LOCUS       NZ_CP056312             4184 bp    DNA     circular CON 16-MAY-2024
DEFINITION  Klebsiella pneumoniae strain RHBSTW-00832 plasmid pRHBSTW-00832_6,
            complete sequence.
ACCESSION   NZ_CP056312
VERSION     NZ_CP056312.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148709
            Assembly: GCF_013731735.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4184)
  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 4184)
  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 T3-00832
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 132.73811565286x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_013731735.1-RS_2024_05_16
            Annotation Date                   :: 05/16/2024 03:16:38
            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)                     :: 5,980
            CDSs (total)                      :: 5,854
            Genes (coding)                    :: 5,668
            CDSs (with protein)               :: 5,668
            Genes (RNA)                       :: 126
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 186
            CDSs (without protein)            :: 186
            Pseudo Genes (ambiguous residues) :: 0 of 186
            Pseudo Genes (frameshifted)       :: 73 of 186
            Pseudo Genes (incomplete)         :: 115 of 186
            Pseudo Genes (internal stop)      :: 29 of 186
            Pseudo Genes (multiple problems)  :: 24 of 186
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP056312.1.
            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..4184
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00832"
                     /isolation_source="Freshwater sample from downstream of
                     wastewater treatment plant"
                     /db_xref="taxon:573"
                     /plasmid="pRHBSTW-00832_6"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(3401..4184,1..53))
                     /locus_tag="HV292_RS29590"
                     /old_locus_tag="HV292_29590"
     CDS             complement(join(3401..4184,1..53))
                     /locus_tag="HV292_RS29590"
                     /old_locus_tag="HV292_29590"
                     /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="reverse transcriptase domain-containing protein"
                     /protein_id="WP_064168836.1"
                     /translation="MSYLVKEVDSKDVFFFKKVLRKKNKSRVIYSVDDKSSSIYKDMEK
                     SISKRFICEMSKKENFLIKKVPYAYYPGRSANQNAKAHQPFDFTLSMDIRDHFTSITPK
                     MVDWLLTPRELYLCFIDGSLPQGLSTSPVISNIAMMEVDRAILSELSNVVSNGSEPING
                     FVYRIKNFRYTRYSDDLVVSFNLHEPSMHLHRRIFLYIEALISKTIRQFGFEPNNNKVK
                     MQNEKSGFRVITGVSVSREIIKPTRKTKRKLRSAIHNANIDNAIGLYNWIKLVSRT"
                     /name="reverse transcriptase domain-containing protein"
     gene            complement(50..346)
                     /locus_tag="HV292_RS29595"
                     /old_locus_tag="HV292_29595"
     CDS             complement(50..346)
                     /locus_tag="HV292_RS29595"
                     /old_locus_tag="HV292_29595"
                     /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_071010377.1"
                     /translation="MDRSEFEKLISDLESKLKRAVLRVGLKKIEVQVFLLFPLGESQLG
                     TIHVEAYRRTDILNRKKPQPIYKIKSDCFKDIERGFLKWVIDYKSTIDKVAIK"
                     /name="hypothetical protein"
     gene            complement(1118..1528)
                     /locus_tag="HV292_RS29600"
                     /old_locus_tag="HV292_29600"
     CDS             complement(1118..1528)
                     /locus_tag="HV292_RS29600"
