tacatagaat ttatcttgat cattagattt caagactaca ttttcataaa
     3781 attctctaat ttcattaata cggtcaggat ctgggtaatt cttaatttct tccgactcta
     3841 atattttacg aagtgcattt tcagtacctt ttttagaaac atcttgtccg tcattactac
     3901 cagaccaaat agcattatat ttttcacaat ggaaatgctt ataaaatacc ccctcagcat
     3961 atccattaaa aacagccttc tttttatctt tttttctttc gatataaaaa tcatgcgaca
     4021 taaaaacctc catatatatt tttgtaatta ttaagcatat acctccgtaa tttactttag
     4081 tcaaatttat gttatatcta aaataaggaa aagcattttt gccgttctga aagtttttta
     4141 ttttgagttt acgaaaaaat aaaaattact tgaagccctt ctccgcattg ctaacgcaac
     4201 gccagggttt tttcccgtaa acgggaaaaa agaaaagcaa aaaccaaccc caaaaaaaat
     4261 tagaaaaatg gaggtttaca attatggcta tatattattt tgatgtttcc agtgtgagta
     4321 gaaactcagg caaaaaatcg gcttcgtctg ttgctgcttc cgcataccaa aacagagcca
     4381 ggtacacaga cgaacgaacc ggcacaacct acgattacac caaaaaagga ggcttatact
     4441 actctggcat tttagccccg gagaatgccc ctgagagtct cacagcttca cctgtggcac
     4501 tatggggtac cgtagaggcc attgagaaga ggaaggatgc caggcttgcc aaagacttca
     4561 aaatctccct attggtagaa ctaaccccag aacagaacaa agccttaatt ttagactttg
     4621 cacaacaggc ttttgtctca aagggaatga ttgtagatct ggctatccac gatatagaca
     4681 cccaaccaca tagccatata aaaacaacta ccagagaatt aacggctgag gggttcggtg
     4741 gaaaagttag agaatgggat aaaatggatc atattatgga gtggagggaa ttatgggcaa
     4801 aagtggctaa tgaacattta ttaaaagccg gacacgatat aaccattagc catttaacat
     4861 taaaagaaca aatgaaagaa gcactggagg a
//
