LOCUS       NZ_CP055455             3322 bp    DNA     circular CON 01-MAY-2024
DEFINITION  Klebsiella pneumoniae strain RHBSTW-00574 plasmid pRHBSTW-00574_5,
            complete sequence.
ACCESSION   NZ_CP055455
VERSION     NZ_CP055455.1
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 3322)
  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 3322)
  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
            CP055455.1.
            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..3322
                     /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_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(3015..3322,1..94))
                     /locus_tag="HV239_RS27670"
                     /old_locus_tag="HV239_27675"
     CDS             complement(join(3015..3322,1..94))
                     /locus_tag="HV239_RS27670"
                     /old_locus_tag="HV239_27675"
                     /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="DNA-binding protein"
                     /protein_id="WP_181469689.1"
                     /translation="MARVSISEAARLTGKSRTTLHRFIKTGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSEQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="DNA-binding protein"
     gene            complement(94..285)
                     /locus_tag="HV239_RS27675"
                     /old_locus_tag="HV239_27680"
     CDS             complement(94..285)
                     /locus_tag="HV239_RS27675"
                     /old_locus_tag="HV239_27680"
                     /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_049139654.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEELHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            718..>798
                     /locus_tag="HV239_RS28025"
                     /pseudo=""
     CDS             718..>798
                     /locus_tag="HV239_RS28025"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001333247.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; 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"
     gene            complement(1072..1806)
                     /locus_tag="HV239_RS27680"
                     /old_locus_tag="HV239_27685"
     CDS             complement(1072..1806)
                     /locus_tag="HV239_RS27680"
                     /old_locus_tag="HV239_27685"
                     /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_181469690.1"
                     /translation="MALMVTRRYLLGGEYPSEEFVQASLEKYFFRQGFDIDTGSYIDLI
                     CRDKESRDVVWHIEVKGKTSQPGLDFRTCLGQLVQRMTKDNINYAIAVPRIKQYERLIE
                     ETSILAVSKLNLHWIFVGPDGSVTIKEPDSSTMKNGNGNGNGNGREVSLVNGGFKRFIT
                     GGFMPTCSYGKAPVVFKSSRREMWDWLDDFVISNGVIPSIADIKKEAESRSGKWTLSNV
                     KIEYQFWKIYHLYKGHFFYQSE"
                     /name="hypothetical protein"
     gene            complement(2006..2176)
                     /locus_tag="HV239_RS27685"
                     /old_locus_tag="HV239_27690"
     CDS             complement(2006..2176)
                     /locus_tag="HV239_RS27685"
                     /old_locus_tag="HV239_27690"
                     /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_157771094.1"
                     /translation="MATATNFDAWLDDVDGDYEEVMALYDSVQNVSDMGLYQCVEGGRG
                     DAWVVSSNHHP"
                     /name="hypothetical protein"
     Typing          462..845
                     /name="rep_cluster_2370"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.727"
                     /coverage="89.0"
                     /evalue="2.3e-155"
ORIGIN
        1 aggtggacag gtcacctgtt ttaataaacc tgtgcagtgt tgttctactc ttacccgtca
       61 gtcgggcagc ctcactaata gacactctgg ccatcagtta ccatcctgta atgcatccag
      121 tctcgaggac agtgtacgga aaagatgctc cgcatcatcg tggagttcct cacaaaggtc
      181 ggcctcgaca tcgagatcaa gctcgttaag cttctccagc aggagcagag actgattctg