                     /old_locus_tag="HV292_29600"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005229777.1"
                     /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="WP_025714791.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKSIKVID
                     TSELIRVFGSLDGVIDDVKSDAESTGINSVGLHDLQHRIALLEAENDGLKGAVKARDEH
                     IDSLRQAMQLLEHKHEPSSPPHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(1528..1719)
                     /locus_tag="HV292_RS29605"
                     /old_locus_tag="HV292_29605"
     CDS             complement(1528..1719)
                     /locus_tag="HV292_RS29605"
                     /old_locus_tag="HV292_29605"
                     /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="WP_025714792.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSSRLDELLDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(2191..2382)
                     /locus_tag="HV292_RS29610"
                     /old_locus_tag="HV292_29610"
     CDS             complement(2191..2382)
                     /locus_tag="HV292_RS29610"
                     /old_locus_tag="HV292_29610"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041614.1"
                     /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="WP_064168835.1"
                     /translation="MTKQQKTALNMAKFIQDQSLLLLDRLNDLDLDHEADFCEKLHEDA
                     ERLYRSLSARLNEQQDGA"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2802..2945
                     /locus_tag="HV292_RS30210"
     CDS             2802..2945
                     /locus_tag="HV292_RS30210"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001326446.1"
                     /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_074192474.1"
                     /translation="MHEPPVQSDRCAFSGNYHLESNPERHDKTPLAAATGNGFAEQRSV
                     EV"
                     /name="replication initiation protein"
     Typing          2431..2912
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.322"
                     /coverage="92.0"
                     /evalue="4.579999999999999e-168"
ORIGIN
        1 ttcttgaaga aaaacacatc cttagagtca acctccttta ctaaataact catttaatag
       61 ccaccttatc gatagtcgat ttataatcaa tgacccattt caaaaatccc ctttcgatat
      121 ccttgaaaca atcacttttt attttatata ttggctgtgg ttttttacga ttcagtatat
      181 ctgtacgtct atatgcttcg acatgaatag tacctagttg cgattcaccg agtgggaata
      241 gtaggaatac ttgaacttct atttttttca ggccaaccct caggactgcc cgtttcagtt
      301 ttgactccag atctgatatt agtttttcaa attcagatct atccatacgc cctccctaac
      361 ctaaaatcat attgggataa tttaacataa ggtcacattg cgcgcaccgc ctcagaggcc
      421 ctcaggccgt ttctgacggg aaaccggcaa aacaggcaac aaaccacccg aaaacccgcc
      481 agaaacgcgc aggctctgtt tttacggcat gcatgagtat gcgcgcaagt gcatagcgcg
      541 gaaattcacg ccattcagcc ggggtaagtc ctgtttccga tgttcttctt acccgaaaac
      601 ggtgaacggg gacgcaattt attgcgtggc cgtgaagcgt tgccggcgca gccggaaaac
      661 cggttttcag cacgttcagg aatcgggttc gtcgacggcc ggcaatcacg ttatggcaag
      721 acgccggacg actcaccaca cgattcaccg gcgattcgac tcgtgacttg actctagagt
      781 caccacggtc aaaaaaacgc caaagcgacg attcgactct agagtcaagt cgtcataagt
      841 tactgatagt gtggagtgag tcgtcgatga ctctatgacg agtcgtcggt aagtcgtaca
      901 cgaatcaccg acgacttgga ttgaccttac agaaggtaat actgcgtaat ttaataaaac
      961 ctaaccaact gataataagg agttatctgc aaaattttaa ttttgcgtgg tgtgtgggta
     1021 tttttcgtgg tgaggagtgt tcccggatct ggcgattttt gggaaggttc aggaacgccc
     1081 cgggatggcc ggagaggaaa actcaagcat ggcgggatca ggattttttc cagaatttcc
     1141 accacgggga atggggtggt gaagaaggtt cgtgcttgtg ctccagaagc tgcatagcct
     1201 gacgaaggga atcaatatgc tcatctcgag ccttaacagc ccctttaaga ccatcgtttt
