LOCUS       NZ_CP055457             2988 bp    DNA     circular CON 01-MAY-2024
DEFINITION  Klebsiella pneumoniae strain RHBSTW-00574 plasmid pRHBSTW-00574_7,
            complete sequence.
ACCESSION   NZ_CP055457
VERSION     NZ_CP055457.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148656
            Assembly: GCF_013704985.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 2988)
  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 2988)
  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                     :: WTP1 T2-00574
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 78.5756156162598x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_013704985.1-RS_2024_05_01
            Annotation Date                   :: 05/01/2024 04:39:41
            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)                     :: 5,593
            CDSs (total)                      :: 5,469
            Genes (coding)                    :: 5,311
            CDSs (with protein)               :: 5,311
            Genes (RNA)                       :: 124
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 158
            CDSs (without protein)            :: 158
            Pseudo Genes (ambiguous residues) :: 0 of 158
            Pseudo Genes (frameshifted)       :: 56 of 158
            Pseudo Genes (incomplete)         :: 93 of 158
            Pseudo Genes (internal stop)      :: 30 of 158
            Pseudo Genes (multiple problems)  :: 18 of 158
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP055457.1.
            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..2988
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00574"
                     /isolation_source="Freshwater sample from downstream of
                     wastewater treatment plant"
                     /db_xref="taxon:573"
                     /plasmid="pRHBSTW-00574_7"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            82..948
                     /locus_tag="HV239_RS27710"
                     /old_locus_tag="HV239_27715"
     CDS             82..948
                     /locus_tag="HV239_RS27710"
                     /old_locus_tag="HV239_27715"
                     /inference="COORDINATES: protein motif:HMM:NF021640.4"
                     /GO_function="GO:0050135 - NADP+ nucleosidase activity
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="TIR domain-containing protein"
                     /protein_id="WP_181469692.1"
                     /translation="MSENKEKKRIFIGSSSESKRIADAVYSYFEYKHDTRIWSAVFDAS
                     TVTINEIIKQANENDFAIMILGEDDILSSRGETYSSARDNVILELGIFIGSLGLSNCFI
                     VIPSSSEHKIKIASDLSGVTLLKYNSAKENPSESVLTACGEIERKIATSPKKNTPREVE
                     KEIKINELNDFNNIRHELISNGFELDRARKESEILSSSIRNAFFSIVKPATKHEIDKWI
                     QGAKSNSGFSGDIRHYNIFYTDKEVIVPQLYGADSIGLIVESGTKIYQSGNSHNTIYYM
                     DGFRCNR"
                     /name="TIR domain-containing protein"
     gene            complement(1724..2125)
                     /locus_tag="HV239_RS27715"
                     /old_locus_tag="HV239_27720"
     CDS             complement(1724..2125)
                     /locus_tag="HV239_RS27715"
                     /old_locus_tag="HV239_27720"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /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_181469691.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKSGELSTCSGERNAKMLDTSE
                     LLRVFGPFEQLKGEHHSGQVSEQRDTSSSDQSEQVIRHLKQEIEYLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(2125..2316)
                     /locus_tag="HV239_RS27720"
                     /old_locus_tag="HV239_27725"
     CDS             complement(2125..2316)
                     /locus_tag="HV239_RS27720"
                     /old_locus_tag="HV239_27725"
                     /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_000166328.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2731..2844
                     /locus_tag="HV239_RS28030"
                     /pseudo=""
     CDS             2731..2844