      241 gatgaattta gccatgttca gcgctgtttt ctgttgtttc gtcataagag gcctcagagc
      301 gtcagtgctc aatgtaggga tgttctcttt tccgcttcct cgctcactca gtcgctacgc
      361 tcctgccgtt cggctgcggc gagcggcagg agcatgcgta taaaagctcg agaaaaccga
      421 gcgatcgcgt gatggggaga aggagaggcc gcacagcggc cgtttttcca taggctccgc
      481 ccccctgaca agcatcacag aaactgacgc tcaaatcagt ggtggcgaaa cccgacagga
      541 ctataaagat atcaggcgtt tccccctgat ggctccctcg tgcgctctcc tgttccgacc
      601 ctgccgctta ccagatacct gtccgccttt ctcccttcgg gaagcgtggc gctttctcat
      661 agctcacgct gttggtatct cagttcggtg taggtcgttc gctccaagct gggctgtgtg
      721 cacgaacccc ccgttcagcc cgaccgctgc gccttatccg gtaactatcg tcttgagtcc
      781 aacccggtaa gacacgacta atcgccattg acaacggcca ctggtagaca ggatgtgcga
      841 gagatgtatc gagagttctt gaagtggtgg cctgactgcg gctacactga aaggacagat
      901 ttggtgacat gtctcgcaca agactgttac cacggttcag aagttcccca acttactgaa
      961 ccttcgaaaa accacctccc caggtggttt tttcgttttc cgagaaagag attacgcttt
     1021 gagcgaatga atctcaagaa gatcatggca tttgatgaac aaatgagtaa gctactcaga
     1081 ttgatagaaa aaatgcccct tatacaagtg atatattttc caaaactgat actctatttt
     1141 aacattagaa agcgtccatt tcccactccg cgattcagcc tcttttttaa tatcagcaat
     1201 acttgggatc accccatttg aaataacaaa atcgtccaac caatcccaca tttctcgccg
     1261 agatgattta aatacaacag gagctttccc atatgagcaa gttggcataa aacctcccgt
     1321 aataaatctt ttaaaccccc cattcacaag agaaacttct cttccattac cattaccatt
     1381 accattacca tttttcatcg tagagctatc aggttcctta attgtcacac tgccatcagg
     1441 cccaacaaat atccagtgta aattcaattt actaacagca agaatgctcg tttcttctat
     1501 taatctttca tactgtttta ttcttggaac agcaatagca taattaatat tatcttttgt
     1561 cattctctgc actaattgtc caagacaagt tcgaaaatcc aaccccggct gtgatgtttt
     1621 tccttttact tcaatatgcc acacaacatc cctagattct ttatcacgac aaataaggtc
     1681 aatataagaa cccgtatcta tatcgaaccc ttgtcgaaaa aaatattttt ctaaagaagc
     1741 ttgaacaaat tcctcggagg gatattcacc acctagtaag taccttctcg tcaccataag
     1801 agccacaacc cctacgcatc ctatttacta taacgtcata ttttaagagt tcccacaagg
     1861 ggaactctct gtacgattac gagtgatcat tcgatatatt tcgttgaaat ccataccatg
     1921 aatcaacatc ttcgccgcca catagccttt ctctaatcaa tttgaggaaa gtatccctag
     1981 ccacagctga tgctagaaaa agagcttatg gatgatgatt agagctcacg acccaagcat
     2041 caccccgacc accctcaaca cactgataca accccatatc acttacattc tgaacggaat
     2101 cataaagagc cataacctcc tcataatcgc catcaacatc atctaaccac gcatcaaaat
     2161 tagtagcagt cgccatgcca atcctccatt ttttagtttt caggagttaa tttacatagt
     2221 gataggggct gttaagcaaa taagttttta ccttttttgc ctcatgctct aaaagtgagc
     2281 aagacaggca tttaccataa cgtcccattg tacgcaccgc taaaacggcc tcagggcgtt
     2341 tctgacggga aaccggtaaa acaggcaaca aaccacccga aaacccgcca gaaaggcgca
     2401 ggctctgttt ttacggcatg catgagtatg cacgcaagtg catagcgcga aaattcacgc
     2461 cattcagcca gggtaagtcc tgtttccggc gtacttccca tccgaaaacg gtgaacgggg
     2521 acgcaattta ttgcgtggcc gtgaagcgtt gccggcgcag ccggaaaacc ggttttcagc
     2581 acgttcagga atccggttcg tcgacggccg gcaatcacgt tatggcaagt caccgaacga
     2641 ctcaccacac gattcaccgg cgactcttca ctagagtcgt acccagagtc gccacgccta
     2701 aaaaacaacc aaacggggag tcgggtcgtt attaactcat tgtttttata gtcctgagtc
     2761 gttaccgact ctatgacgac tcgccgggga ctctatgacg agtcgtcata gagtcggatc
     2821 tatataaatc aaatttaaaa aacgaaattt tacagactta aactactgat attaaataca
     2881 aatccgcaaa attttaattt tgcgtagtgt gtggatattt ttagtggtga ggagcgttca
     2941 gaaatccggc gattttttgg aaggttcagg aactccccgg gatggccgga gaggaaaacg
     3001 gaagcatgac ggggtcagga ttttttccag aatttccacc atggcgccgg ggattcagtt
     3061 aattttgcct ggtgattttc aagaaggagc atggcctgtt tcaggctgtc aatgtgcgaa
     3121 tccttggaca aaagtaaggt attcaggtgt tcaatctcct gtttcagatg acgaatcacc
     3181 tgttcactct ggtcagcaga ggctgtatca cgctgttcgg agacctgtcc agaatggtgt
     3241 tcacccttcg gttgctcaaa gggaccaaag acacgtaaaa gctctgaagt atctaccatt
     3301 tttgcattgc gctcaccact ac
//