     1261 cagcttcaag taaagcgatt ctatgttgta aatcatgtaa accaacgctg ttaatacctg
     1321 tagattctgc gtcacttttt acatcatcga tgacaccatc aagagaacca aacaccctaa
     1381 taagctctga tgtatcaata actttaatac tcttcccgtg ctttacaaca gaggtgtaac
     1441 ttaacttacc actgttaatc atcttgtaaa tagtagggcg actaacctta acaagccgtg
     1501 ctgcttcact aatagacact ctggccatca gttaccatcc agtaattcat ccagtctcga
     1561 ggacagtgta cggaaaagat gctccgcatc atcgtggagt ttctcacaaa ggtcggcctc
     1621 agcatcgaga tcaagctcgt taagcttctc cagcaggagc agagactgat tctggatgaa
     1681 tttagccatg ttcagcgctg ttttctgttg tttcgtcata agggacctca gagcatcagt
     1741 gctcagtgta aaaccggtaa gggggtcgga tgtacgaatg gttcagagaa cggatctgag
     1801 gtaatcctgt agttattttg tagtttatct gtagtcatcg cactaaaaat caggattaag
     1861 tcatcaactt ttgtagtctt cctgtagttt acctgtagtc cggaaaaata atccgttcat
     1921 gcaggcatga acgatacagt gaggaacgct ttttttgtca cgatctaccc ttaacctgcg
     1981 taaatcaccc gccatgattg attatttttc aacctcaaaa tggtcataca cctaacgcag
     2041 ctgcgatttt catcgcaact tcatgaaaaa taaataaaaa agaaaaaata cagggattct
     2101 gggtattacc ggggtaataa tgttaagcgc taacacaatg aaaattaagg cgatgccggt
     2161 attactccgg taatacttag aacggagaca ttacgcaccg tcctgctgct cattcaggcg
     2221 cgctgacagg cttcggtaaa ggcgttccgc atcctcatgg agtttctcgc agaaatcagc
     2281 ctcatgatcc agatccaggt cattaagcct gtccagaaga agcagggact gatcctggat
     2341 gaatttagcc atgttcaggg cagttttctg ttgtttcgtc ataaggggcc tcagagcgtc
     2401 agtgctcagt gtaaaacctg tctcttttcc gcttcctcgc tcactcagtc gctacgctcc
     2461 tgccgttcgg ctgcggcgag cggacggggc acacagacag aagagtcatg cccacaatcc
     2521 ggaagaagaa agggacaagc ggaaaaaagc cacggcgttg ccgtttttcc ataggctccg
     2581 cccccctgac aagcatcaca aaatctgacg ctcaaatcag tggtggcgaa acccgacagg
     2641 actataaaga tcccaggcgt ttccccctgg tagctccctc gtgcgctctc ctgttcctgc
     2701 ctttcggttt accggtgtca ttccgctgtt atggccgcgt ttgtctcatt ccacgcctga
     2761 cactcagttc cgggtaggca gttcgctcca agctggactg tatgcacgaa ccccccgttc
     2821 agtccgaccg ctgcgccttc tccggtaact atcatcttga gtccaacccg gagaggcacg
     2881 acaaaacgcc actggcagca gccactggta acggattcgc agaacaaaga agtgttgaag
     2941 tgtgaggtga agtacagcta cactgtaata actaatttgg tttctgtgct ctgcgaaagc
     3001 cagttacctc ggttcaaaga gcgccaactc ctcgaacctt cgaaaaaacc gcccgccaag
     3061 gcggtttttt cgttttcaga gcaagagatt acgacgagac tgaatgaatc tcaagatttc
     3121 atttagcctg ccacccgatc attcaaagtt ttggcgtagt tctgacccgc tccccgtgat
     3181 ttttacatac ccaccacggg ggcaataagg tttctattgc gttttttcga taaaacccgt
     3241 aggttttaga ggtgattagc tgagaggttc cgctccacaa gagagatata gcgagatgat
     3301 tcgtccgctg aataatccta acatctagta acttagctta cgctaaacca tggcccacag
     3361 ggcaatgtat tgactagaac gtaatcacac gtcgagaaca ttatgttctc gacactaatt
     3421 tgatccagtt atacagcccg atagcattgt ctatgttggc gttatgtatt gctgatctaa
     3481 gttttctttt tgttttcctt gttggcttta tgatttctct tgagacggat acaccagtga
     3541 taactctaaa gccagacttt tcattttgca ttttaacttt attgttattt ggttcaaaac
     3601 caaactgcct tatggtttta cttattaggg cctctatata taaaaatata cgcctatgta
     3661 aatgcataga tggctcgtgc aaattaaagc ttacaactaa atcatcagaa taccttgtgt
     3721 atcggaagtt ttttattctg tatacaaaac cgtttattgg ttcggagccg ttagatacaa
     3781 catttgataa ttcagataat atcgctctat caacctccat catggctata ttagaaatta
     3841 ctgggctagt agagagcccc tgaggtaatg aaccatctat aaaacatagg tataactccc
     3901 ttggggtaag taaccaatct accatcttag gcgttatcga tgtgaagtga tctcggatat
     3961 ccatagataa tgtaaaatcg aatggctgat gagcttttgc gttttgatta gccgaccttc
     4021 ccggatagta ggcatatggt acttttttta tgaggaagtt ttcttttttt gacatctcac
     4081 aaataaatct ttttgatatt gatttttcca tatctttata aatagaagaa gacttgtcgt
     4141 caaccgaata tatcactctt gatttgtttt tcttccttaa aacc
//