                     /locus_tag="HV239_RS28030"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="internal stop; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /name="replication initiation protein"
     Typing          2365..2844
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="86.066"
                     /coverage="92.0"
                     /evalue="2.21e-141"
ORIGIN
        1 cggttttttc gtttcagagc tgtaagatac gccccaatac cctgaaacgt caatcataga
       61 aaaagaaaga ggatataata agtgagcgaa aataaagaaa aaaaaagaat atttattggt
      121 tcttcatcag aatccaagag aatagcagat gctgtgtact catactttga atacaaacat
      181 gacactagaa tatggagtgc tgtatttgat gcatctactg tgacaataaa tgaaataata
      241 aaacaagcta atgaaaatga ttttgctata atgattcttg gcgaggatga cattttatcc
      301 tcaagaggag aaacttatag ttcagctaga gacaatgtga ttttagagct aggtatattc
      361 attggttcct tgggtttaag caattgcttt atcgttatac catcaagttc agagcacaaa
      421 attaaaatcg cttcagatct atcaggagta acgcttctaa aatacaactc agcaaaagaa
      481 aacccctcag aatctgtact aactgcatgc ggagaaattg aaagaaaaat agctacttca
      541 ccgaaaaaaa atactcctcg agaagtggaa aaagaaataa aaatcaatga gttaaatgat
      601 ttcaataata ttagacacga gctcatttca aatggatttg aattagatcg ggcaagaaag
      661 gaatcagaaa ttttaagtag ctctataaga aatgcatttt tttccatagt aaaacctgcc
      721 actaaacatg aaattgacaa atggattcaa ggtgctaaat ccaattctgg attcagtggt
      781 gacattagac actataatat tttttacact gacaaggaag taattgtccc tcaactatac
      841 ggtgctgact caattggatt gattgttgaa tctggaacga aaatatatca atcaggaaat
      901 agccacaata caatctatta tatggatggt tttagatgta accgttaatt catattaaaa
      961 attggtaact aaagtagacg tattgaattt accataacgt gtcattacgc gcaccgctaa
     1021 aacggcctca gggcgtttct gacgggaaac cggtaaaaca ggcaacaaac cacccgaaaa
     1081 cccgccagaa acgcgcaggc tctgttttta cggcatgcat gagtatgcgc gcaagtgcat
     1141 agcgcggaaa ttgacaccat tcagccaggg gaagtcctgt ttccggcgtt cttcctatcc
     1201 gtaaacggtg aacggggacg caatttattg cgtggccgtg aagcgttgcc ggcgcagccg
     1261 gaaaaccgat tttcaacacg atcagaaatc gggttcgtcg acggccggca atcacgttat
     1321 ggcaagtcgc cggacgactc actacacgat tcaccggcga ttcgactcgt gacttgactc
     1381 tagagtcgtc aaggtcaaaa aaacaccaaa atgacgattc gactctagag tcaagtcgtc
     1441 ataagttact gatagtcttg agtgagtcgt cgatgactct atgacgagtc gtcggcaagt
     1501 cgtacacgaa tcgccgacga cttggattca ccttacagaa agtaatactg cgtaatgtaa
     1561 taacccacaa ctaactgata ttaatgaatt atcttcaaaa ttttaatttt gcgtggggtg
     1621 tgggtatttt tagtggtgag gagcgttcag agatctggcg atttttggga aggttcagga
     1681 actccccggg atggccggag aggaaaagtc aagcatggca ggatcaggat tttttccaga
     1741 atttccacca tggcgccggg gattccgtta attttgcctg gtgattttca agaaggagca
     1801 tggcctgttt caggctgtca atgtgcgaat ccttggacaa aagtaaggtg ttcaggtatt
     1861 caatctcctg tttcagatga cgaatcacct gttcactctg atcagaagaa gatgtatcac
     1921 gctgttcaga gacctgtcct gaatggtgtt cacccttcag ttgttcaaag ggaccaaaga
     1981 cacgtaaaag ctctgaagta tctaacattt ttgcatttcg ttcaccgcta caggtggaca
     2041 gttcacctga tttaattaac ctgtgcagtg ttgttctact cttacccgtc agtcgggcag
     2101 cctcactaat agacactctg gccatcagtt accatcctgt aatgcatcca gtctagagga
     2161 cagtgtacgg aaaagatgct ccgcatcatc gtggagtttc tcacaaaggt cggcctcagc
     2221 atcaagatca agctcgttaa gcttctccag caggagcaga gactgattct ggatgaattt
     2281 agccatgttc agcgctgttt tctgttgttt cgtcataaga ggcctcagag cgtcagtgct
     2341 cagtgtaggg atgttctctt ttccgcttcc tcgctcactc agtcgctacg ctccagccgt
     2401 tcggctgcgg cgagcggcga taactcacgg ggaagggcgt gagacgacaa catagataac
     2461 cggaggcaga agtgaaaaac cgcggacttg ccgttttcca taggctccgc ccccctgaca
     2521 agcatcacaa aatctgacac tcaaatcagt ggtggcgaaa cccgacagga ctataaagat
     2581 accaggcgtt tccccctgat ggctccctcg tgcgctctcc tgttcctgcc attcggttta
     2641 ccggtgtcat tccgctgtta tggccgcgtt tgtctcattc cacgcctgac actcagttcc
     2701 gggtaggcag ttcgctccaa gctggactgt atgcacgaac cccccgttca gtccgactac
     2761 cacgccatgt aaggtaacta gcaacttgag tccaaccctt acagacacga cttatcgcca
     2821 gtggcggtag ccattggtaa ctgatttaga ggaggagagt cttgaagtta tacgccagtt
     2881 aaggataaac taaacgaaca gttttggtta ctgtgctcct ccaagccagt taccttgggt
     2941 tagaaaatct tgcaggatga tctaaccttc gaaaaaaccg ccttcggg
//
